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USC/Norris Comprehensive Cancer Center
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Publications for Norris Cancer Center Members in the Molecular Genetics Program

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Total Number of Publications: 800
Inter Programmatic Publications: 205
Intra Programmatic Publications: 50

1: Li B, Comai L
Functional interaction between Ku and the werner syndrome protein in DNA end processing
J Biol Chem 275: 39800 ()
PM ID: 11112792
2: Shi Y, Roy-Burman P
A novel truncated env gene isolated from a feline leukemia virus-induced thymic lymphosarcoma.
J Virol 74: 1451-6 (2000)
PM ID: 10627556 PMC111480
3: Ason B, Bertram JG, Hingorani MM, Beechem JM, O'Donnell ME, Goodman MF, Bloom LB
A model for Escherichia coli DNA polymerase III holoenzyme assembly at primer/template ends. DNA triggers a change in binding specificity of the gamma complex clamp loader.
J Biol Chem 275: 3006-15 (2000)
PM ID: 10644772
4: Lehman NL, Danenberg PV
Modulation of RTX cytotoxicity by thymidine and dipyridamole in vitro: implications for chemotherapy.
Cancer Chemother Pharmacol 45: 142-8 (2000)
PM ID: 10663629
5: Girardet A, McPeek MS, Leeflang EP, Munier F, Arnheim N, Claustres M, Pellestor F
Meiotic segregation analysis of RB1 alleles in retinoblastoma pedigrees by use of single-sperm typing.
Am J Hum Genet 66: 167-75 (2000)
PM ID: 10631148 PMC1288323
6: Tsao JL, Yatabe Y, Salovaara R, Järvinen HJ, Mecklin JP, Aaltonen LA, Tavaré S, Shibata D
Genetic reconstruction of individual colorectal tumor histories.
Proc Natl Acad Sci U S A 97: 1236-41 (2000)
PM ID: 10655514 PMC15581
7: Dunder U, Kaartinen V, Valtonen P, Väänänen E, Kosma VM, Heisterkamp N, Groffen J, Mononen I
Enzyme replacement therapy in a mouse model of aspartylglycosaminuria.
FASEB J 14: 361-7 (2000)
PM ID: 10657992
8: Ireland AP, Shibata DK, Chandrasoma PT, Lord RV, Peters JH, DeMeester TR
Clinical significance of p53 mutations in adenocarcinoma of the esophagus and cardia.
Ann Surg 231: 179-87 (2000)
PM ID: 10674608 PMC1420984
9: Lien S, Szyda J, Schechinger B, Rappold G, Arnheim N
Evidence for heterogeneity in recombination in the human pseudoautosomal region: high resolution analysis by sperm typing and radiation-hybrid mapping.
Am J Hum Genet 66: 557-66 (2000)
PM ID: 10677316 PMC1288109
10: Wang Y, Einhorn PA, Triche TJ, Seeger RC, Reynolds CP
Expression of protein gene product 9.5 and tyrosine hydroxylase in childhood small round cell tumors.
Clin Cancer Res 6: 551-8 (2000)
PM ID: 10690538
11: Sirotnak FM, Danenberg KD, Chen J, Fritz F, Danenberg PV
Markedly decreased binding of vincristine to tubulin in vinca alkaloid-resistant Chinese hamster cells is associated with selective overexpression of alpha and beta tubulin isoforms.
Biochem Biophys Res Commun 269: 21-4 (2000)
PM ID: 10694470
12: Hoang AT, Huang JF, Rudra-Ganguly N, Zheng J, Powell WC, Rabindran SK, Wu CH, Roy-Burman P
A novel association between the human heat shock transcription factor 1 (HSF1) and prostate adenocarcinoma.
Am J Pathol 156: 857-64 (2000)
PM ID: 10702402 PMC1876857
13: Comai L, Song Y, Tan C, Bui T
Inhibition of RNA polymerase I transcription in differentiated myeloid leukemia cells by inactivation of selectivity factor 1.
Cell Growth Differ 11: 63-70 (2000)
PM ID: 10672904
14: Lin IG, Tomzynski TJ, Ou Q, Hsieh CL
Modulation of DNA binding protein affinity directly affects target site demethylation.
Mol Cell Biol 20: 2343-9 (2000)
PM ID: 10713158 PMC85401
15: Cox MM, Goodman MF, Kreuzer KN, Sherratt DJ, Sandler SJ, Marians KJ
The importance of repairing stalled replication forks.
Nature 404: 37-41 (2000)
PM ID: 10716434
16: Eads CA, Danenberg KD, Kawakami K, Saltz LB, Blake C, Shibata D, Danenberg PV, Laird PW
MethyLight: a high-throughput assay to measure DNA methylation.
Nucleic Acids Res 28: E32 (2000)
PM ID: 10734209 PMC102836
17: Forsburg SL
Themes and variations: the first Salk Institute Cell Cycle Meeting, 18-22 June 1999.
Biochim Biophys Acta 1470: R13-6 (2000)
PM ID: 10656990
18: Bridge JA, Liu JF, Weibolt V, Baker KS, Perry D, Kruger R, Qualman SJ, Barr FG, Sorensen PH, Triche TJ, Suijkerbuijk R
Novel genomic imbalances in embryonal rhabdomyosarcoma revealed by comparative genomic hybridization and fluorescence in situ hybridization: an intergroup rhabdomyosarcoma study.
Genes Chromosomes Cancer 27: 337-44 (2000)
PM ID: 10719362
19: Frank EG, Cheng N, Do CC, Cerritelli ME, Bruck I, Goodman MF, Egelman EH, Woodgate R, Steven AC
Visualization of two binding sites for the Escherichia coli UmuD'(2)C complex (DNA pol V) on RecA-ssDNA filaments.
J Mol Biol 297: 585-97 (2000)
PM ID: 10731413
20: Qin X, Shibata D, Gerson SL
Heterozygous DNA mismatch repair gene PMS2-knockout mice are susceptible to intestinal tumor induction with N-methyl-N-nitrosourea.
Carcinogenesis 21: 833-8 (2000)
PM ID: 10753224
21: Ortega JA, Rowland JH, Monforte HL, Malogolowkin MH, Triche TJ
Presence of well-differentiated rhabdomyoblasts at the end of therapy for pelvic rhabdomyosarcoma: implications for the outcome.
J Pediatr Hematol Oncol 22: 106-11 (2000)
PM ID: 10779022
22: Nguyen TT, Mohrbacher AF, Tsai YC, Groffen J, Heisterkamp N, Nichols PW, Yu MC, Lübbert M, Jones PA
Quantitative measure of c-abl and p15 methylation in chronic myelogenous leukemia: biological implications.
Blood 95: 2990-2 (2000)
PM ID: 10779450
23: Rodger A, Sanders KJ, Hannon MJ, Meistermann I, Parkinson A, Vidler DS, Haworth IS
DNA structure control by polycationic species: polyamine, cobalt ammines, and di-metallo transition metal chelates.
Chirality 12: 221-36 (2000)
PM ID: 10790193
24: Leder GH, Pillasch J, Kornmann M, Danenberg PV, Link KH
Theoretical considerations and in vitro concentration response studies with two human colorectal carcinoma cell lines. The rational experimental base for clinical studies in regional chemotherapy.
Gan To Kagaku Ryoho 27: 565-77 (2000)
PM ID: 10790999
25: Tang MT, Pham P, Shen X, Taylor JS, O'Donnell ME, Woodgate R, Goodman MF
Roles of E. coli DNA polymerases IV and V in lesion-targeted and untargeted SOS mutagenesis.
Nature 404: 1014-8 (2000)
PM ID: 10801133
26: Tracy RB, Hsieh CL, Lieber MR
Stable RNA/DNA hybrids in the mammalian genome: inducible intermediates in immunoglobulin class switch recombination.
Science 288: 1058-61 (2000)
PM ID: 10807577
27: Lord RV, Salonga D, Danenberg KD, Peters JH, DeMeester TR, Park JM, Johansson J, Skinner KA, Chandrasoma PT, DeMeester SR, Bremner CG, Tsai PI, Danenberg PV
Telomerase reverse transcriptase expression is increased early in the Barrett's metaplasia, dysplasia, adenocarcinoma sequence.
J Gastrointest Surg 4: 135-42 (2000)
PM ID: 10675236
28: Chen X, Zhang D, Dennert G, Hung G, Lee AS
Eradication of murine mammary adenocarcinoma through HSVtk expression directed by the glucose-starvation inducible grp78 promoter.
Breast Cancer Res Treat 59: 81-90 (2000)
PM ID: 10752683
29: Goodman MF, Tippin B
Sloppier copier DNA polymerases involved in genome repair.
Curr Opin Genet Dev 10: 162-8 (2000)
PM ID: 10753775
30: Hsieh CL
Dynamics of DNA methylation pattern.
Curr Opin Genet Dev 10: 224-8 (2000)
PM ID: 10753782
31: Goodman MF
Coping with replication 'train wrecks' in Escherichia coli using Pol V, Pol II and RecA proteins.
Trends Biochem Sci 25: 189-95 (2000)
PM ID: 10754553
32: Sarkar PS, Appukuttan B, Han J, Ito Y, Ai C, Tsai WW, Chai Y, Stout JT, Reddy S
Heterozygous loss of Six5 in mice is sufficient to cause ocular cataracts.
Nat Genet 25: 110-4 (2000)
PM ID: 10802668
33: Banerjee D, Gorlick R, Liefshitz A, Danenberg K, Danenberg PC, Danenberg PV, Klimstra D, Jhanwar S, Cordon-Cardo C, Fong Y, Kemeny N, Bertino JR
Levels of E2F-1 expression are higher in lung metastasis of colon cancer as compared with hepatic metastasis and correlate with levels of thymidylate synthase.
Cancer Res 60: 2365-7 (2000)
PM ID: 10811110
34: Chen X, Zuo S, Kelman Z, O'Donnell ME, Hurwitz J, Goodman MF
Fidelity of eucaryotic DNA polymerase delta holoenzyme from Schizosaccharomyces pombe.
J Biol Chem 275: 17677-82 (2000)
PM ID: 10748208
35: Faure E, Heisterkamp N, Groffen J, Kaartinen V
Differential expression of TGF-beta isoforms during postlactational mammary gland involution.
Cell Tissue Res 300: 89-95 (2000)
PM ID: 10805078
36: Hartenstine MJ, Goodman MF, Petruska J
Base stacking and even/odd behavior of hairpin loops in DNA triplet repeat slippage and expansion with DNA polymerase.
J Biol Chem 275: 18382-90 (2000)
PM ID: 10849445
37: Bishop DT, McDonald WH, Gould KL, Forsburg SL
Isolation of an essential Schizosaccharomyces pombe gene, prp31(+), that links splicing and meiosis.
Nucleic Acids Res 28: 2214-20 (2000)
PM ID: 10871341 PMC102626
38: Salonga D, Danenberg KD, Johnson M, Metzger R, Groshen S, Tsao-Wei DD, Lenz HJ, Leichman CG, Leichman L, Diasio RB, Danenberg PV
Colorectal tumors responding to 5-fluorouracil have low gene expression levels of dihydropyrimidine dehydrogenase, thymidylate synthase, and thymidine phosphorylase.
Clin Cancer Res 6: 1322-7 (2000)
PM ID: 10778957
39: Sham YY, Chu ZT, Tao H, Warshel A
Examining methods for calculations of binding free energies: LRA, LIE, PDLD-LRA, and PDLD/S-LRA calculations of ligands binding to an HIV protease.
Proteins 39: 393-407 (2000)
PM ID: 10813821
40: Mehler EL, Warshel A
Comment on "a fast and simple method to calculate protonation states in proteins".
Proteins 40: 1-3 (2000)
PM ID: 10813824
41: Phipps AJ, Chen HM, Hayes KA, Roy-Burman P, Mathes LE
Differential pathogenicity of two feline leukemia virus subgroup A molecular clones, pFRA and pF6A.
J Virol 74: 5796-801 (2000)
PM ID: 10846058 PMC112073
42: Forsburg SL, Hodson JA
Mitotic replication initiation proteins are not required for pre-meiotic S phase.
Nat Genet 25: 263-8 (2000)
PM ID: 10888871
43: Guan T, Kehlenbach RH, Schirmer EC, Kehlenbach A, Fan F, Clurman BE, Arnheim N, Gerace L
Nup50, a nucleoplasmically oriented nucleoporin with a role in nuclear protein export.
Mol Cell Biol 20: 5619-30 (2000)
PM ID: 10891499 PMC86026
44: Morris CM, Haataja L, McDonald M, Gough S, Markie D, Groffen J, Heisterkamp N
The small GTPase RAC3 gene is located within chromosome band 17q25.3 outside and telomeric of a region commonly deleted in breast and ovarian tumours.
Cytogenet Cell Genet 89: 18-23 (2000)
PM ID: 10894930
45: Zhai W, Comai L
Repression of RNA polymerase I transcription by the tumor suppressor p53.
Mol Cell Biol 20: 5930-8 (2000)
PM ID: 10913176 PMC86070
46: Link KH, Kornmann M, Butzer U, Leder G, Sunelaitis E, Pillasch J, Salonga D, Danenberg KD, Danenberg PV, Beger HG
Thymidylate synthase quantitation and in vitro chemosensitivity testing predicts responses and survival of patients with isolated nonresectable liver tumors receiving hepatic arterial infusion chemotherapy.
Cancer 89: 288-96 (2000)
PM ID: 10918158
47: Meng WS, von Grafenstein H, Haworth IS
Water dynamics at the binding interface of four different HLA-A2-peptide complexes.
Int Immunol 12: 949-57 (2000)
PM ID: 10882406
48: Tsao JL, Yatabe Y, Markl ID, Hajyan K, Jones PA, Shibata D
Bladder cancer genotype stability during clinical progression.
Genes Chromosomes Cancer 29: 26-32 (2000)
PM ID: 10918390
49: Glennon TM, Villà J, Warshel A
How does GAP catalyze the GTPase reaction of Ras? A computer simulation study.
Biochemistry 39: 9641-51 (2000)
PM ID: 10933780
50: Bertram JG, Bloom LB, Hingorani MM, Beechem JM, O'Donnell ME, Goodman MF
Molecular mechanism and energetics of clamp assembly in Escherichia coli. The role of ATP hydrolysis when gamma complex loads beta on DNA.
J Biol Chem 275: 28413-20 (2000)
PM ID: 10874049
51: Li B, Comai L
Functional interaction between Ku and the werner syndrome protein in DNA end processing.
J Biol Chem 275: 28349-52 (2000)
PM ID: 10880505
52: Han LL, Keller MP, Navidi W, Chance PF, Arnheim N
Unequal exchange at the Charcot-Marie-Tooth disease type 1A recombination hot-spot is not elevated above the genome average rate.
Hum Mol Genet 9: 1881-9 (2000)
PM ID: 10915777
53: Berul CI, Maguire CT, Gehrmann J, Reddy S
Progressive atrioventricular conduction block in a mouse myotonic dystrophy model.
J Interv Card Electrophysiol 4: 351-8 (2000)
PM ID: 10936001
54: Heisterkamp N, Voncken JW, Senadheera D, Gonzalez-Gomez I, Reichert A, Haataja L, Reinikainen A, Pattengale PK, Groffen J
Reduced oncogenicity of p190 Bcr/Abl F-actin-binding domain mutants.
Blood 96: 2226-32 (2000)
PM ID: 10979970
55: Salloukh HF, Vowles I, Heisterkamp N, Groffen J, Laneuville P
Early events in leukemogenesis in P190Bcr-abl transgenic mice.
Oncogene 19: 4362-74 (2000)
PM ID: 10980612
56: Ghosh SK, Roy-Burman P, Faller DV
Long terminal repeat regions from exogenous but not endogenous feline leukemia viruses transactivate cellular gene expression.
J Virol 74: 9742-8 (2000)
PM ID: 11000248 PMC112408
57: Hacia JG, Edgemon K, Fang NY, Mayer RA, Sudano D, Hunt N, Collins FS
Oligonucleotide microarray based detection of repetitive sequence changes.
Hum Mutat 16: 354-63 (2000)
PM ID: 11013446
58: Eads CA, Lord RV, Kurumboor SK, Wickramasinghe K, Skinner ML, Long TI, Peters JH, DeMeester TR, Danenberg KD, Danenberg PV, Laird PW, Skinner KA
Fields of aberrant CpG island hypermethylation in Barrett's esophagus and associated adenocarcinoma.
Cancer Res 60: 5021-6 (2000)
PM ID: 11016622
59: Villa J, Strajbl M, Glennon TM, Sham YY, Chu ZT, Warshel A
How important are entropic contributions to enzyme catalysis?
Proc Natl Acad Sci U S A 97: 11899-904 (2000)
PM ID: 11050223 PMC17266
60: Yu KJ, Lieber MR
The nicking step in V(D)J recombination is independent of synapsis: implications for the immune repertoire.
Mol Cell Biol 20: 7914-21 (2000)
PM ID: 11027262 PMC86402
61: Snaith HA, Brown GW, Forsburg SL
Schizosaccharomyces pombe Hsk1p is a potential cds1p target required for genome integrity.
Mol Cell Biol 20: 7922-32 (2000)
PM ID: 11027263 PMC86403
62: Phipps AJ, Hayes KA, Al-Dubaib M, Roy-Burman P, Mathes LE
Inhibition of feline leukemia virus subgroup A infection by coinoculation with subgroup B.
Virology 277: 40-7 (2000)
PM ID: 11062034
63: Poltoratsky V, Goodman MF, Scharff MD
Error-prone candidates vie for somatic mutation.
J Exp Med 192: F27-30 (2000)
PM ID: 11085756 PMC2193189
64: Timchenko NA, Cai ZJ, Welm AL, Reddy S, Ashizawa T, Timchenko LT
RNA CUG repeats sequester CUGBP1 and alter protein levels and activity of CUGBP1.
J Biol Chem 276: 7820-6 (2000)
PM ID: 11124939
65: Unger JB, Cruz TB, Rohrbach LA, Ribisl KM, Baezconde-Garbanati L, Chen X, Trinidad DR, Johnson CA
English language use as a risk factor for smoking initiation among Hispanic and Asian American adolescents: evidence for mediation by tobacco-related beliefs and social norms.
Health Psychol 19: 403-10 (2001)
PM ID: 11007148
66: Warshel A, Strajbl M, Villà J, Florián J
Remarkable rate enhancement of orotidine 5'-monophosphate decarboxylase is due to transition-state stabilization rather than to ground-state destabilization.
Biochemistry 39: 14728-38 (2001)
PM ID: 11101287
67: Wu L, Chen PC, Shum CH, Chen CS, Barsky LW, Weinberg KI, Jong A, Triche TJ
MAT1-modulated CAK activity regulates cell cycle G(1) exit.
Mol Cell Biol 21: 260-70 (2001)
PM ID: 11113200 PMC88799
68: Song Z, Powell WC, Kasahara N, van Bokhoven A, Miller GJ, Roy-Burman P
The effect of fibroblast growth factor 8, isoform b, on the biology of prostate carcinoma cells and their interaction with stromal cells.
Cancer Res 60: 6730-6 (2001)
PM ID: 11118059
69: Ren B, Robert F, Wyrick JJ, Aparicio OM, Jennings EG, Simon I, Zeitlinger J, Schreiber J, Hannett N, Kanin E, Volkert TL, Wilson CJ, Bell SP, Young RA
Genome-wide location and function of DNA binding proteins.
Science 290: 2306-9 (2001)
PM ID: 11125145
70: Li B, Comai L
Requirements for the nucleolytic processing of DNA ends by the Werner syndrome protein-Ku70/80 complex.
J Biol Chem 276: 9896-902 (2001)
PM ID: 11152456
71: Mounsey JP, Mistry DJ, Ai CW, Reddy S, Moorman JR
Skeletal muscle sodium channel gating in mice deficient in myotonic dystrophy protein kinase.
Hum Mol Genet 9: 2313-20 (2001)
PM ID: 11001935
72: Shibata D, Aaltonen LA
Genetic predisposition and somatic diversification in tumor development and progression.
Adv Cancer Res 80: 83-114 (2001)
PM ID: 11034541
73: Keshelava N, Zuo JJ, Waidyaratne NS, Triche TJ, Reynolds CP
p53 mutations and loss of p53 function confer multidrug resistance in neuroblastoma.
Med Pediatr Oncol 35: 563-8 (2001)
PM ID: 11107118
74: Pham P, Bertram JG, O'Donnell ME, Woodgate R, Goodman MF
A model for SOS-lesion-targeted mutations in Escherichia coli.
Nature 409: 366-70 (2001)
PM ID: 11201748
75: Brabender J, Lenz HJ, Danenberg PV
[Molecular markers as basis for chemotherapy?]
Chirurg 71: 1433-9 (2001)
PM ID: 11195061
76: Bösze P, Bast RC, Berchuck A, Burke HB, Buller RE, Creasman WT, Dubeau L, Fox H, Geisler HE, Geisler JP, Henson DE, Rustin GJ, Vermorken JB, Wells M, Wilbanks GD
Conseusus statements on prognostic factors in epithelial ovarian carcinoma. Report of the Consensus Meeting organized by the European Society of Gynaecological Oncology, ESGO.
Eur J Gynaecol Oncol 21: 513-26 (2001)
PM ID: 11198047
77: Hemmeryckx B, van Wijk A, Reichert A, Kaartinen V, de Jong R, Pattengale PK, Gonzalez-Gomez I, Groffen J, Heisterkamp N
Crkl enhances leukemogenesis in BCR/ABL P190 transgenic mice.
Cancer Res 61: 1398-405 (2001)
PM ID: 11245441
78: Goodman MF, Tippin B
The expanding polymerase universe.
Nat Rev Mol Cell Biol 1: 101-9 (2001)
PM ID: 11253362
79: Formenti SC, Felix J, Salonga D, Danenberg K, Pike MC, Danenberg P
Expression of metastases-associated genes in cervical cancers resected in the proliferative and secretory phases of the menstrual cycle.
Clin Cancer Res 6: 4653-7 (2001)
PM ID: 11156216
80: Tippin B, Goodman MF
A new class of errant DNA polymerases provides candidates for somatic hypermutation.
Philos Trans R Soc Lond B Biol Sci 356: 47-51 (2001)
PM ID: 11205329 PMC1087690
81: Reichert A, Heisterkamp N, Daley GQ, Groffen J
Treatment of Bcr/Abl-positive acute lymphoblastic leukemia in P190 transgenic mice with the farnesyl transferase inhibitor SCH66336.
Blood 97: 1399-403 (2001)
PM ID: 11222386
82: Frenkiel-Krispin D, Levin-Zaidman S, Shimoni E, Wolf SG, Wachtel EJ, Arad T, Finkel SE, Kolter R, Minsky A
Regulated phase transitions of bacterial chromatin: a non-enzymatic pathway for generic DNA protection.
EMBO J 20: 1184-91 (2001)
PM ID: 11230141 PMC145506
83: Lord RV, Tsai PI, Danenberg KD, Peters JH, DeMeester TR, Tsao-Wei DD, Groshen S, Salonga D, Park JM, Crookes PF, Kiyabu M, Chandrasoma PT, Danenberg PV
Retinoic acid receptor-alpha messenger RNA expression is increased and retinoic acid receptor-gamma expression is decreased in Barrett's intestinal metaplasia, dysplasia, adenocarcinoma sequence.
Surgery 129: 267-76 (2001)
PM ID: 11231454
84: Lu SC, Alvarez L, Huang ZZ, Chen L, An W, Corrales FJ, Avila MA, Kanel G, Mato JM
Methionine adenosyltransferase 1A knockout mice are predisposed to liver injury and exhibit increased expression of genes involved in proliferation.
Proc Natl Acad Sci U S A 98: 5560-5 (2001)
PM ID: 11320206 PMC33252
85: Kawakami K, Brabender J, Lord RV, Groshen S, Greenwald BD, Krasna MJ, Yin J, Fleisher AS, Abraham JM, Beer DG, Sidransky D, Huss HT, DeMeester TR, Eads CA, Laird PW, Ilson DH, Kelsen DP, Harpole DH, Moore MB, Danenberg KD, Danenberg PV, Meltzer SJ
Hypermethylated APC DNA in plasma and prognosis of patients with esophageal adenocarcinoma.
J Natl Cancer Inst 92: 1805-11 (2001)
PM ID: 11078757
86: Chen SA, Tsai MH, Wu FT, Hsiang A, Chen YL, Lei HY, Tzai TS, Leung HW, Jin YT, Hsieh CL, Hwang LH, Lai MD
Induction of antitumor immunity with combination of HER2/neu DNA vaccine and interleukin 2 gene-modified tumor vaccine.
Clin Cancer Res 6: 4381-8 (2001)
PM ID: 11106257
87: Triche TJ, Schofield D, Buckley JD
DNA microarrays in pediatric cancer.
Cancer J 7: 2-15 (2001)
PM ID: 11269644
88: Karanjawala ZE, Shi X, Hsieh CL, Lieber MR
The mammalian FEN-1 locus: structure and conserved sequence features.
Microb Comp Genomics 5: 173-7 (2001)
PM ID: 11252354
89: Heisterkamp N, Voncken JW, Senadheera D, Hemmeryckx B, Gonzalez-Gomez I, Reichert A, Pattengale PK, Groffen J
The Bcr N-terminal oligomerization domain contributes to the full oncogenicity of P190 Bcr/Abl in transgenic mice.
Int J Mol Med 7: 351-7 (2001)
PM ID: 11254872
90: Lin IG, Hsieh CL
Chromosomal DNA demethylation specified by protein binding.
EMBO Rep 2: 108-12 (2001)
PM ID: 11258701 PMC1083819
91: Grem JL, Danenberg KD, Behan K, Parr A, Young L, Danenberg PV, Nguyen D, Drake JA, Monks A, Allegra CJ
Thymidine kinase, thymidylate synthase, and dihydropyrimidine dehydrogenase profiles of cell lines of the National Cancer Institute's Anticancer Drug Screen.
Clin Cancer Res 7: 999-1009 (2001)
PM ID: 11309351
92: Han LL, Lin IG, Hsieh CL
Protein binding protects sites on stable episomes and in the chromosome from de novo methylation.
Mol Cell Biol 21: 3416-24 (2001)
PM ID: 11313467 PMC100263
93: Blake C, Tsao JL, Wu AH, Shibata D
Stepwise deletions of polyA sequences in mismatch repair-deficient colorectal cancers.
Am J Pathol 158: 1867-70 (2001)
PM ID: 11337385 PMC1891934
94: Romero RM, Rojsitthisak P, Haworth IS
DNA interstrand crosslink formation by mechlorethamine at a cytosine-cytosine mismatch pair: kinetics and sequence dependence.
Arch Biochem Biophys 386: 143-53 (2001)
PM ID: 11368336
95: Vilkki S, Tsao JL, Loukola A, Pöyhönen M, Vierimaa O, Herva R, Aaltonen LA, Shibata D
Extensive somatic microsatellite mutations in normal human tissue.
Cancer Res 61: 4541-4 (2001)
PM ID: 11389087
96: Raghavan SC, Kirsch IR, Lieber MR
Analysis of the V(D)J recombination efficiency at lymphoid chromosomal translocation breakpoints.
J Biol Chem 276: 29126-33 (2001)
PM ID: 11390401
97: Vaisman A, Tissier A, Frank EG, Goodman MF, Woodgate R
Human DNA polymerase iota promiscuous mismatch extension.
J Biol Chem 276: 30615-22 (2001)
PM ID: 11402031
98: Hsieh CL, Oakley-Girvan I, Balise RR, Halpern J, Gallagher RP, Wu AH, Kolonel LN, O'Brien LE, Lin IG, Van Den Berg DJ, Teh CZ, West DW, Whittemore AS
A genome screen of families with multiple cases of prostate cancer: evidence of genetic heterogeneity.
Am J Hum Genet 69: 148-58 (2001)
PM ID: 11404817 PMC1226029
99: Poltoratsky V, Woo CJ, Tippin B, Martin A, Goodman MF, Scharff MD
Expression of error-prone polymerases in BL2 cells activated for Ig somatic hypermutation.
Proc Natl Acad Sci U S A 98: 7976-81 (2001)
PM ID: 11427727 PMC35453
100: Wu X, Wu J, Huang JF, Powell WC, Zhang J, Matusik RJ, Sangiorgi FO, Maxson RE, Sucov HM, Roy-Burman P
Generation of a prostate epithelial cell-specific Cre transgenic mouse model for tissue-specific gene ablation.
Mech Dev 101: 61-9 (2001)
PM ID: 11231059
101: Chen X, Li YT, Unger JB, Gong JZ, Johnson CA, Guo Q
Hazard of smoking initiation by age among adolescents in Wuhan, China.
Prev Med 32: 437-45 (2001)
PM ID: 11330994
102: Brabender J, Lord RV, Danenberg KD, Metzger R, Schneider PM, Uetake H, Kawakami K, Park JM, Salonga D, Peters JH, DeMeester TR, Hölscher AH, Danenberg PV
Upregulation of ornithine decarboxylase mRNA expression in Barrett's esophagus and Barrett's-associated adenocarcinoma.
J Gastrointest Surg 5: 174-81; discussion 182 (2001)
PM ID: 11331481
103: Gan Y, Mo Y, Kalns JE, Lu J, Danenberg K, Danenberg P, Wientjes MG, Au JL
Expression of DT-diaphorase and cytochrome P450 reductase correlates with mitomycin C activity in human bladder tumors.
Clin Cancer Res 7: 1313-9 (2001)
PM ID: 11350900
104: Li L, Olvera JM, Yoder KE, Mitchell RS, Butler SL, Lieber MR, Martin SL, Bushman FD
Role of the non-homologous DNA end joining pathway in the early steps of retroviral infection.
EMBO J 20: 3272-81 (2001)
PM ID: 11406603 PMC150207
105: Brabender J, Usadel H, Danenberg KD, Metzger R, Schneider PM, Lord RV, Wickramasinghe K, Lum CE, Park JM, Salonga D, Singer JB, Sidransky D, Hölscher AH, Meltzer SJ, Danenberg PV
Adenomatous polyposis coli gene promoter hypermethylation in non-small cell lung cancer is associated with survival.
Oncogene 20: 3528-32 (2001)
PM ID: 11429699
106: Shibata D
Talking tumours: histories from sequences.
Ann Med 33: 148-52 (2001)
PM ID: 11327118
107: Xiong Z, Wu AH, Bender CM, Tsao JL, Blake C, Shibata D, Jones PA, Yu MC, Ross RK, Laird PW
Mismatch repair deficiency and CpG island hypermethylation in sporadic colon adenocarcinomas.
Cancer Epidemiol Biomarkers Prev 10: 799-803 (2001)
PM ID: 11440966
108: Xu Z, Choi J, Yen TS, Lu W, Strohecker A, Govindarajan S, Chien D, Selby MJ, Ou JJ
Synthesis of a novel hepatitis C virus protein by ribosomal frameshift.
EMBO J 20: 3840-8 (2001)
PM ID: 11447125 PMC125543
109: Pathak S, Choi SK, Arnheim N, Thompson ME
Hydroxylated quantum dots as luminescent probes for in situ hybridization.
J Am Chem Soc 123: 4103-4 (2001)
PM ID: 11457171
110: Pham P, Rangarajan S, Woodgate R, Goodman MF
Roles of DNA polymerases V and II in SOS-induced error-prone and error-free repair in Escherichia coli.
Proc Natl Acad Sci U S A 98: 8350-4 (2001)
PM ID: 11459974 PMC37442
111: Brabender J, Lord RV, Danenberg KD, Metzger R, Schneider PM, Park JM, Salonga D, Groshen S, Tsao-Wei DD, DeMeester TR, Hölscher AH, Danenberg PV
Increased c-myb mRNA expression in Barrett's esophagus and Barrett's-associated adenocarcinoma.
J Surg Res 99: 301-6 (2001)
PM ID: 11469901
112: Markl ID, Cheng JP, Liang G, Shibata D, Laird PW, Jones PA
Global and gene-specific epigenetic patterns in human bladder cancer genomes are relatively stable in vivo and in vitro over time.
Cancer Res 61: 5875-84 (2001)
PM ID: 11479229
113: Mistry DJ, Moorman JR, Reddy S, Mounsey JP
Skeletal muscle Na currents in mice heterozygous for Six5 deficiency.
Physiol Genomics 6: 153-8 (2001)
PM ID: 11526199
114: Blavier L, Lazaryev A, Groffen J, Heisterkamp N, Declerck YA, Kaartinen V
TGF-beta3-induced palatogenesis requires matrix metalloproteinases.
Mol Biol Cell 12: 1457-66 (2001)
PM ID: 11359935 PMC34597
115: Ito Y, Sarkar P, Mi Q, Wu N, Bringas P, Liu Y, Reddy S, Maxson R, Deng C, Chai Y
Overexpression of Smad2 reveals its concerted action with Smad4 in regulating TGF-beta-mediated epidermal homeostasis.
Dev Biol 236: 181-94 (2001)
PM ID: 11456453
116: Matsubara S, Wada Y, Gardner TA, Egawa M, Park MS, Hsieh CL, Zhau HE, Kao CC, Kamidono S, Gillenwater JY, Chung LW
A conditional replication-competent adenoviral vector, Ad-OC-E1a, to cotarget prostate cancer and bone stroma in an experimental model of androgen-independent prostate cancer bone metastasis.
Cancer Res 61: 6012-9 (2001)
PM ID: 11507044
117: Keshelava N, Zuo JJ, Chen PC, Waidyaratne SN, Luna MC, Gomer CJ, Triche TJ, Reynolds CP
Loss of p53 function confers high-level multidrug resistance in neuroblastoma cell lines.
Cancer Res 61: 6185-93 (2001)
PM ID: 11507071
118: Li JZ, Ou JH
Differential regulation of hepatitis B virus gene expression by the Sp1 transcription factor.
J Virol 75: 8400-6 (2001)
PM ID: 11507185 PMC115085
119: Chang Z, Pan J, Logg CR, Kasahara N, Roy-Burman P
A replication-competent feline leukemia virus, subgroup A (FeLV-A), tagged with green fluorescent protein reporter exhibits in vitro biological properties similar to those of the parental FeLV-A.
J Virol 75: 8837-41 (2001)
PM ID: 11507228 PMC115128
120: Ohmori H, Friedberg EC, Fuchs RP, Goodman MF, Hanaoka F, Hinkle D, Kunkel TA, Lawrence CW, Livneh Z, Nohmi T, Prakash L, Prakash S, Todo T, Walker GC, Wang ZZ, Woodgate R
The Y-family of DNA polymerases.
Mol Cell 8: 7-8 (2001)
PM ID: 11515498
121: Forsburg SL
The art and design of genetic screens: yeast.
Nat Rev Genet 2: 659-68 (2001)
PM ID: 11533715
122: Fu CH, Martin-Aragon S, Weinberg KI, Ardi VC, Danenberg PV, Avramis VI
Reversal of cytosine arabinoside (ara-C) resistance by the synergistic combination of 6-thioguanine plus ara-C plus PEG-asparaginase (TGAP) in human leukemia lines lacking or expressing p53 protein.
Cancer Chemother Pharmacol 48: 123-33 (2001)
PM ID: 11561778
123: Brabender J, Danenberg KD, Metzger R, Schneider PM, Park JM, Salonga D, Hölscher AH, Danenberg PV
Epidermal growth factor receptor and HER2-neu mRNA expression in non-small cell lung cancer Is correlated with survival.
Clin Cancer Res 7: 1850-5 (2001)
PM ID: 11448895
124: Schutz CN, Warshel A
What are the dielectric "constants" of proteins and how to validate electrostatic models?
Proteins 44: 400-17 (2001)
PM ID: 11484218
125: Ladanyi M, Chan WC, Triche TJ, Gerald WL
Expression profiling of human tumors: the end of surgical pathology?
J Mol Diagn 3: 92-7 (2001)
PM ID: 11486047 PMC1906955
126: Scalia P, Heart E, Comai L, Vigneri R, Sung CK
Regulation of the Akt/Glycogen synthase kinase-3 axis by insulin-like growth factor-II via activation of the human insulin receptor isoform-A.
J Cell Biochem 82: 610-8 (2001)
PM ID: 11500939
127: Bloom LB, Goodman MF
A sliding clamp monkey wrench.
Nat Struct Biol 8: 829-31 (2001)
PM ID: 11573082
128: Ma Y, Lieber MR
DNA length-dependent cooperative interactions in the binding of Ku to DNA.
Biochemistry 40: 9638-46 (2001)
PM ID: 11583164
129: Unger JB, Yan L, Chen X, Jiang X, Azen S, Qian G, Tan S, Jie G, Sun P, Chunhong L, Chou CP, Zheng HJ, Anderson Johnson C
Adolescent smoking in Wuhan, China: baseline data from the Wuhan Smoking Prevention Trial.
Am J Prev Med 21: 162-9 (2001)
PM ID: 11567835
130: Shackleford GM, Ganguly AK, MacArthur CA
Cloning, expression and nuclear localization of human NPM3, a member of the nucleophosmin/nucleoplasmin family of nuclear chaperones.
BMC Genomics 2: 8 (2001)
PM ID: 11722795 PMC60000
131: Goodman MF
Error-prone repair DNA polymerases in prokaryotes and eukaryotes.
Annu Rev Biochem 71: 17-50 (2001)
PM ID: 12045089
132: Senadheera D, Haataja L, Groffen J, Heisterkamp N
The small GTPase Rac interacts with ubiquitination complex proteins Cullin-1 and CDC23.
Int J Mol Med 8: 127-33 (2001)
PM ID: 11445862
133: Rodriguez M, Dubeau L
Ovarian tumor development: insights from ovarian embryogenesis.
Eur J Gynaecol Oncol 22: 175-83 (2001)
PM ID: 11501768
134: Wu AH, Shibata D, Yu MC, Lai MY, Ross RK
Dietary heterocyclic amines and microsatellite instability in colon adenocarcinomas.
Carcinogenesis 22: 1681-4 (2001)
PM ID: 11577009
135: Finkel SE, Kolter R
DNA as a nutrient: novel role for bacterial competence gene homologs.
J Bacteriol 183: 6288-93 (2001)
PM ID: 11591672 PMC100116
136: Hacia JG
Genome of the apes.
Trends Genet 17: 637-45 (2001)
PM ID: 11672864
137: Kaartinen V, Gonzalez-Gomez I, Voncken JW, Haataja L, Faure E, Nagy A, Groffen J, Heisterkamp N
Abnormal function of astroglia lacking Abr and Bcr RacGAPs.
Development 128: 4217-27 (2001)
PM ID: 11684658
138: Silvian LF, Toth EA, Pham P, Goodman MF, Ellenberger T
Crystal structure of a DinB family error-prone DNA polymerase from Sulfolobus solfataricus.
Nat Struct Biol 8: 984-9 (2001)
PM ID: 11685247
139: London SJ, Xia J, Lehman TA, Yang JH, Granada E, Chunhong L, Dubeau L, Li T, David-Beabes GL, Li YT
Collection of buccal cell DNA in seventh-grade children using water and a toothbrush.
Cancer Epidemiol Biomarkers Prev 10: 1227-30 (2001)
PM ID: 11700274
140: Boackle SA, Holers VM, Chen X, Szakonyi G, Karp DR, Wakeland EK, Morel L
Cr2, a candidate gene in the murine Sle1c lupus susceptibility locus, encodes a dysfunctional protein.
Immunity 15: 775-85 (2001)
PM ID: 11728339
141: Shirota Y, Stoehlmacher J, Brabender J, Xiong YP, Uetake H, Danenberg KD, Groshen S, Tsao-Wei DD, Danenberg PV, Lenz HJ
ERCC1 and thymidylate synthase mRNA levels predict survival for colorectal cancer patients receiving combination oxaliplatin and fluorouracil chemotherapy.
J Clin Oncol 19: 4298-304 (2001)
PM ID: 11731512
142: Wang ZZ, Lazarov E, O'Donnell ME, Goodman MF
Resolving a fidelity paradox: why Escherichia coli DNA polymerase II makes more base substitution errors in AT- compared with GC-rich DNA.
J Biol Chem 277: 4446-54 (2001)
PM ID: 11733526
143: Kato H, Tjernberg A, Zhang W, Krutchinsky AN, An W, Takeuchi T, Ohtsuki Y, Sugano S, de Bruijn DR, Chait BT, Roeder RG
SYT associates with human SNF/SWI complexes and the C-terminal region of its fusion partner SSX1 targets histones.
J Biol Chem 277: 5498-505 (2001)
PM ID: 11734557
144: Shen X, Sayer JM, Kroth H, Ponten I, O'Donnell ME, Woodgate R, Jerina DM, Goodman MF
Efficiency and accuracy of SOS-induced DNA polymerases replicating benzo[a]pyrene-7,8-diol 9,10-epoxide A and G adducts.
J Biol Chem 277: 5265-74 (2001)
PM ID: 11734560
145: Yu KJ, Taghva A, Lieber MR
The cleavage efficiency of the human immunoglobulin heavy chain VH elements by the RAG complex: implications for the immune repertoire.
J Biol Chem 277: 5040-6 (2001)
PM ID: 11739391
146: Haataja L, Kaartinen V, Groffen J, Heisterkamp N
The small GTPase Rac3 interacts with the integrin-binding protein CIB and promotes integrin alpha(IIb)beta(3)-mediated adhesion and spreading.
J Biol Chem 277: 8321-8 (2001)
PM ID: 11756406
147: Liang DT, Forsburg SL
Characterization of Schizosaccharomyces pombe mcm7(+) and cdc23(+) (MCM10) and interactions with replication checkpoints.
Genetics 159: 471-86 (2002)
PM ID: 11606526 PMC1461838
148: Rojsitthisak P, Romero RM, Haworth IS
Extrahelical cytosine bases in DNA duplexes containing d[GCC](n).d[GCC](n) repeats: detection by a mechlorethamine crosslinking reaction.
Nucleic Acids Res 29: 4716-23 (2002)
PM ID: 11713322 PMC92524
149: Wyrick JJ, Aparicio JG, Chen T, Barnett JD, Jennings EG, Young RA, Bell SP, Aparicio OM
Genome-wide distribution of ORC and MCM proteins in S. cerevisiae: high-resolution mapping of replication origins.
Science 294: 2357-60 (2002)
PM ID: 11743203
150: Gadd M, Pisc C, Branda J, Ionescu-Tiba V, Nikolic Z, Yang CC, Wang T, Shackleford GM, Cardiff RD, Schmidt EV
Regulation of cyclin D1 and p16(INK4A) is critical for growth arrest during mammary involution.
Cancer Res 61: 8811-9 (2002)
PM ID: 11751403
151: Ma Y, Lieber MR
Binding of inositol hexakisphosphate (IP6) to Ku but not to DNA-PKcs.
J Biol Chem 277: 10756-9 (2002)
PM ID: 11821378
152: Pasion SG, Forsburg SL
Deconstructing a conserved protein family: the role of MCM proteins in eukaryotic DNA replication.
Genet Eng (N Y) 23: 129-55 (2002)
PM ID: 11570101
153: Lin IG, Han LL, Taghva A, O'Brien LE, Hsieh CL
Murine de novo methyltransferase Dnmt3a demonstrates strand asymmetry and site preference in the methylation of DNA in vitro.
Mol Cell Biol 22: 704-23 (2002)
PM ID: 11784849 PMC133553
154: Taghva A, Ma Y, Lieber MR
Analysis of the kinetic and equilibrium binding of Ku protein to DNA.
J Theor Biol 214: 85-97 (2002)
PM ID: 11786034
155: Usadel H, Brabender J, Danenberg KD, Jerónimo C, Harden S, Engles J, Danenberg PV, Yang S, Sidransky D
Quantitative adenomatous polyposis coli promoter methylation analysis in tumor tissue, serum, and plasma DNA of patients with lung cancer.
Cancer Res 62: 371-5 (2002)
PM ID: 11809682
156: Huang HK, Forsburg SL, John UP, O'Connell MJ, Hunter T
Isolation and characterization of the Pin1/Ess1p homologue in Schizosaccharomyces pombe.
J Cell Sci 114: 3779-88 (2002)
PM ID: 11707530
157: Kawakami K, Salonga D, Park JM, Danenberg KD, Uetake H, Brabender J, Omura K, Watanabe G, Danenberg PV
Different lengths of a polymorphic repeat sequence in the thymidylate synthase gene affect translational efficiency but not its gene expression.
Clin Cancer Res 7: 4096-101 (2002)
PM ID: 11751507
158: Xu Z, Yen TS, Wu L, Madden CR, Tan W, Slagle BL, Ou JH
Enhancement of hepatitis B virus replication by its X protein in transgenic mice.
J Virol 76: 2579-84 (2002)
PM ID: 11836439 PMC153824
159: Laiho P, Launonen V, Lahermo P, Esteller M, Guo M, Herman JG, Mecklin JP, Järvinen HJ, Sistonen P, Kim KM, Shibata D, Houlston RS, Aaltonen LA
Low-level microsatellite instability in most colorectal carcinomas.
Cancer Res 62: 1166-70 (2002)
PM ID: 11861399
160: Chen X, Shen B, Xia L, Khaletzkiy A, Chu D, Wong JY, Li JJ
Activation of nuclear factor kappaB in radioresistance of TP53-inactive human keratinocytes.
Cancer Res 62: 1213-21 (2002)
PM ID: 11861406
161: Formenti SC, Spicer D, Skinner KA, Cohen D, Groshen S, Bettini AC, Naritoku WY, Press MF, Salonga D, Tsao-Wei DD, Danenberg K, Danenberg P
Low HER2/neu gene expression is associated with pathological response to concurrent paclitaxel and radiation therapy in locally advanced breast cancer.
Int J Radiat Oncol Biol Phys 52: 397-405 (2002)
PM ID: 11872285
162: Huang SH, Triche TJ, Jong AY
Infectomics: genomics and proteomics of microbial infections.
Funct Integr Genomics 1: 331-44 (2002)
PM ID: 11957108
163: Hsieh CL, Chung LW
New prospectives of prostate cancer gene therapy: molecular targets and animal models.
Crit Rev Eukaryot Gene Expr 11: 77-120 (2002)
PM ID: 11693967
164: Yu J, Dubeau L
Telomerase and malignant transformation.
Cancer Treat Res 107: 213-28 (2002)
PM ID: 11775451
165: Warshel A, Florián J, Strajbl M, Villà J
Circe effect versus enzyme preorganization: what can be learned from the structure of the most proficient enzyme?
Chembiochem 2: 109-11 (2002)
PM ID: 11828433
166: Wood V, Gwilliam R, Rajandream MA, Lyne M, Lyne R, Stewart A, Sgouros J, Peat N, Hayles J, Baker SD, Basham D, Bowman S, Brooks K, Brown D, Brown ST, Chillingworth T, Churcher C, Collins M, Connor R, Cronin A, Davis P, Feltwell T, Fraser A, Gentles S, Goble A, Hamlin N, Harris D, Hidalgo J, Hodgson G, Holroyd S, Hornsby T, Howarth S, Huckle EJ, Hunt S, Jagels K, James K, Jones LA, Jones M, Leather S, McDonald S, McLean J, Mooney P, Moule S, Mungall K, Murphy L, Niblett D, Odell C, Oliver K, O'Neil S, Pearson D, Quail MA, Rabbinowitsch E, Rutherford K, Rutter S, Saunders D, Seeger K, Sharp S, Skelton J, Simmonds M, Squares R, Squares S, Stevens K, Taylor K, Taylor RG, Tivey A, Walsh S, Warren T, Whitehead S, Woodward J, Volckaert G, Aert R, Robben J, Grymonprez B, Weltjens I, Vanstreels E, Rieger M, Schäfer M, Müller-Auer S, Gabel C, Fuchs M, Düsterhöft A, Fritzc C, Holzer E, Moestl D, Hilbert H, Borzym K, Langer I, Beck A, Lehrach H, Reinhardt R, Pohl TM, Eger P, Zimmermann W, Wedler H, Wambutt R, Purnelle B, Goffeau A, Cadieu E, Dréano S, Gloux S, Lelaure V, Mottier S, Galibert F, Aves SJ, Xiang Z, Hunt C, Moore KA, Hurst SM, Lucas M, Rochet M, Gaillardin C, Tallada VA, Garzon A, Thode G, Daga RR, Cruzado L, Jimenez J, Sánchez MJ, del Rey F, Benito J, Domínguez A, Revuelta JL, Moreno S, Armstrong J, Forsburg SL, Cerutti L, Lowe T, McCombie WR, Paulsen I, Potashkin J, Shpakovski GV, Ussery D, Barrell BG, Nurse P, Cerrutti L
The genome sequence of Schizosaccharomyces pombe.
Nature 415: 871-80 (2002)
PM ID: 11859360
167: Brabender J, Park JM, Metzger R, Schneider PM, Lord RV, Hölscher AH, Danenberg KD, Danenberg PV
Prognostic significance of cyclooxygenase 2 mRNA expression in non-small cell lung cancer.
Ann Surg 235: 440-3 (2002)
PM ID: 11882767 PMC1422451
168: Luna MC, Chen X, Wong SG, Tsui J, Rucker N, Lee AS, Gomer CJ
Enhanced photodynamic therapy efficacy with inducible suicide gene therapy controlled by the grp promoter.
Cancer Res 62: 1458-61 (2002)
PM ID: 11888920
169: Brabender J, Danenberg KD, Metzger R, Schneider PM, Lord RV, Groshen S, Tsao-Wei DD, Park JM, Salonga D, Hölscher AH, Danenberg PV
The role of retinoid X receptor messenger RNA expression in curatively resected non-small cell lung cancer.
Clin Cancer Res 8: 438-43 (2002)
PM ID: 11839661
170: Unger JB, Yan L, Shakib S, Rohrbach LA, Chen X, Qian G, Chou CP, Jianguo S, Azen S, Zheng HJ, Johnson CA
Peer influences and access to cigarettes as correlates of adolescent smoking: a cross-cultural comparison of Wuhan, China, and California.
Prev Med 34: 476-84 (2002)
PM ID: 11914054
171: Western TL, Cheng Y, Liu JF, Chen X
HUA ENHANCER2, a putative DExH-box RNA helicase, maintains homeotic B and C gene expression in Arabidopsis.
Development 129: 1569-81 (2002)
PM ID: 11923195
172: Trinh BN, Long TI, Nickel AE, Shibata D, Laird PW
DNA methyltransferase deficiency modifies cancer susceptibility in mice lacking DNA mismatch repair.
Mol Cell Biol 22: 2906-17 (2002)
PM ID: 11940649 PMC133764
173: Kim KM, Salovaara R, Mecklin JP, Järvinen HJ, Aaltonen LA, Shibata D
PolyA deletions in hereditary nonpolyposis colorectal cancer: mutations before a gatekeeper.
Am J Pathol 160: 1503-6 (2002)
PM ID: 11943734 PMC1867223
174: Burykin A, Schutz CN, Villá J, Warshel A
Simulations of ion current in realistic models of ion channels: the KcsA potassium channel.
Proteins 47: 265-80 (2002)
PM ID: 11948781
175: Ma Y, Pannicke U, Schwarz K, Lieber MR
Hairpin opening and overhang processing by an Artemis/DNA-dependent protein kinase complex in nonhomologous end joining and V(D)J recombination.
Cell 108: 781-94 (2002)
PM ID: 11955432
176: Gómez EB, Bailis JM, Forsburg SL
Fission yeast enters a joyful new era.
Genome Biol 3: REPORTS4017 (2002)
PM ID: 12093372 PMC139370
177: Rangarajan S, Woodgate R, Goodman MF
Replication restart in UV-irradiated Escherichia coli involving pols II, III, V, PriA, RecA and RecFOR proteins.
Mol Microbiol 43: 617-28 (2002)
PM ID: 11929519
178: Shurki A, Strajbl M, Villà J, Warshel A
How much do enzymes really gain by restraining their reacting fragments?
J Am Chem Soc 124: 4097-107 (2002)
PM ID: 11942849
179: Forsburg SL
Only connect: linking meiotic DNA replication to chromosome dynamics.
Mol Cell 9: 703-11 (2002)
PM ID: 11983163
180: An W, Palhan VB, Karymov MA, Leuba SH, Roeder RG
Selective requirements for histone H3 and H4 N termini in p300-dependent transcriptional activation from chromatin.
Mol Cell 9: 811-21 (2002)
PM ID: 11983172
181: Sorensen PH, Lynch JC, Qualman SJ, Tirabosco R, Lim JF, Maurer HM, Bridge JA, Crist WM, Triche TJ, Barr FG
PAX3-FKHR and PAX7-FKHR gene fusions are prognostic indicators in alveolar rhabdomyosarcoma: a report from the children's oncology group.
J Clin Oncol 20: 2672-9 (2002)
PM ID: 12039929
182: Chen X, Cruz TB, Schuster DV, Unger JB, Johnson CA
Receptivity to protobacco media and its impact on cigarette smoking among ethnic minority youth in California.
J Health Commun 7: 95-111 (2002)
PM ID: 12049425
183: Yeiser B, Pepper ED, Goodman MF, Finkel SE
SOS-induced DNA polymerases enhance long-term survival and evolutionary fitness.
Proc Natl Acad Sci U S A 99: 8737-41 (2002)
PM ID: 12060704 PMC124368
184: Chen X, Xu MQ, Ding Y, Ferrandon S, Rao Z
Purification and initial crystallization studies of a DnaB intein from Synechocystis sp. PCC 6803.
Acta Crystallogr D Biol Crystallogr 58: 1201-3 (2002)
PM ID: 12077443
185: Katsamba PS, Bayramyan M, Haworth IS, Myszka DG, Laird-Offringa IA
Complex role of the beta 2-beta 3 loop in the interaction of U1A with U1 hairpin II RNA.
J Biol Chem 277: 33267-74 (2002)
PM ID: 12082087
186: Yamaga AK, Ou JH
Membrane topology of the hepatitis C virus NS2 protein.
J Biol Chem 277: 33228-34 (2002)
PM ID: 12082096
187: Karanjawala ZE, Murphy N, Hinton DR, Hsieh CL, Lieber MR
Oxygen metabolism causes chromosome breaks and is associated with the neuronal apoptosis observed in DNA double-strand break repair mutants.
Curr Biol 12: 397-402 (2002)
PM ID: 11882291
188: Li JZ, Xu Z, Zheng YT, Johnson DL, Ou JH
Regulation of hepatocyte nuclear factor 1 activity by wild-type and mutant hepatitis B virus X proteins.
J Virol 76: 5875-81 (2002)
PM ID: 12021320 PMC136206
189: Hemmeryckx B, Reichert A, Watanabe M, Kaartinen V, de Jong R, Pattengale PK, Groffen J, Heisterkamp N
BCR/ABL P190 transgenic mice develop leukemia in the absence of Crkl.
Oncogene 21: 3225-31 (2002)
PM ID: 12082638
190: Kobayashi S, Valentine MR, Pham P, O'Donnell ME, Goodman MF
Fidelity of Escherichia coli DNA polymerase IV. Preferential generation of small deletion mutations by dNTP-stabilized misalignment.
J Biol Chem 277: 34198-207 (2002)
PM ID: 12097328
191: Warshel A, Parson WW
Dynamics of biochemical and biophysical reactions: insight from computer simulations.
Q Rev Biophys 34: 563-679 (2002)
PM ID: 11852595
192: Kaartinen V, Nagy A, Gonzalez-Gomez I, Groffen J, Heisterkamp N
Vestibular dysgenesis in mice lacking Abr and Bcr Cdc42/RacGAPs.
Dev Dyn 223: 517-25 (2002)
PM ID: 11921339
193: Kaartinen V, Haataja L, Nagy A, Heisterkamp N, Groffen J
TGFbeta3-induced activation of RhoA/Rho-kinase pathway is necessary but not sufficient for epithelio-mesenchymal transdifferentiation: implications for palatogenesis.
Int J Mol Med 9: 563-70 (2002)
PM ID: 12011971
194: Brabender J, Lord RV, Wickramasinghe K, Metzger R, Schneider PM, Park JM, Hölscher AH, DeMeester TR, Danenberg KD, Danenberg PV
Glutathione S-transferase-pi expression is downregulated in patients with Barrett's esophagus and esophageal adenocarcinoma.
J Gastrointest Surg 6: 359-67 (2002)
PM ID: 12022988
195: Adachi N, Lieber MR
Bidirectional gene organization: a common architectural feature of the human genome.
Cell 109: 807-9 (2002)
PM ID: 12110178
196: Reddy S, Mistry DJ, Wang QC, Geddis LM, Kutchai HC, Moorman JR, Mounsey JP
Effects of age and gene dose on skeletal muscle sodium channel gating in mice deficient in myotonic dystrophy protein kinase.
Muscle Nerve 25: 850-7 (2002)
PM ID: 12115974
197: Gilliland FD, Rappaport EB, Berhane K, Islam T, Dubeau L, Gauderman WJ, McConnell R
Effects of glutathione S-transferase P1, M1, and T1 on acute respiratory illness in school children.
Am J Respir Crit Care Med 166: 346-51 (2002)
PM ID: 12153968
198: Kim KM, Shibata D
Methylation reveals a niche: stem cell succession in human colon crypts.
Oncogene 21: 5441-9 (2002)
PM ID: 12154406
199: Pham P, Seitz EM, Saveliev S, Shen X, Woodgate R, Cox MM, Goodman MF
Two distinct modes of RecA action are required for DNA polymerase V-catalyzed translesion synthesis.
Proc Natl Acad Sci U S A 99: 11061-6 (2002)
PM ID: 12177433 PMC123210
200: Hartenstine MJ, Goodman MF, Petruska J
Weak strand displacement activity enables human DNA polymerase beta to expand CAG/CTG triplet repeats at strand breaks.
J Biol Chem 277: 41379-89 (2002)
PM ID: 12196536
201: Grem JL, Danenberg KD, Kao V, Danenberg PV, Nguyen D
Biochemical and molecular effects of UCN-01 in combination with 5-fluorodeoxyuridine in A431 human epidermoid cancer cells.
Anticancer Drugs 13: 259-70 (2002)
PM ID: 11984070
202: Barr FG, Qualman SJ, Macris MH, Melnyk N, Lawlor ER, Strzelecki DM, Triche TJ, Bridge JA, Sorensen PH
Genetic heterogeneity in the alveolar rhabdomyosarcoma subset without typical gene fusions.
Cancer Res 62: 4704-10 (2002)
PM ID: 12183429
203: Huang JF, Powell WC, Khodavirdi AC, Wu J, Makita T, Cardiff RD, Cohen MB, Sucov HM, Roy-Burman P
Prostatic intraepithelial neoplasia in mice with conditional disruption of the retinoid X receptor alpha allele in the prostate epithelium.
Cancer Res 62: 4812-9 (2002)
PM ID: 12183441
204: Gilliland FD, Li YF, Dubeau L, Berhane K, Avol E, McConnell R, Gauderman WJ, Peters JM
Effects of glutathione S-transferase M1, maternal smoking during pregnancy, and environmental tobacco smoke on asthma and wheezing in children.
Am J Respir Crit Care Med 166: 457-63 (2002)
PM ID: 12186820
205: Wang JG, Barsky LW, Shum CH, Jong A, Weinberg KI, Collins SJ, Triche TJ, Wu L
Retinoid-induced G1 arrest and differentiation activation are associated with a switch to cyclin-dependent kinase-activating kinase hypophosphorylation of retinoic acid receptor alpha.
J Biol Chem 277: 43369-76 (2002)
PM ID: 12213824
206: Kitagawa Y, Inoue K, Sasaki S, Hayashi Y, Matsuo Y, Lieber MR, Mizoguchi H, Yokota J, Kohno T
Prevalent involvement of illegitimate V(D)J recombination in chromosome 9p21 deletions in lymphoid leukemia.
J Biol Chem 277: 46289-97 (2002)
PM ID: 12228235
207: Leverson JD, Huang HK, Forsburg SL, Hunter T
The Schizosaccharomyces pombe aurora-related kinase Ark1 interacts with the inner centromere protein Pic1 and mediates chromosome segregation and cytokinesis.
Mol Biol Cell 13: 1132-43 (2002)
PM ID: 11950927 PMC102257
208: Salonga DS, Danenberg KD, Grem JL, Park JM, Danenberg PV
Relative gene expression in normal and tumor tissue by quantitative RT-PCR.
Methods Mol Biol 191: 83-98 (2002)
PM ID: 11951611
209: De Langhe S, Haataja L, Senadheera D, Groffen J, Heisterkamp N
Interaction of the small GTPase Rac3 with NRBP, a protein with a kinase-homology domain.
Int J Mol Med 9: 451-9 (2002)
PM ID: 11956649
210: Gómez EB, Catlett MG, Forsburg SL
Different phenotypes in vivo are associated with ATPase motif mutations in Schizosaccharomyces pombe minichromosome maintenance proteins.
Genetics 160: 1305-18 (2002)
PM ID: 11973289 PMC1462049
211: Lu W, Ou JH
Phosphorylation of hepatitis C virus core protein by protein kinase A and protein kinase C.
Virology 300: 20-30 (2002)
PM ID: 12202202
212: Gilliland FD, Gauderman WJ, Vora H, Rappaport EF, Dubeau L
Effects of glutathione-S-transferase M1, T1, and P1 on childhood lung function growth.
Am J Respir Crit Care Med 166: 710-6 (2002)
PM ID: 12204870
213: Song Z, Wu X, Powell WC, Cardiff RD, Cohen MB, Tin RT, Matusik RJ, Miller GJ, Roy-Burman P
Fibroblast growth factor 8 isoform B overexpression in prostate epithelium: a new mouse model for prostatic intraepithelial neoplasia.
Cancer Res 62: 5096-105 (2002)
PM ID: 12208767
214: Irvine RA, Lin IG, Hsieh CL
DNA methylation has a local effect on transcription and histone acetylation.
Mol Cell Biol 22: 6689-96 (2002)
PM ID: 12215526 PMC134040
215: Chen X, Zheng HJ, Steve S, Gong JZ, Stacy A, Xia J, Gallaher P, Dent CW, Azen S, Shan J, Unger JB, Johnson CA
Use of the fagerstrom tolerance questionnaire for measuring nicotine dependence among adolescent smokers in China: a pilot test.
Psychol Addict Behav 16: 260-3 (2002)
PM ID: 12236462
216: Tiemann-Boege I, Navidi W, Grewal R, Cohn D, Eskenazi B, Wyrobek AJ, Arnheim N
The observed human sperm mutation frequency cannot explain the achondroplasia paternal age effect.
Proc Natl Acad Sci U S A 99: 14952-7 (2002)
PM ID: 12397172 PMC137526
217: Li B, Comai L
Displacement of DNA-PKcs from DNA ends by the Werner syndrome protein.
Nucleic Acids Res 30: 3653-61 (2002)
PM ID: 12202749 PMC137412
218: An W, Roeder RG
Direct association of p300 with unmodified H3 and H4 N termini modulates p300-dependent acetylation and transcription of nucleosomal templates.
J Biol Chem 278: 1504-10 (2002)
PM ID: 12421817
219: Bailis JM, Forsburg SL
RNAi hushes heterochromatin.
Genome Biol 3: REVIEWS1035 (2002)
PM ID: 12537580 PMC151193
220: Schofield D, Triche TJ
cDNA microarray analysis of global gene expression in sarcomas.
Curr Opin Oncol 14: 406-11 (2002)
PM ID: 12130925
221: Tsao JL, Dudley S, Kwok B, Nickel AE, Laird PW, Siegmund KD, Liskay RM, Shibata D
Diet, cancer and aging in DNA mismatch repair deficient mice.
Carcinogenesis 23: 1807-10 (2002)
PM ID: 12419828
222: Cui H, Onyango P, Brandenburg S, Wu Y, Hsieh CL, Feinberg AP
Loss of imprinting in colorectal cancer linked to hypomethylation of H19 and IGF2.
Cancer Res 62: 6442-6 (2002)
PM ID: 12438232
223: Chedin F, Lieber MR, Hsieh CL
The DNA methyltransferase-like protein DNMT3L stimulates de novo methylation by Dnmt3a.
Proc Natl Acad Sci U S A 99: 16916-21 (2002)
PM ID: 12481029 PMC139244
224: Lord RV, Brabender J, Gandara D, Alberola V, Camps C, Domine M, Cardenal F, Sánchez JM, Gumerlock PH, Tarón M, Sánchez JJ, Danenberg KD, Danenberg PV, Rosell R
Low ERCC1 expression correlates with prolonged survival after cisplatin plus gemcitabine chemotherapy in non-small cell lung cancer.
Clin Cancer Res 8: 2286-91 (2003)
PM ID: 12114432
225: Chen X, Unger JB, Palmer PH, Weiner MD, Johnson CA, Wong MM, Austin G
Prior cigarette smoking initiation predicting current alcohol use: evidence for a gateway drug effect among California adolescents from eleven ethnic groups.
Addict Behav 27: 799-817 (2003)
PM ID: 12201385
226: Lee HC, Patel MK, Mistry DJ, Wang QS, Reddy S, Moorman JR, Mounsey JP
Abnormal Na channel gating in murine cardiac myocytes deficient in myotonic dystrophy protein kinase.
Physiol Genomics 12: 147-57 (2003)
PM ID: 12454205
227: Heisterkamp N, Groffen J
Philadelphia-positive leukemia: a personal perspective.
Oncogene 21: 8536-40 (2003)
PM ID: 12476299
228: Reddy RK, Dubeau L, Kleiner H, Parr T, Nichols PW, Ko B, Dong D, Ko H, Mao C, DiGiovanni J, Lee AS
Cancer-inducible transgene expression by the Grp94 promoter: spontaneous activation in tumors of various origins and cancer-associated macrophages.
Cancer Res 62: 7207-12 (2003)
PM ID: 12499260
229: Xu Z, Choi J, Lu W, Ou JH
Hepatitis C virus f protein is a short-lived protein associated with the endoplasmic reticulum.
J Virol 77: 1578-83 (2003)
PM ID: 12502871 PMC140853
230: Ason B, Handayani R, Williams CR, Bertram JG, Hingorani MM, O'Donnell ME, Goodman MF, Bloom LB
Mechanism of loading the Escherichia coli DNA polymerase III beta sliding clamp on DNA. Bona fide primer/templates preferentially trigger the gamma complex to hydrolyze ATP and load the clamp.
J Biol Chem 278: 10033-40 (2003)
PM ID: 12519754
231: Lin WJ, Li JZ, Lee YF, Yeh SD, Altuwaijri S, Ou JH, Chang CC
Suppression of hepatitis B virus core promoter by the nuclear orphan receptor TR4.
J Biol Chem 278: 9353-60 (2003)
PM ID: 12522137
232: Qin J, Baker SD, Te Riele H, Liskay RM, Arnheim N
Evidence for the lack of mismatch-repair directed antirecombination during mouse meiosis.
J Hered 93: 201-5 (2003)
PM ID: 12195036
233: Warshel A
Computer simulations of enzyme catalysis: methods, progress, and insights.
Annu Rev Biophys Biomol Struct 32: 425-43 (2003)
PM ID: 12574064
234: Adachi N, Karanjawala ZE, Matsuzaki Y, Koyama H, Lieber MR
Two overlapping divergent transcription units in the human genome: the FEN1/C11orf10 locus.
OMICS 6: 273-9 (2003)
PM ID: 12427278
235: Karanjawala ZE, Adachi N, Irvine RA, Oh EK, Shibata D, Schwarz K, Hsieh CL, Lieber MR
The embryonic lethality in DNA ligase IV-deficient mice is rescued by deletion of Ku: implications for unifying the heterogeneous phenotypes of NHEJ mutants.
DNA Repair (Amst) 1: 1017-26 (2003)
PM ID: 12531011
236: McManus BM, Yanagawa B, Rezai N, Luo H, Taylor L, Zhang M, Yuan JM, Buckley JD, Triche TJ, Schreiner GF, Yang D
Genetic determinants of coxsackievirus B3 pathogenesis.
Ann N Y Acad Sci 975: 169-79 (2003)
PM ID: 12538163
237: Karanjawala ZE, Hsieh CL, Lieber MR
Overexpression of Cu/Zn superoxide dismutase is lethal for mice lacking double-strand break repair.
DNA Repair (Amst) 2: 285-94 (2003)
PM ID: 12547391
238: Shinde D, Lai Y, Sun F, Arnheim N
Taq DNA polymerase slippage mutation rates measured by PCR and quasi-likelihood analysis: (CA/GT)n and (A/T)n microsatellites.
Nucleic Acids Res 31: 974-80 (2003)
PM ID: 12560493 PMC149199
239: Lord RV, Park JM, Wickramasinghe K, DeMeester SR, Oberg S, Salonga D, Singer JB, Peters JH, Danenberg KD, DeMeester TR, Danenberg PV
Vascular endothelial growth factor and basic fibroblast growth factor expression in esophageal adenocarcinoma and Barrett esophagus.
J Thorac Cardiovasc Surg 125: 246-53 (2003)
PM ID: 12579092
240: Formenti SC, Volm M, Skinner KA, Spicer D, Cohen D, Perez E, Bettini AC, Groshen S, Gee C, Florentine B, Press MF, Danenberg P, Muggia FM
Preoperative twice-weekly paclitaxel with concurrent radiation therapy followed by surgery and postoperative doxorubicin-based chemotherapy in locally advanced breast cancer: a phase I/II trial.
J Clin Oncol 21: 864-70 (2003)
PM ID: 12610186
241: Bransteitter R, Pham P, Scharff MD, Goodman MF
Activation-induced cytidine deaminase deaminates deoxycytidine on single-stranded DNA but requires the action of RNase.
Proc Natl Acad Sci U S A 100: 4102-7 (2003)
PM ID: 12651944 PMC153055
242: Crowe DL, Hacia JG, Hsieh CL, Sinha UK, Rice H
Molecular pathology of head and neck cancer.
Histol Histopathol 17: 909-14 (2003)
PM ID: 12168802
243: Wakimoto H, Maguire CT, Sherwood MC, Vargas MM, Sarkar PS, Han J, Reddy S, Berul CI
Characterization of cardiac conduction system abnormalities in mice with targeted disruption of Six5 gene.
J Interv Card Electrophysiol 7: 127-35 (2003)
PM ID: 12397222
244: Choi J, Xu Z, Ou JH
Triple decoding of hepatitis C virus RNA by programmed translational frameshifting.
Mol Cell Biol 23: 1489-97 (2003)
PM ID: 12588970 PMC151691
245: Comai L
Coimmunoprecipitation assay for the detection of kinase-substrate interactions.
Methods Mol Biol 218: 277-84 (2003)
PM ID: 12616727
246: Piedra J, Miravet S, Castaño J, Pálmer HG, Heisterkamp N, García de Herreros A, Duñach M
p120 Catenin-associated Fer and Fyn tyrosine kinases regulate beta-catenin Tyr-142 phosphorylation and beta-catenin-alpha-catenin Interaction.
Mol Cell Biol 23: 2287-97 (2003)
PM ID: 12640114 PMC150740
247: Smith JR, Riballo E, Kysela B, Baldeyron C, Manolis K, Masson C, Lieber MR, Papadopoulo D, Jeggo P
Impact of DNA ligase IV on the fidelity of end joining in human cells.
Nucleic Acids Res 31: 2157-67 (2003)
PM ID: 12682366 PMC153745
248: Fang NY, Greiner TC, Weisenburger DD, Chan WC, Vose JM, Smith LM, Armitage JO, Mayer RA, Pike BL, Collins FS, Hacia JG
Oligonucleotide microarrays demonstrate the highest frequency of ATM mutations in the mantle cell subtype of lymphoma.
Proc Natl Acad Sci U S A 100: 5372-7 (2003)
PM ID: 12697903 PMC154352
249: Powell WC, Cardiff RD, Cohen MB, Miller GJ, Roy-Burman P
Mouse strains for prostate tumorigenesis based on genes altered in human prostate cancer.
Curr Drug Targets 4: 263-79 (2003)
PM ID: 12643476
250: Yu KJ, Chedin F, Hsieh CL, Wilson TE, Lieber MR
R-loops at immunoglobulin class switch regions in the chromosomes of stimulated B cells.
Nat Immunol 4: 442-51 (2003)
PM ID: 12679812
251: Johnson SA, Dubeau L, Kawalek M, Dervan A, Schönthal AH, Dang CV, Johnson DL
Increased expression of TATA-binding protein, the central transcription factor, can contribute to oncogenesis.
Mol Cell Biol 23: 3043-51 (2003)
PM ID: 12697807 PMC153209
252: Arnheim N, Calabrese P, Nordborg M
Hot and cold spots of recombination in the human genome: the reason we should find them and how this can be achieved.
Am J Hum Genet 73: 5-16 (2003)
PM ID: 12772086 PMC1180590
253: Hannan JP, Young KA, Szakonyi G, Overduin MJ, Perkins SJ, Chen X, Holers VM
Structure of complement receptor (CR) 2 and CR2-C3d complexes.
Biochem Soc Trans 30: 983-9 (2003)
PM ID: 12440958
254: Shibata D
Molecular tumour clocks and colorectal cancer: seeing the unseen.
Pathology 34: 534-40 (2003)
PM ID: 12555991
255: Olsson MH, Hong G, Warshel A
Frozen density functional free energy simulations of redox proteins: computational studies of the reduction potential of plastocyanin and rusticyanin.
J Am Chem Soc 125: 5025-39 (2003)
PM ID: 12708852
256: Goodman MF, Woodgate R
The biochemical basis and in vivo regulation of SOS-induced mutagenesis promoted by Escherichia coli DNA polymerase V (UmuD'2C).
Cold Spring Harb Symp Quant Biol 65: 31-40 (2003)
PM ID: 12760018
257: Pham P, Bransteitter R, Petruska J, Goodman MF
Processive AID-catalysed cytosine deamination on single-stranded DNA simulates somatic hypermutation.
Nature 424: 103-7 (2003)
PM ID: 12819663
258: Brabender J, Usadel H, Metzger R, Schneider PM, Park JM, Salonga D, Tsao-Wei DD, Groshen S, Lord RV, Takebe N, Schneider S, Hölscher AH, Danenberg KD, Danenberg PV
Quantitative O(6)-methylguanine DNA methyltransferase methylation analysis in curatively resected non-small cell lung cancer: associations with clinical outcome.
Clin Cancer Res 9: 223-7 (2003)
PM ID: 12538473
259: Florián J, Goodman MF, Warshel A
Computer simulation studies of the fidelity of DNA polymerases.
Biopolymers 68: 286-99 (2003)
PM ID: 12601790
260: Pan J, Zhong C, Chang Z, Roy-Burman P
A potential therapeutic strategy to combat leukemia virus infection.
Cancer Biol Ther 2: 92-9 (2003)
PM ID: 12673127
261: Hsieh CL, Jones PA
Meddling with methylation.
Nat Cell Biol 5: 502-4 (2003)
PM ID: 12776125
262: Kulkarni AA, Haworth IS, Lee VH
Transmembrane segment 5 of the dipeptide transporter hPepT1 forms a part of the substrate translocation pathway.
Biochem Biophys Res Commun 306: 177-85 (2003)
PM ID: 12788085
263: Lai Y, Shinde D, Arnheim N, Sun F
The mutation process of microsatellites during the polymerase chain reaction.
J Comput Biol 10: 143-55 (2003)
PM ID: 12804088
264: Yoon SR, Dubeau L, De Young MM, Wexler NS, Arnheim N
Huntington disease expansion mutations in humans can occur before meiosis is completed.
Proc Natl Acad Sci U S A 100: 8834-8 (2003)
PM ID: 12857955 PMC166399
265: Ding Y, Xu MQ, Ghosh I, Chen X, Ferrandon S, Lesage G, Rao Z
Crystal structure of a mini-intein reveals a conserved catalytic module involved in side chain cyclization of asparagine during protein splicing.
J Biol Chem 278: 39133-42 (2003)
PM ID: 12878593
266: Snaith HA, Marlett J, Forsburg SL
Ibp1p, a novel Cdc25-related phosphatase, suppresses Schizosaccharomyces pombe hsk1 ( cdc7).
Curr Genet 44: 38-48 (2003)
PM ID: 14508607
267: Warshel A
Molecular dynamics simulations of biological reactions.
Acc Chem Res 35: 385-95 (2003)
PM ID: 12069623
268: Kawakami K, Ishida Y, Danenberg KD, Omura K, Watanabe G, Danenberg PV
Functional polymorphism of the thymidylate synthase gene in colorectal cancer accompanied by frequent loss of heterozygosity.
Jpn J Cancer Res 93: 1221-9 (2003)
PM ID: 12460463
269: Velicescu M, Dubeau L
p53: a key player in the telomere dynamics.
Cancer Biol Ther 1: 518-9 (2003)
PM ID: 12496480
270: Lin CY, Tuan J, Scalia P, Bui T, Comai L
The cell cycle regulatory factor TAF1 stimulates ribosomal DNA transcription by binding to the activator UBF.
Curr Biol 12: 2142-6 (2003)
PM ID: 12498690
271: Farrugia DC, Ford HE, Cunningham D, Danenberg KD, Danenberg PV, Brabender J, McVicar AD, Aherne GW, Hardcastle A, McCarthy K, Jackman AL
Thymidylate synthase expression in advanced colorectal cancer predicts for response to raltitrexed.
Clin Cancer Res 9: 792-801 (2003)
PM ID: 12576452
272: Zheng YT, Li JZ, Johnson DL, Ou JH
Regulation of hepatitis B virus replication by the ras-mitogen-activated protein kinase signaling pathway.
J Virol 77: 7707-12 (2003)
PM ID: 12829809 PMC161924
273: Burykin A, Kato M, Warshel A
Exploring the origin of the ion selectivity of the KcsA potassium channel.
Proteins 52: 412-26 (2003)
PM ID: 12866052
274: Einspahr JG, Krouse RS, Yochim JM, Danenberg PV, Danenberg KD, Bhattacharyya AK, Martínez ME, Alberts DS
Association between Cyclooxygenase expression and colorectal adenoma characteristics.
Cancer Res 63: 3891-3 (2003)
PM ID: 12873979
275: Bruck I, Goodman MF, O'Donnell ME
The essential C family DnaE polymerase is error-prone and efficient at lesion bypass.
J Biol Chem 278: 44361-8 (2003)
PM ID: 12949067
276: Catlett MG, Forsburg SL
Schizosaccharomyces pombe Rdh54 (TID1) acts with Rhp54 (RAD54) to repair meiotic double-strand breaks.
Mol Biol Cell 14: 4707-20 (2003)
PM ID: 14551247 PMC266785
277: Qian J, Jiang Z, Li M, Heaphy P, Liu YH, Shackleford GM
Mouse Wnt9b transforming activity, tissue-specific expression, and evolution.
Genomics 81: 34-46 (2003)
PM ID: 12573259
278: Florián J, Goodman MF, Warshel A
Computer simulation of the chemical catalysis of DNA polymerases: discriminating between alternative nucleotide insertion mechanisms for T7 DNA polymerase.
J Am Chem Soc 125: 8163-77 (2003)
PM ID: 12837086
279: Aparicio OM
Tackling an essential problem in functional proteomics of Saccharomyces cerevisiae.
Genome Biol 4: 230 (2003)
PM ID: 14519191 PMC328445
280: Zhou H, Luo MP, Schönthal AH, Pike MC, Stallcup MR, Blumenthal M, Zheng W, Dubeau L
Effect of reproductive hormones on ovarian epithelial tumors: I. Effect on cell cycle activity.
Cancer Biol Ther 1: 300-6 (2003)
PM ID: 12432283
281: Chen CS, Petitclerc E, Zhou H, Brooks PC, Sun T, Yu MC, Zheng W, Dubeau L
Effect of reproductive hormones on ovarian epithelial tumors: II. Effect on angiogenic activity.
Cancer Biol Ther 1: 307-12 (2003)
PM ID: 12432284
282: Zhong C, Yang S, Huang JF, Cohen MB, Roy-Burman P
Aberration in the expression of the retinoid receptor, RXRalpha, in prostate cancer.
Cancer Biol Ther 2: 179-84 (2003)
PM ID: 12750559
283: Karaman MW, Houck ML, Chemnick LG, Nagpal S, Chawannakul D, Sudano D, Pike BL, Ho VV, Ryder OA, Hacia JG
Comparative analysis of gene-expression patterns in human and African great ape cultured fibroblasts.
Genome Res 13: 1619-30 (2003)
PM ID: 12840040 PMC403735
284: Lieber MR, Ma Y, Pannicke U, Schwarz K
Mechanism and regulation of human non-homologous DNA end-joining.
Nat Rev Mol Cell Biol 4: 712-20 (2003)
PM ID: 14506474
285: Kulkarni AA, Haworth IS, Uchiyama T, Lee VH
Analysis of transmembrane segment 7 of the dipeptide transporter hPepT1 by cysteine-scanning mutagenesis.
J Biol Chem 278: 51833-40 (2003)
PM ID: 14532279
286: Shen X, Woodgate R, Goodman MF
Escherichia coli DNA polymerase V subunit exchange: a post-SOS mechanism to curtail error-prone DNA synthesis.
J Biol Chem 278: 52546-50 (2003)
PM ID: 14573598
287: Trotman LC, Niki M, Dotan ZA, Koutcher JA, Di Cristofano A, Xiao A, Khoo AS, Roy-Burman P, Greenberg NM, Van Dyke TE, Cordon-Cardo C, Pandolfi PP
Pten dose dictates cancer progression in the prostate.
PLoS Biol 1: E59 (2003)
PM ID: 14691534 PMC270016
288: Liu D, Zhou L, Chen X
The lymphoblastoid cell lines of recurrence condyloma acuminatum patients produce lower level of tumor necrosis factor stimulated with LPS.
J Huazhong Univ Sci Technolog Med Sci 23: 317-9 (2003)
PM ID: 14526446
289: Wang H, An W, Cao R, Xia L, Erdjument-Bromage H, Chatton B, Tempst P, Roeder RG, Zhang Y
mAM facilitates conversion by ESET of dimethyl to trimethyl lysine 9 of histone H3 to cause transcriptional repression.
Mol Cell 12: 475-87 (2003)
PM ID: 14536086
290: Brabender J, Lord RV, Metzger R, Park JM, Salonga D, Danenberg KD, Danenberg PV, Hölscher AH, Schneider PM
Differential SPARC mRNA expression in Barrett's oesophagus.
Br J Cancer 89: 1508-12 (2003)
PM ID: 14562024 PMC2394336
291: Bailis JM, Bernard P, Antonelli R, Allshire RC, Forsburg SL
Hsk1-Dfp1 is required for heterochromatin-mediated cohesion at centromeres.
Nat Cell Biol 5: 1111-6 (2003)
PM ID: 14625560
292: Yu KJ, Huang FT, Lieber MR
DNA substrate length and surrounding sequence affect the activation-induced deaminase activity at cytidine.
J Biol Chem 279: 6496-500 (2003)
PM ID: 14645244
293: Nenguke T, Aladjem MI, Gusella JF, Wexler NS, Arnheim N, Venezuela HD Project
Candidate DNA replication initiation regions at human trinucleotide repeat disease loci.
Hum Mol Genet 12: 1021-8 (2003)
PM ID: 12700170
294: Hacia JG, Hey J
Select your words carefully.
Heredity 90: 343-4 (2003)
PM ID: 12714975
295: Velicescu M, Yu J, Herbert BS, Shay JW, Granada E, Dubeau L
Aneuploidy and telomere attrition are independent determinants of crisis in SV40-transformed epithelial cells.
Cancer Res 63: 5813-20 (2003)
PM ID: 14522904
296: Hodson JA, Bailis JM, Forsburg SL
Efficient labeling of fission yeast Schizosaccharomyces pombe with thymidine and BUdR.
Nucleic Acids Res 31: e134 (2003)
PM ID: 14576334 PMC275491
297: Chung LW, Hsieh CL, Law A, Sung SY, Gardner TA, Egawa M, Matsubara S, Zhau HE
New targets for therapy in prostate cancer: modulation of stromal-epithelial interactions.
Urology 62: 44-54 (2003)
PM ID: 14607217
298: Shurki A, Warshel A
Structure/function correlations of proteins using MM, QM/MM, and related approaches: methods, concepts, pitfalls, and current progress.
Adv Protein Chem 66: 249-313 (2003)
PM ID: 14631821
299: Strajbl M, Shurki A, Warshel A
Converting conformational changes to electrostatic energy in molecular motors: The energetics of ATP synthase.
Proc Natl Acad Sci U S A 100: 14834-9 (2003)
PM ID: 14657336 PMC299816
300: Olsson MH, Siegbahn PE, Warshel A
Simulating large nuclear quantum mechanical corrections in hydrogen atom transfer reactions in metalloenzymes.
J Biol Inorg Chem 9: 96-9 (2003)
PM ID: 14663649
301: Strajbl M, Shurki A, Kato M, Warshel A
Apparent NAC effect in chorismate mutase reflects electrostatic transition state stabilization.
J Am Chem Soc 125: 10228-37 (2004)
PM ID: 12926945
302: Chen X, Stacy A, Zheng HJ, Shan J, Spruijt-Metz D, Unger JB, Gong JZ, Gallaher P, Liu CW, Azen S, Shakib S, Ph D AJ
Sensations from initial exposure to nicotine predicting adolescent smoking in China: a potential measure of vulnerability to nicotine.
Nicotine Tob Res 5: 455-63 (2004)
PM ID: 12959783
303: Mishra S, Reichert A, Cunnick J, Senadheera D, Hemmeryckx B, Heisterkamp N, Groffen J
Protein kinase CKIIalpha interacts with the Bcr moiety of Bcr/Abl and mediates proliferation of Bcr/Abl-expressing cells.
Oncogene 22: 8255-62 (2004)
PM ID: 14614449
304: Blumenthal M, Kardosh A, Dubeau L, Borok Z, Schönthal AH
Suppression of the transformed phenotype and induction of differentiation-like characteristics in cultured ovarian tumor cells by chronic treatment with progesterone.
Mol Carcinog 38: 160-9 (2004)
PM ID: 14639655
305: Farrell MJ, Finkel SE
The growth advantage in stationary-phase phenotype conferred by rpoS mutations is dependent on the pH and nutrient environment.
J Bacteriol 185: 7044-52 (2004)
PM ID: 14645263 PMC296246
306: Chen X, Li G, Unger JB, Liu XS, Johnson CA
Secular trends in adolescent never smoking from 1990 to 1999 in California: an age-period-cohort analysis.
Am J Public Health 93: 2099-104 (2004)
PM ID: 14652341 PMC1448159
307: Li B, Navarro S, Kasahara N, Comai L
Identification and biochemical characterization of a Werner's syndrome protein complex with Ku70/80 and poly(ADP-ribose) polymerase-1.
J Biol Chem 279: 13659-67 (2004)
PM ID: 14734561
308: Mishra S, Zhang B, Groffen J, Heisterkamp N
A farnesyltransferase inhibitor increases survival of mice with very advanced stage acute lymphoblastic leukemia/lymphoma caused by P190 Bcr/Abl.
Leukemia 18: 23-8 (2004)
PM ID: 14603339
309: López de Saro FJ, Georgescu RE, Goodman MF, O'Donnell ME
Competitive processivity-clamp usage by DNA polymerases during DNA replication and repair.
EMBO J 22: 6408-18 (2004)
PM ID: 14633999 PMC291844
310: Land KM, Delgadillo-Correa MG, Tachezy J, Vanacova S, Hsieh CL, Sutak R, Johnson PJ
Targeted gene replacement of a ferredoxin gene in Trichomonas vaginalis does not lead to metronidazole resistance.
Mol Microbiol 51: 115-22 (2004)
PM ID: 14651615
311: Half E, Broaddus R, Danenberg KD, Danenberg PV, Ayers GD, Sinicrope FA
HER-2 receptor expression, localization, and activation in colorectal cancer cell lines and human tumors.
Int J Cancer 108: 540-8 (2004)
PM ID: 14696118
312: Lieber MR, Karanjawala ZE
Ageing, repetitive genomes and DNA damage.
Nat Rev Mol Cell Biol 5: 69-75 (2004)
PM ID: 14708011
313: James AC, Veitch JG, Zareh AR, Triche TJ
Sensitivity and specificity of five abundance estimators for high-density oligonucleotide microarrays.
Bioinformatics 20: 1060-5 (2004)
PM ID: 14764574
314: Schwarz K, Ma Y, Pannicke U, Lieber MR
Human severe combined immune deficiency and DNA repair.
Bioessays 25: 1061-70 (2004)
PM ID: 14579247
315: Chen X, Park R, Tohme M, Shahinian AH, Bading JR, Conti PS
MicroPET and autoradiographic imaging of breast cancer alpha v-integrin expression using 18F- and 64Cu-labeled RGD peptide.
Bioconjug Chem 15: 41-9 (2004)
PM ID: 14733582
316: Qin J, Richardson LL, Jasin M, Handel MA, Arnheim N
Mouse strains with an active H2-Ea meiotic recombination hot spot exhibit increased levels of H2-Ea-specific DNA breaks in testicular germ cells.
Mol Cell Biol 24: 1655-66 (2004)
PM ID: 14749381 PMC344187
317: Choi J, Lee KJ, Zheng YT, Yamaga AK, Lai MM, Ou JH
Reactive oxygen species suppress hepatitis C virus RNA replication in human hepatoma cells.
Hepatology 39: 81-9 (2004)
PM ID: 14752826
318: Gómez EB, Forsburg SL
Analysis of the fission yeast Schizosaccharomyces pombe cell cycle.
Methods Mol Biol 241: 93-111 (2004)
PM ID: 14970648
319: Wexler NS, Lorimer J, Porter J, Gomez F, Moskowitz C, Shackell E, Marder K, Penchaszadeh G, Roberts SA, Gayán J, Brocklebank D, Cherny SS, Cardon LR, Gray J, Dlouhy SR, Wiktorski S, Hodes ME, Conneally PM, Penney JB, Gusella J, Cha JH, Irizarry M, Rosas D, Hersch S, Hollingsworth Z, MacDonald M, Young AB, Andresen JM, Housman DE, De Young MM, Bonilla E, Stillings T, Negrette A, Snodgrass SR, Martinez-Jaurrieta MD, Ramos-Arroyo MA, Bickham J, Ramos JS, Marshall F, Shoulson I, Rey GJ, Feigin A, Arnheim N, Acevedo-Cruz A, Acosta L, Alvir J, Fischbeck K, Thompson LM, Young AB, Dure L, O'Brien CJ, Paulsen J, Brickman A, Krch D, Peery S, Hogarth P, Higgins DS, Landwehrmeyer B, U.S.-Venezuela Collaborative Research Project
Venezuelan kindreds reveal that genetic and environmental factors modulate Huntington's disease age of onset.
Proc Natl Acad Sci U S A 101: 3498-503 (2004)
PM ID: 14993615 PMC373491
320: Raghavan SC, Swanson PC, Wu X, Hsieh CL, Lieber MR
A non-B-DNA structure at the Bcl-2 major breakpoint region is cleaved by the RAG complex.
Nature 428: 88-93 (2004)
PM ID: 14999286
321: Thompson PR, Wang D, Wang L, Fulco M, Pediconi N, Zhang D, An W, Ge Q, Roeder RG, Wong J, Levrero M, Sartorelli V, Cotter RJ, Cole PA
Regulation of the p300 HAT domain via a novel activation loop.
Nat Struct Mol Biol 11: 308-15 (2004)
PM ID: 15004546
322: Nagpal S, Karaman MW, Timmerman MM, Ho VV, Pike BL, Hacia JG
Improving the sensitivity and specificity of gene expression analysis in highly related organisms through the use of electronic masks.
Nucleic Acids Res 32: e51 (2004)
PM ID: 15031318 PMC390348
323: Barbany M, Gutiérrez-de-Terán H, Sanz F, Villà-Freixa J, Warshel A
On the generation of catalytic antibodies by transition state analogues.
Chembiochem 4: 277-85 (2004)
PM ID: 12672107
324: Chambers EJ, Price EA, Bayramyan MC, Haworth IS
Computation of DNA backbone conformations.
J Biomol Struct Dyn 21: 111-25 (2004)
PM ID: 12854963
325: Kojima H, Kaita KD, Xu Z, Ou JH, Gong Y, Zhang M, Minuk GY
The absence of up-regulation of telomerase activity during regeneration after partial hepatectomy in hepatitis B virus X gene transgenic mice.
J Hepatol 39: 262-8 (2004)
PM ID: 12873824
326: Comai L
Mechanism of RNA polymerase I transcription.
Adv Protein Chem 67: 123-55 (2004)
PM ID: 14969726
327: An W, Roeder RG
Reconstitution and transcriptional analysis of chromatin in vitro.
Methods Enzymol 377: 460-74 (2004)
PM ID: 14979045
328: Shurki A, Warshel A
Why does the Ras switch "break" by oncogenic mutations?
Proteins 55: 1-10 (2004)
PM ID: 14997535
329: Bailis JM, Forsburg SL
S phase assembly of centromeric heterochromatin and cohesion.
Cell Cycle 3: 416-8 (2004)
PM ID: 15004523
330: Lee KJ, Choi J, Ou JH, Lai MM
The C-terminal transmembrane domain of hepatitis C virus (HCV) RNA polymerase is essential for HCV replication in vivo.
J Virol 78: 3797-802 (2004)
PM ID: 15016899 PMC371049
331: Levitt RJ, Buckley JD, Blouin MJ, Schaub B, Triche TJ, Pollak M
Growth inhibition of breast epithelial cells by celecoxib is associated with upregulation of insulin-like growth factor binding protein-3 expression.
Biochem Biophys Res Commun 316: 421-8 (2004)
PM ID: 15020235
332: Calabrese P, Tavaré S, Shibata D
Pretumor progression: clonal evolution of human stem cell populations.
Am J Pathol 164: 1337-46 (2004)
PM ID: 15039221 PMC1615336
333: Kim KM, Calabrese P, Tavaré S, Shibata D
Enhanced stem cell survival in familial adenomatous polyposis.
Am J Pathol 164: 1369-77 (2004)
PM ID: 15039224 PMC1615334
334: Calabrese P, Tsao JL, Yatabe Y, Salovaara R, Mecklin JP, Järvinen HJ, Aaltonen LA, Tavaré S, Shibata D
Colorectal pretumor progression before and after loss of DNA mismatch repair.
Am J Pathol 164: 1447-53 (2004)
PM ID: 15039232 PMC1615342
335: Veal N, Hsieh CL, Xiong S, Mato JM, Lu SC, Tsukamoto H
Inhibition of lipopolysaccharide-stimulated TNF-alpha promoter activity by S-adenosylmethionine and 5'-methylthioadenosine.
Am J Physiol Gastrointest Liver Physiol 287: G352-62 (2004)
PM ID: 15064230
336: Curtis C, Hemmeryckx B, Haataja L, Senadheera D, Groffen J, Heisterkamp N
Scambio, a novel guanine nucleotide exchange factor for Rho.
Mol Cancer 3: 10 (2004)
PM ID: 15107133 PMC420252
337: Chen X, Park R, Hou Y, Khankaldyyan V, Gonzales-Gomez I, Tohme M, Bading JR, Laug WE, Conti PS
MicroPET imaging of brain tumor angiogenesis with 18F-labeled PEGylated RGD peptide.
Eur J Nucl Med Mol Imaging 31: 1081-9 (2004)
PM ID: 15118844
338: Bailis JM, Forsburg SL
It's all in the timing: linking S phase to chromatin structure and chromosome dynamics.
Cell Cycle 2: 303-6 (2004)
PM ID: 12851479
339: Schmittgen TD, Ju JF, Danenberg KD, Danenberg PV
Inhibition of pre-mRNA splicing by cisplatin and platinum analogs.
Int J Oncol 23: 785-9 (2004)
PM ID: 12888918
340: Johnson SA, Dubeau L, White RJ, Johnson DL
The TATA-binding protein as a regulator of cellular transformation.
Cell Cycle 2: 442-4 (2004)
PM ID: 12963838
341: Wang S, Gao J, Lei Q, Rozengurt N, Pritchard C, Jiao J, Thomas GV, Li G, Roy-Burman P, Nelson PS, Liu XS, Wu H
Prostate-specific deletion of the murine Pten tumor suppressor gene leads to metastatic prostate cancer.
Cancer Cell 4: 209-21 (2004)
PM ID: 14522255
342: Olsson MH, Siegbahn PE, Warshel A
Simulations of the large kinetic isotope effect and the temperature dependence of the hydrogen atom transfer in lipoxygenase.
J Am Chem Soc 126: 2820-8 (2004)
PM ID: 14995199
343: Forsburg SL
Eukaryotic MCM proteins: beyond replication initiation.
Microbiol Mol Biol Rev 68: 109-31 (2004)
PM ID: 15007098 PMC362110
344: Shurki A, Strajbl M, Schutz CN, Warshel A
Electrostatic basis for bioenergetics.
Methods Enzymol 380: 52-84 (2004)
PM ID: 15051332
345: Bailis JM, Forsburg SL
MCM proteins: DNA damage, mutagenesis and repair.
Curr Opin Genet Dev 14: 17-21 (2004)
PM ID: 15108800
346: Sarkar PS, Paul S, Han J, Reddy S
Six5 is required for spermatogenic cell survival and spermiogenesis.
Hum Mol Genet 13: 1421-31 (2004)
PM ID: 15163633
347: Li JZ, Zheng YT, Choi J, Ou JH
Phosphorylation analysis of hepatitis B virus core protein in mammalian cells.
Methods Mol Med 95: 227-33 (2004)
PM ID: 14762306
348: Xu Z, Ou JH
Endogenous polymerase assay for the analysis of hepatitis B virus in transgenic mice.
Methods Mol Med 95: 295-302 (2004)
PM ID: 14762312
349: Greenberg MM, Weledji YN, Kroeger KM, Kim J, Goodman MF
In vitro effects of a C4'-oxidized abasic site on DNA polymerases.
Biochemistry 43: 2656-63 (2004)
PM ID: 14992603
350: Schutz CN, Warshel A
The low barrier hydrogen bond (LBHB) proposal revisited: the case of the Asp... His pair in serine proteases.
Proteins 55: 711-23 (2004)
PM ID: 15103633
351: Brabender J, Marjoram P, Salonga D, Metzger R, Schneider PM, Park JM, Schneider S, Hölscher AH, Yin J, Meltzer SJ, Danenberg KD, Danenberg PV, Lord RV
A multigene expression panel for the molecular diagnosis of Barrett's esophagus and Barrett's adenocarcinoma of the esophagus.
Oncogene 23: 4780-8 (2004)
PM ID: 15107828
352: Zhang S, He QY, Peng H, Tedeschi-Blok N, Triche TJ, Wu L
MAT1-modulated cyclin-dependent kinase-activating kinase activity cross-regulates neuroblastoma cell G1 arrest and neurite outgrowth.
Cancer Res 64: 2977-83 (2004)
PM ID: 15126328
353: Xie Y, Yang HT, Cunanan C, Okamoto K, Shibata D, Pan J, Barnes DE, Lindahl T, McIlhatton M, Fishel R, Miller JH
Deficiencies in mouse Myh and Ogg1 result in tumor predisposition and G to T mutations in codon 12 of the K-ras oncogene in lung tumors.
Cancer Res 64: 3096-102 (2004)
PM ID: 15126346
354: Aparicio JG, Viggiani CJ, Gibson DG, Aparicio OM
The Rpd3-Sin3 histone deacetylase regulates replication timing and enables intra-S origin control in Saccharomyces cerevisiae.
Mol Cell Biol 24: 4769-80 (2004)
PM ID: 15143171 PMC416400
355: Lipkin SM, Rozek LS, Rennert G, Yang W, Chen PC, Hacia JG, Hunt N, Shin B, Fodor S, Kokoris M, Greenson JK, Fearon E, Lynch H, Collins F, Gruber SB
The MLH1 D132H variant is associated with susceptibility to sporadic colorectal cancer.
Nat Genet 36: 694-9 (2004)
PM ID: 15184898
356: Bertram JG, Bloom LB, O'Donnell ME, Goodman MF
Increased dNTP binding affinity reveals a nonprocessive role for Escherichia coli beta clamp with DNA polymerase IV.
J Biol Chem 279: 33047-50 (2004)
PM ID: 15210708
357: Raghavan SC, Lieber MR
Chromosomal translocations and non-B DNA structures in the human genome.
Cell Cycle 3: 762-8 (2004)
PM ID: 15254430
358: Yu KJ, Lieber MR
Nucleic acid structures and enzymes in the immunoglobulin class switch recombination mechanism.
DNA Repair (Amst) 2: 1163-74 (2004)
PM ID: 14599739
359: Leung K, Nagy A, Gonzalez-Gomez I, Groffen J, Heisterkamp N, Kaartinen V
Targeted expression of activated Rac3 in mammary epithelium leads to defective postlactational involution and benign mammary gland lesions.
Cells Tissues Organs 175: 72-83 (2004)
PM ID: 14605486
360: Karanjawala ZE, Hinton DR, Oh E, Hsieh CL, Lieber MR
Developmental retinal apoptosis in Ku86-/- mice.
DNA Repair (Amst) 2: 1429-34 (2004)
PM ID: 14642570
361: Burykin A, Warshel A
What really prevents proton transport through aquaporin? Charge self-energy versus proton wire proposals.
Biophys J 85: 3696-706 (2004)
PM ID: 14645061 PMC1303673
362: Hillenbrand A, Formentini A, Staib L, Sander S, Salonga D, Danenberg K, Danenberg P, Kornmann M
A longterm follow-up study of thymidylate synthase as a predictor for survival of patients with liver tumours receiving hepatic arterial infusion chemotherapy.
Eur J Surg Oncol 30: 407-13 (2004)
PM ID: 15063894
363: An W, Kim J, Roeder RG
Ordered cooperative functions of PRMT1, p300, and CARM1 in transcriptional activation by p53.
Cell 117: 735-48 (2004)
PM ID: 15186775
364: Zheng YT, Li JZ, Ou JH
Regulation of hepatitis B virus core promoter by transcription factors HNF1 and HNF4 and the viral X protein.
J Virol 78: 6908-14 (2004)
PM ID: 15194767 PMC421633
365: Nair S, Finkel SE
Dps protects cells against multiple stresses during stationary phase.
J Bacteriol 186: 4192-8 (2004)
PM ID: 15205421 PMC421617
366: Yu KJ, Taghva A, Ma Y, Lieber MR
Kinetic analysis of the nicking and hairpin formation steps in V(D)J recombination.
DNA Repair (Amst) 3: 67-75 (2004)
PM ID: 14697761
367: Kroeger KM, Jiang YL, Kow YW, Goodman MF, Greenberg MM
Mutagenic effects of 2-deoxyribonolactone in Escherichia coli. An abasic lesion that disobeys the A-rule.
Biochemistry 43: 6723-33 (2004)
PM ID: 15157106
368: Hamoui N, Peters JH, Schneider S, Uchida K, Yang D, Vallböhmer D, Valboehmer D, Hagen JA, DeMeester SR, DeMeester TR, Danenberg K, Danenberg P
Increased acid exposure in patients with gastroesophageal reflux disease influences cyclooxygenase-2 gene expression in the squamous epithelium of the lower esophagus.
Arch Surg 139: 712-6; discussion 716-7 (2004)
PM ID: 15249402
369: Raghavan SC, Houston SI, Hegde BG, Langen R, Haworth IS, Lieber MR
Stability and strand asymmetry in the non-B DNA structure at the bcl-2 major breakpoint region.
J Biol Chem 279: 46213-25 (2004)
PM ID: 15328356
370: Tippin B, Kobayashi S, Bertram JG, Goodman MF
To slip or skip, visualizing frameshift mutation dynamics for error-prone DNA polymerases.
J Biol Chem 279: 45360-8 (2004)
PM ID: 15339923
371: Hsieh CL, Gardner TA, Miao L, Balian G, Chung LW
Cotargeting tumor and stroma in a novel chimeric tumor model involving the growth of both human prostate cancer and bone stromal cells.
Cancer Gene Ther 11: 148-55 (2004)
PM ID: 14695756
372: Chen X, Park R, Shahinian AH, Bading JR, Conti PS
Pharmacokinetics and tumor retention of 125I-labeled RGD peptide are improved by PEGylation.
Nucl Med Biol 31: 11-9 (2004)
PM ID: 14741566
373: Schneider S, Uchida K, Salonga D, Yochim JM, Danenberg KD, Danenberg PV
Quantitative determination of p16 gene expression by RT-PCR.
Methods Mol Biol 281: 91-103 (2004)
PM ID: 15220523
374: Burykin A, Warshel A
On the origin of the electrostatic barrier for proton transport in aquaporin.
FEBS Lett 570: 41-6 (2004)
PM ID: 15251436
375: Chen X, Park R, Hou Y, Tohme M, Shahinian AH, Bading JR, Conti PS
microPET and autoradiographic imaging of GRP receptor expression with 64Cu-DOTA-[Lys3]bombesin in human prostate adenocarcinoma xenografts.
J Nucl Med 45: 1390-7 (2004)
PM ID: 15299066
376: He QY, Peng H, Collins SJ, Triche TJ, Wu L
Retinoid-modulated MAT1 ubiquitination and CAK activity.
FASEB J 18: 1734-6 (2004)
PM ID: 15345685
377: Danenberg PV
Pharmacogenomics of thymidylate synthase in cancer treatment.
Front Biosci 9: 2484-94 (2004)
PM ID: 15353301
378: Bransteitter R, Pham P, Calabrese P, Goodman MF
Biochemical analysis of hypermutational targeting by wild type and mutant activation-induced cytidine deaminase.
J Biol Chem 279: 51612-21 (2004)
PM ID: 15371439
379: Angelov D, Verdel A, An W, Bondarenko V, Hans F, Doyen CM, Studitsky VM, Hamiche A, Roeder RG, Bouvet P, Dimitrov S
SWI/SNF remodeling and p300-dependent transcription of histone variant H2ABbd nucleosomal arrays.
EMBO J 23: 3815-24 (2004)
PM ID: 15372075 PMC522799
380: Gómez EB, Angeles VT, Forsburg SL
A screen for Schizosaccharomyces pombe mutants defective in rereplication identifies new alleles of rad4+, cut9+ and psf2+.
Genetics 169: 77-89 (2004)
PM ID: 15466421 PMC1448876
381: Brohede J, Arnheim N, Ellegren H
Single-molecule analysis of the hypermutable tetranucleotide repeat locus D21S1245 through sperm genotyping: a heterogeneous pattern of mutation but no clear male age effect.
Mol Biol Evol 21: 58-64 (2004)
PM ID: 14530459
382: Uchida K, Hayashi K, Kawakami K, Schneider S, Yochim JM, Kuramochi H, Takasaki K, Danenberg KD, Danenberg PV
Loss of heterozygosity at the thymidylate synthase (TS) locus on chromosome 18 affects tumor response and survival in individuals heterozygous for a 28-bp polymorphism in the TS gene.
Clin Cancer Res 10: 433-9 (2004)
PM ID: 14760062
383: Schneider S, Yochim JM, Brabender J, Uchida K, Danenberg KD, Metzger R, Schneider PM, Salonga D, Hölscher AH, Danenberg PV
Osteopontin but not osteonectin messenger RNA expression is a prognostic marker in curatively resected non-small cell lung cancer.
Clin Cancer Res 10: 1588-96 (2004)
PM ID: 15014008
384: Brabender J, Lord RV, Metzger R, Park JM, Salonga D, Danenberg KD, Hölscher AH, Danenberg PV, Schneider PM
Role of retinoid X receptor mRNA expression in Barrett's esophagus.
J Gastrointest Surg 8: 413-22 (2004)
PM ID: 15120365
385: Sarkar PS, Han J, Reddy S
In situ hybridization analysis of Dmpk mRNA in adult mouse tissues.
Neuromuscul Disord 14: 497-506 (2004)
PM ID: 15336691
386: Zhang J, Hu S, Schofield DE, Sorensen PH, Triche TJ
Selective usage of D-Type cyclins by Ewing's tumors and rhabdomyosarcomas.
Cancer Res 64: 6026-34 (2004)
PM ID: 15342383
387: Kroeger KM, Goodman MF, Greenberg MM
A comprehensive comparison of DNA replication past 2-deoxyribose and its tetrahydrofuran analog in Escherichia coli.
Nucleic Acids Res 32: 5480-5 (2004)
PM ID: 15477395 PMC524285
388: So S, Adachi N, Lieber MR, Koyama H
Genetic interactions between BLM and DNA ligase IV in human cells.
J Biol Chem 279: 55433-42 (2004)
PM ID: 15509577
389: Chen X, Park R, Shahinian AH, Tohme M, Khankaldyyan V, Bozorgzadeh MH, Bading JR, Moats RA, Laug WE, Conti PS
18F-labeled RGD peptide: initial evaluation for imaging brain tumor angiogenesis.
Nucl Med Biol 31: 179-89 (2004)
PM ID: 15013483
390: Kroeger KM, Kim J, Goodman MF, Greenberg MM
Effects of the C4'-oxidized abasic site on replication in Escherichia coli. An unusually large deletion is induced by a small lesion.
Biochemistry 43: 13621-7 (2004)
PM ID: 15504024
391: Chen X, Conti PS, Moats RA
In vivo near-infrared fluorescence imaging of integrin alphavbeta3 in brain tumor xenografts.
Cancer Res 64: 8009-14 (2004)
PM ID: 15520209
392: Freeman-Cook LL, Gómez EB, Spedale EJ, Marlett J, Forsburg SL, Pillus L, Laurenson P
Conserved locus-specific silencing functions of Schizosaccharomyces pombe sir2+.
Genetics 169: 1243-60 (2004)
PM ID: 15545655 PMC1449530
393: Dansithong W, Paul S, Comai L, Reddy S
MBNL1 is the primary determinant of focus formation and aberrant insulin receptor splicing in DM1.
J Biol Chem 280: 5773-80 (2004)
PM ID: 15546872
394: Heidel JD, Hu S, Liu XF, Triche TJ, Davis ME
Lack of interferon response in animals to naked siRNAs.
Nat Biotechnol 22: 1579-82 (2004)
PM ID: 15558046
395: Nouriani M, Bahador A, Berek JS, Cheng JP, Chi DS, Cliby WA, Del Priore G, Dodson MK, Duggan BD, Gershenson DM, Lentz SE, Penson RT, Robinson WR, Rodriguez M, Roman LD, Yu MC, Zempolich K, Dubeau L
Detection of residual subclinical ovarian carcinoma after completion of adjuvant chemotherapy.
Clin Cancer Res 10: 2681-6 (2004)
PM ID: 15102671
396: Roy-Burman P, Wu H, Powell WC, Hagenkord J, Cohen MB
Genetically defined mouse models that mimic natural aspects of human prostate cancer development.
Endocr Relat Cancer 11: 225-54 (2004)
PM ID: 15163300
397: Warnecke-Eberz U, Metzger R, Miyazono F, Baldus SE, Neiss S, Brabender J, Schaefer HF, Doerfler W, Bollschweiler E, Dienes HP, Mueller RP, Danenberg PV, Hoelscher AH, Schneider PM
High specificity of quantitative excision repair cross-complementing 1 messenger RNA expression for prediction of minor histopathological response to neoadjuvant radiochemotherapy in esophageal cancer.
Clin Cancer Res 10: 3794-9 (2004)
PM ID: 15173087
398: Dong D, Dubeau L, Bading JR, Nguyen K, Luna M, Yu H, Gazit-Bornstein G, Gordon EM, Gomer CJ, Hall FL, Gambhir SS, Lee AS
Spontaneous and controllable activation of suicide gene expression driven by the stress-inducible grp78 promoter resulting in eradication of sizable human tumors.
Hum Gene Ther 15: 553-61 (2004)
PM ID: 15212714
399: Chen X, Tohme M, Park R, Hou Y, Bading JR, Conti PS
Micro-PET imaging of alphavbeta3-integrin expression with 18F-labeled dimeric RGD peptide.
Mol Imaging 3: 96-104 (2004)
PM ID: 15296674
400: Chen X, Hou Y, Tohme M, Park R, Khankaldyyan V, Gonzales-Gomez I, Bading JR, Laug WE, Conti PS
Pegylated Arg-Gly-Asp peptide: 64Cu labeling and PET imaging of brain tumor alphavbeta3-integrin expression.
J Nucl Med 45: 1776-83 (2004)
PM ID: 15471848
401: Kaliman P, Catalucci D, Lam JT, Kondo R, Gutiérrez JC, Reddy S, Palacín M, Zorzano A, Chien KR, Ruiz-Lozano P
Myotonic dystrophy protein kinase phosphorylates phospholamban and regulates calcium uptake in cardiomyocyte sarcoplasmic reticulum.
J Biol Chem 280: 8016-21 (2004)
PM ID: 15598648
402: Brabender J, Metzger R, Salonga D, Danenberg KD, Danenberg PV, Hölscher AH, Schneider PM
Comprehensive expression analysis of retinoic acid receptors and retinoid X receptors in non-small cell lung cancer: implications for tumor development and prognosis.
Carcinogenesis 26: 525-30 (2004)
PM ID: 15618235
403: Quach N, Goodman MF, Shibata D
In vitro mutation artifacts after formalin fixation and error prone translesion synthesis during PCR.
BMC Clin Pathol 4: 1 (2004)
PM ID: 15028125
404: Siam R, Dolan WP, Forsburg SL
Choosing and using Schizosaccharomyces pombe plasmids.
Methods 33: 189-98 (2005)
PM ID: 15157885
405: Tippin B, Pham P, Goodman MF
Error-prone replication for better or worse.
Trends Microbiol 12: 288-95 (2005)
PM ID: 15165607
406: Karanjawala ZE, Lieber MR
DNA damage and aging.
Mech Ageing Dev 125: 405-16 (2005)
PM ID: 15272504
407: Gibson DG, Aparicio JG, Hu F, Aparicio OM
Diminished S-phase cyclin-dependent kinase function elicits vital Rad53-dependent checkpoint responses in Saccharomyces cerevisiae.
Mol Cell Biol 24: 10208-22 (2005)
PM ID: 15542831 PMC529053
408: Olsson MH, Warshel A
Solute solvent dynamics and energetics in enzyme catalysis: the S(N)2 reaction of dehalogenase as a general benchmark.
J Am Chem Soc 126: 15167-79 (2005)
PM ID: 15548014
409: Ma Y, Lu H, Tippin B, Goodman MF, Shimazaki N, Koiwai O, Hsieh CL, Schwarz K, Lieber MR
A biochemically defined system for mammalian nonhomologous DNA end joining.
Mol Cell 16: 701-13 (2005)
PM ID: 15574326
410: Irvine RA, Adachi N, Shibata DK, Cassell GD, Yu KJ, Karanjawala ZE, Hsieh CL, Lieber MR
Generation and characterization of endonuclease G null mice.
Mol Cell Biol 25: 294-302 (2005)
PM ID: 15601850 PMC538798
411: Zhou XJ, Kao MC, Huang H, Wong A, Nunez-Iglesias J, Primig M, Aparicio OM, Finch CE, Morgan TE, Wong WH
Functional annotation and network reconstruction through cross-platform integration of microarray data.
Nat Biotechnol 23: 238-43 (2005)
PM ID: 15654329
412: Lieber MR, Ma Y, Pannicke U, Schwarz K
The mechanism of vertebrate nonhomologous DNA end joining and its role in V(D)J recombination.
DNA Repair (Amst) 3: 817-26 (2005)
PM ID: 15279766
413: Leclerc N, Luppen CA, Ho VV, Nagpal S, Hacia JG, Smith E, Frenkel B
Gene expression profiling of glucocorticoid-inhibited osteoblasts.
J Mol Endocrinol 33: 175-93 (2005)
PM ID: 15291752
414: Comai L, Li B
The Werner syndrome protein at the crossroads of DNA repair and apoptosis.
Mech Ageing Dev 125: 521-8 (2005)
PM ID: 15336909
415: Pankratz DG, Forsburg SL
Meiotic S-phase damage activates recombination without checkpoint arrest.
Mol Biol Cell 16: 1651-60 (2005)
PM ID: 15689488 PMC1073649
416: Goodman MF, Scharff MD
Identifying protein-protein interactions in somatic hypermutation.
J Exp Med 201: 493-6 (2005)
PM ID: 15710655 PMC2213056
417: Karaman MW, Groshen S, Lee CC, Pike BL, Hacia JG
Comparisons of substitution, insertion and deletion probes for resequencing and mutational analysis using oligonucleotide microarrays.
Nucleic Acids Res 33: e33 (2005)
PM ID: 15722479 PMC549431
418: Ege M, Ma Y, Manfras B, Kalwak K, Lu H, Lieber MR, Schwarz K, Pannicke U
Omenn syndrome due to ARTEMIS mutations.
Blood 105: 4179-86 (2005)
PM ID: 15731174
419: Chen X, Liu S, Hou Y, Tohme M, Park R, Bading JR, Conti PS
MicroPET imaging of breast cancer alphav-integrin expression with 64Cu-labeled dimeric RGD peptides.
Mol Imaging Biol 6: 350-9 (2005)
PM ID: 15380745
420: Braun-Sand S, Strajbl M, Warshel A
Studies of proton translocations in biological systems: simulating proton transport in carbonic anhydrase by EVB-based models.
Biophys J 87: 2221-39 (2005)
PM ID: 15454425 PMC1304648
421: Shakib S, Zheng HJ, Johnson CA, Chen X, Sun P, Palmer PH, Yan L, Jie G, Unger JB
Family characteristics and smoking among urban and rural adolescents living in China.
Prev Med 40: 83-91 (2005)
PM ID: 15530584
422: Zheng HJ, Sussman S, Chen X, Wang Y, Xia J, Gong JZ, Liu CW, Shan J, Unger JB, Johnson CA
Project EX--a teen smoking cessation initial study in Wuhan, China.
Addict Behav 29: 1725-33 (2005)
PM ID: 15530717
423: Yu KJ, Roy D, Bayramyan M, Haworth IS, Lieber MR
Fine-structure analysis of activation-induced deaminase accessibility to class switch region R-loops.
Mol Cell Biol 25: 1730-6 (2005)
PM ID: 15713630 PMC549380
424: Schlacher K, Leslie K, Wyman C, Woodgate R, Cox MM, Goodman MF
DNA polymerase V and RecA protein, a minimal mutasome.
Mol Cell 17: 561-72 (2005)
PM ID: 15721259
425: Schneider S, Uchida K, Brabender J, Baldus SE, Yochim JM, Danenberg KD, Salonga D, Chen PC, Tsao-Wei DD, Groshen S, Hoelscher AH, Schneider PM, Danenberg PV
Downregulation of TS, DPD, ERCC1, GST-Pi, EGFR, and HER2 gene expression after neoadjuvant three-modality treatment in patients with esophageal cancer.
J Am Coll Surg 200: 336-44 (2005)
PM ID: 15737843
426: Smith E, Meyerrose TE, Kohler T, Namdar-Attar M, Bab N, Lahat O, Noh T, Li JZ, Karaman MW, Hacia JG, Chen TT, Nolta JA, Müller R, Bab I, Frenkel B
Leaky ribosomal scanning in mammalian genomes: significance of histone H4 alternative translation in vivo.
Nucleic Acids Res 33: 1298-308 (2005)
PM ID: 15741183 PMC552952
427: Hsieh CL
The de novo methylation activity of Dnmt3a is distinctly different than that of Dnmt1.
BMC Biochem 6: 6 (2005)
PM ID: 15799776 PMC1084342
428: Dolan WP, Sherman DA, Forsburg SL
Schizosaccharomyces pombe replication protein Cdc45/Sna41 requires Hsk1/Cdc7 and Rad4/Cut5 for chromatin binding.
Chromosoma 113: 145-56 (2005)
PM ID: 15338237
429: Rentsendorj A, Agadjanian H, Chen X, Cirivello M, Macveigh M, Kedes L, Hamm-Alvarez SF, Medina-Kauwe LK
The Ad5 fiber mediates nonviral gene transfer in the absence of the whole virus, utilizing a novel cell entry pathway.
Gene Ther 12: 225-37 (2005)
PM ID: 15483666
430: Personius KE, Nautiyal J, Reddy S
Myotonia and muscle contractile properties in mice with SIX5 deficiency.
Muscle Nerve 31: 503-5 (2005)
PM ID: 15536612
431: Larijani M, Frieder D, Sonbuchner TM, Bransteitter R, Goodman MF, Bouhassira EE, Scharff MD, Martin A
Methylation protects cytidines from AID-mediated deamination.
Mol Immunol 42: 599-604 (2005)
PM ID: 15607819
432: Warshel A
Inverting the selectivity of aquaporin 6: gating versus direct electrostatic interaction.
Proc Natl Acad Sci U S A 102: 1813-4 (2005)
PM ID: 15684047 PMC548591
433: Chen X, Plasencia C, Hou Y, Neamati N
Synthesis and biological evaluation of dimeric RGD peptide-paclitaxel conjugate as a model for integrin-targeted drug delivery.
J Med Chem 48: 1098-106 (2005)
PM ID: 15715477
434: Pham P, Bransteitter R, Goodman MF
Reward versus risk: DNA cytidine deaminases triggering immunity and disease.
Biochemistry 44: 2703-15 (2005)
PM ID: 15723516
435: Raghavan SC, Chastain P, Lee JS, Hegde BG, Houston SI, Langen R, Hsieh CL, Haworth IS, Lieber MR
Evidence for a triplex DNA conformation at the bcl-2 major breakpoint region of the t(14;18) translocation.
J Biol Chem 280: 22749-60 (2005)
PM ID: 15840562
436: Nishiyama R, Qi L, Tsumagari K, Weissbecker K, Dubeau L, Champagne M, Sikka S, Nagai H, Ehrlich M
A DNA repeat, NBL2, is hypermethylated in some cancers but hypomethylated in others.
Cancer Biol Ther 4: 440-8 (2005)
PM ID: 15846090
437: Zhang B, Groffen J, Heisterkamp N
Resistance to farnesyltransferase inhibitors in Bcr/Abl-positive lymphoblastic leukemia by increased expression of a novel ABC transporter homolog ATP11a.
Blood 106: 1355-61 (2005)
PM ID: 15860663 PMC1895195
438: Florián J, Goodman MF, Warshel A
Computer simulations of protein functions: searching for the molecular origin of the replication fidelity of DNA polymerases.
Proc Natl Acad Sci U S A 102: 6819-24 (2005)
PM ID: 15863620 PMC1100748
439: Kuramochi H, Vallböhmer D, Uchida K, Schneider S, Hamoui N, Shimizu D, Chandrasoma PT, DeMeester TR, Danenberg KD, Danenberg PV, Peters JH
Quantitative, tissue-specific analysis of cyclooxygenase gene expression in the pathogenesis of Barrett's adenocarcinoma.
J Gastrointest Surg 8: 1007-16; discussion 1016-7 (2005)
PM ID: 15585388
440: Grunau C, Sanchez C, Ehrlich M, van der Bruggen P, Hindermann W, Rodriguez C, Krieger S, Dubeau L, Fiala E, De Sario A
Frequent DNA hypomethylation of human juxtacentromeric BAGE loci in cancer.
Genes Chromosomes Cancer 43: 11-24 (2005)
PM ID: 15704127
441: Chodankar R, Kwang S, Sangiorgi F, Hong H, Yen HY, Deng C, Pike MC, Shuler CF, Maxson R, Dubeau L
Cell-nonautonomous induction of ovarian and uterine serous cystadenomas in mice lacking a functional Brca1 in ovarian granulosa cells.
Curr Biol 15: 561-5 (2005)
PM ID: 15797026
442: Olsson MH, Sharma PK, Warshel A
Simulating redox coupled proton transfer in cytochrome c oxidase: looking for the proton bottleneck.
FEBS Lett 579: 2026-34 (2005)
PM ID: 15811313
443: Law MJ, Chambers EJ, Katsamba PS, Haworth IS, Laird-Offringa IA
Kinetic analysis of the role of the tyrosine 13, phenylalanine 56 and glutamine 54 network in the U1A/U1 hairpin II interaction.
Nucleic Acids Res 33: 2917-28 (2005)
PM ID: 15914668 PMC1140079
444: Joshi MB, Shirota Y, Danenberg KD, Conlon DH, Salonga DS, Herndon JE, Danenberg PV, Harpole DH
High gene expression of TS1, GSTP1, and ERCC1 are risk factors for survival in patients treated with trimodality therapy for esophageal cancer.
Clin Cancer Res 11: 2215-21 (2005)
PM ID: 15788669
445: Magda D, Lecane PS, Miller RA, Lepp C, Miles D, Mesfin M, Biaglow JE, Ho VV, Chawannakul D, Nagpal S, Karaman MW, Hacia JG
Motexafin gadolinium disrupts zinc metabolism in human cancer cell lines.
Cancer Res 65: 3837-45 (2005)
PM ID: 15867382
446: Yang R, Wheeler CM, Chen X, Uematsu S, Takeda K, Akira S, Pastrana DV, Viscidi RP, Roden RB
Papillomavirus capsid mutation to escape dendritic cell-dependent innate immunity in cervical cancer.
J Virol 79: 6741-50 (2005)
PM ID: 15890912 PMC1112150
447: Kim JY, Beart RW, Shibata D
Stability of colon stem cell methylation after neo-adjuvant therapy in a patient with attenuated familial adenomatous polyposis.
BMC Gastroenterol 5: 19 (2005)
PM ID: 15941485 PMC1164411
448: Hu F, Aparicio OM
Swe1 regulation and transcriptional control restrict the activity of mitotic cyclins toward replication proteins in Saccharomyces cerevisiae.
Proc Natl Acad Sci U S A 102: 8910-5 (2005)
PM ID: 15956196 PMC1157011
449: Subramanian J, Vijayakumar S, Tomkinson AE, Arnheim N
Genetic instability induced by overexpression of DNA ligase I in budding yeast.
Genetics 171: 427-41 (2005)
PM ID: 15965249 PMC1456761
450: Kim JY, Siegmund KD, Tavaré S, Shibata D
Age-related human small intestine methylation: evidence for stem cell niches.
BMC Med 3: 10 (2005)
PM ID: 15975143 PMC1168897
451: Xu J, Dimitrov L, Chang BL, Adams TS, Turner AR, Meyers DA, Eeles RA, Easton DF, Foulkes WD, Simard J, Giles GG, Hopper JL, Mahle L, Moller P, Bishop T, Evans C, Edwards SM, Meitz J, Bullock S, Hope Q, Hsieh CL, Halpern J, Balise RN, Oakley-Girvan I, Whittemore AS, Ewing CM, Gielzak M, Isaacs SD, Walsh PC, Wiley KE, Isaacs WB, Thibodeau SN, McDonnell SK, Cunningham JM, Zarfas KE, Hebbring S, Schaid DJ, Friedrichsen DM, Deutsch K, Kolb S, Badzioch M, Jarvik GP, Janer M, Hood L, Ostrander EA, Stanford JL, Lange EM, Beebe-Dimmer JL, Mohai CE, Cooney KA, Ikonen T, Baffoe-Bonnie A, Fredriksson H, Matikainen MP, Tammela TLj, Bailey-Wilson J, Schleutker J, Maier C, Herkommer K, Hoegel JJ, Vogel W, Paiss T, Wiklund F, Emanuelsson M, Stenman E, Jonsson BA, Gronberg H, Camp NJ, Farnham J, Cannon-Albright LA, Seminara D, ACTANE Consortium
A combined genomewide linkage scan of 1,233 families for prostate cancer-susceptibility genes conducted by the international consortium for prostate cancer genetics.
Am J Hum Genet 77: 219-29 (2005)
PM ID: 15988677 PMC1224525
452: Pannicke U, Ma Y, Hopfner KP, Niewolik D, Lieber MR, Schwarz K
Functional and biochemical dissection of the structure-specific nuclease ARTEMIS.
EMBO J 23: 1987-97 (2005)
PM ID: 15071507 PMC404326
453: Kabbarah O, Sotelo AK, Mallon MA, Winkeler EL, Fan MY, Pfeifer JD, Shibata D, Gutmann DH, Goodfellow PJ
Diethylstilbestrol effects and lymphomagenesis in Mlh1-deficient mice.
Int J Cancer 115: 666-9 (2005)
PM ID: 15700306
454: Chen X, Sievers E, Hou Y, Park R, Tohme M, Bart R, Bremner R, Bading JR, Conti PS
Integrin alpha v beta 3-targeted imaging of lung cancer.
Neoplasia 7: 271-9 (2005)
PM ID: 15799827 PMC1501139
455: Haile RW, Yochim JM, Cortessis VK, Lin J, Levine AJ, Diep AT, Danenberg K, Danenberg P
A molecular/epidemiologic analysis of expression of cyclooxygenases 1 and 2, use of nonsteroidal antiinflammatory drugs, and risk of colorectal adenoma.
Clin Colorectal Cancer 4: 390-5 (2005)
PM ID: 15807932
456: Kakimoto M, Uetake H, Osanai T, Shirota Y, Takagi Y, Takeshita E, Toriya Y, Danenberg K, Danenberg PV, Sugihara K
Thymidylate synthase and dihydropyrimidine dehydrogenase gene expression in breast cancer predicts 5-FU sensitivity by a histocultural drug sensitivity test.
Cancer Lett 223: 103-11 (2005)
PM ID: 15890242
457: Xu Y, Chen X, Li YT
Ercc6l, a gene of SNF2 family, may play a role in the teratogenic action of alcohol.
Toxicol Lett 157: 233-9 (2005)
PM ID: 15917148
458: Xia G, Kumar SR, Masood R, Zhu SH, Reddy RK, Krasnoperov V, Quinn DI, Henshall SM, Sutherland RL, Pinski JK, Daneshmand S, Buscarini M, Stein JP, Zhong C, Broek D, Roy-Burman P, Gill PS
EphB4 expression and biological significance in prostate cancer.
Cancer Res 65: 4623-32 (2005)
PM ID: 15930280
459: Hu-Lieskovan S, Zhang J, Wu L, Shimada H, Schofield DE, Triche TJ
EWS-FLI1 fusion protein up-regulates critical genes in neural crest development and is responsible for the observed phenotype of Ewing's family of tumors.
Cancer Res 65: 4633-44 (2005)
PM ID: 15930281
460: Li YF, Tsao YH, Gauderman WJ, Conti DV, Avol E, Dubeau L, Gilliland FD
Intercellular adhesion molecule-1 and childhood asthma.
Hum Genet 117: 476-84 (2005)
PM ID: 16021473
461: Tippin B, Pham P, Bransteitter R, Goodman MF
Somatic hypermutation: a mutational panacea.
Adv Protein Chem 69: 307-35 (2005)
PM ID: 15588848
462: Zheng YT, Haworth IS, Zuo Z, Chow MS, Chow AH
Physicochemical and structural characterization of quercetin-beta-cyclodextrin complexes.
J Pharm Sci 94: 1079-89 (2005)
PM ID: 15793810
463: Uchida K, Schneider S, Yochim JM, Kuramochi H, Hayashi K, Takasaki K, Yang D, Danenberg KD, Danenberg PV
Intratumoral COX-2 gene expression is a predictive factor for colorectal cancer response to fluoropyrimidine-based chemotherapy.
Clin Cancer Res 11: 3363-8 (2005)
PM ID: 15867236
464: Cho YJ, Zhang B, Kaartinen V, Haataja L, de Curtis I, Groffen J, Heisterkamp N
Generation of rac3 null mutant mice: role of Rac3 in Bcr/Abl-caused lymphoblastic leukemia.
Mol Cell Biol 25: 5777-85 (2005)
PM ID: 15964830 PMC1157002
465: Yanagawa B, Taylor L, Deisher TA, Ng R, Schreiner GF, Triche TJ, Yang D, McManus BM
Affymetrix oligonucleotide analysis of gene expression in the injured heart.
Methods Mol Med 112: 305-20 (2005)
PM ID: 16010026
466: Ma Y, Pannicke U, Lu H, Niewolik D, Schwarz K, Lieber MR
The DNA-dependent protein kinase catalytic subunit phosphorylation sites in human Artemis.
J Biol Chem 280: 33839-46 (2005)
PM ID: 16093244
467: Zheng YT, Fu XD, Ou JH
Suppression of hepatitis B virus replication by SRPK1 and SRPK2 via a pathway independent of the phosphorylation of the viral core protein.
Virology 342: 150-8 (2005)
PM ID: 16122776
468: Cho YJ, Hemmeryckx B, Groffen J, Heisterkamp N
Interaction of Bcr/Abl with C3G, an exchange factor for the small GTPase Rap1, through the adapter protein Crkl.
Biochem Biophys Res Commun 333: 1276-83 (2005)
PM ID: 15982636
469: Raghavan SC, Swanson PC, Ma Y, Lieber MR
Double-strand break formation by the RAG complex at the bcl-2 major breakpoint region and at other non-B DNA structures in vitro.
Mol Cell Biol 25: 5904-19 (2005)
PM ID: 15988007 PMC1168826
470: Yang S, Zhong C, Frenkel B, Reddi AH, Roy-Burman P
Diverse biological effect and Smad signaling of bone morphogenetic protein 7 in prostate tumor cells.
Cancer Res 65: 5769-77 (2005)
PM ID: 15994952
471: Raghavan SC, Hsieh CL, Lieber MR
Both V(D)J coding ends but neither signal end can recombine at the bcl-2 major breakpoint region, and the rejoining is ligase IV dependent.
Mol Cell Biol 25: 6475-84 (2005)
PM ID: 16024785 PMC1190333
472: Banerjee R, Weidman MK, Navarro S, Comai L, Dasgupta A
Modifications of both selectivity factor and upstream binding factor contribute to poliovirus-mediated inhibition of RNA polymerase I transcription.
J Gen Virol 86: 2315-22 (2005)
PM ID: 16033979
473: Roy-Burman P, Tindall DJ, Robins DM, Greenberg NM, Hendrix MJ, Mohla S, Getzenberg RH, Isaacs JT, Pienta KJ
Androgens and prostate cancer: are the descriptors valid?
Cancer Biol Ther 4: 4-5 (2005)
PM ID: 16052746
474: Zhang C, Comai L, Johnson DL
PTEN represses RNA Polymerase I transcription by disrupting the SL1 complex.
Mol Cell Biol 25: 6899-911 (2005)
PM ID: 16055704 PMC1190253
475: Ma Y, Lu H, Schwarz K, Lieber MR
Repair of double-strand DNA breaks by the human nonhomologous DNA end joining pathway: the iterative processing model.
Cell Cycle 4: 1193-200 (2005)
PM ID: 16082219
476: Wenten M, Berhane K, Rappaport EB, Avol E, Tsai WW, Gauderman WJ, McConnell R, Dubeau L, Gilliland FD
TNF-308 modifies the effect of second-hand smoke on respiratory illness-related school absences.
Am J Respir Crit Care Med 172: 1563-8 (2005)
PM ID: 16166621 PMC2718456
477: Chen ZX, Mann JR, Hsieh CL, Riggs AD, Chédin F
Physical and functional interactions between the human DNMT3L protein and members of the de novo methyltransferase family.
J Cell Biochem 95: 902-17 (2005)
PM ID: 15861382
478: Ma Y, Schwarz K, Lieber MR
The Artemis:DNA-PKcs endonuclease cleaves DNA loops, flaps, and gaps.
DNA Repair (Amst) 4: 845-51 (2005)
PM ID: 15936993
479: Duquette ML, Pham P, Goodman MF, Maizels N
AID binds to transcription-induced structures in c-MYC that map to regions associated with translocation and hypermutation.
Oncogene 24: 5791-8 (2005)
PM ID: 15940261
480: Kuschel B, Chenevix-Trench G, Spurdle AB, Chen X, Hopper JL, Giles GG, McCredie M, Chang-Claude J, Gregory CS, Day NE, Easton DF, Ponder BA, Dunning AM, Pharoah PD
Common polymorphisms in ERCC2 (Xeroderma pigmentosum D) are not associated with breast cancer risk.
Cancer Epidemiol Biomarkers Prev 14: 1828-31 (2005)
PM ID: 16030124
481: Forsburg SL
The yeasts Saccharomyces cerevisiae and Schizosaccharomyces pombe: models for cell biology research.
Gravit Space Biol Bull 18: 3-9 (2005)
PM ID: 16038088
482: Szyjka SJ, Viggiani CJ, Aparicio OM
Mrc1 is required for normal progression of replication forks throughout chromatin in S. cerevisiae.
Mol Cell 19: 691-7 (2005)
PM ID: 16137624
483: Calabrese P, Mecklin JP, Järvinen HJ, Aaltonen LA, Tavaré S, Shibata D
Numbers of mutations to different types of colorectal cancer.
BMC Cancer 5: 126 (2005)
PM ID: 16202134 PMC1266026
484: Shen X, Woodgate R, Goodman MF
Lyase activities intrinsic to Escherichia coli polymerases IV and V.
DNA Repair (Amst) 4: 1368-73 (2005)
PM ID: 16202661
485: Jin W, Kim BC, Tognon C, Lee HJ, Patel SK, Lannon CL, Maris JM, Triche TJ, Sorensen PH, Kim SJ
The ETV6-NTRK3 chimeric tyrosine kinase suppresses TGF-beta signaling by inactivating the TGF-beta type II receptor.
Proc Natl Acad Sci U S A 102: 16239-44 (2005)
PM ID: 16258068 PMC1283417
486: Sharma PK, Xiang YB, Kato M, Warshel A
What are the roles of substrate-assisted catalysis and proximity effects in peptide bond formation by the ribosome?
Biochemistry 44: 11307-14 (2005)
PM ID: 16114867
487: Man TK, Chintagumpala M, Visvanathan J, Shen J, Perlaky L, Hicks J, Johnson M, Davino N, Murray J, Helman L, Meyer WH, Triche TJ, Wong KK, Lau CC
Expression profiles of osteosarcoma that can predict response to chemotherapy.
Cancer Res 65: 8142-50 (2005)
PM ID: 16166288
488: Indiani C, McInerney P, Georgescu R, Goodman MF, O'Donnell ME
A sliding-clamp toolbelt binds high- and low-fidelity DNA polymerases simultaneously.
Mol Cell 19: 805-15 (2005)
PM ID: 16168375
489: Brabender J, Marjoram P, Lord RV, Metzger R, Salonga D, Vallböhmer D, Schäfer H, Danenberg KD, Danenberg PV, Selaru FM, Baldus SE, Hölscher AH, Meltzer SJ, Schneider PM
The molecular signature of normal squamous esophageal epithelium identifies the presence of a field effect and can discriminate between patients with Barrett's esophagus and patients with Barrett's-associated adenocarcinoma.
Cancer Epidemiol Biomarkers Prev 14: 2113-7 (2005)
PM ID: 16172218
490: Salvatori S, Fanin M, Trevisan CP, Furlan S, Reddy S, Nagy JI, Angelini C
Decreased expression of DMPK: correlation with CTG repeat expansion and fibre type composition in myotonic dystrophy type 1.
Neurol Sci 26: 235-42 (2005)
PM ID: 16193250
491: Gómez EB, Espinosa JM, Forsburg SL
Schizosaccharomyces pombe mst2+ encodes a MYST family histone acetyltransferase that negatively regulates telomere silencing.
Mol Cell Biol 25: 8887-903 (2005)
PM ID: 16199868 PMC1265769
492: Huang HK, Bailis JM, Leverson JD, Gómez EB, Forsburg SL, Hunter T
Suppressors of Bir1p (Survivin) identify roles for the chromosomal passenger protein Pic1p (INCENP) and the replication initiation factor Psf2p in chromosome segregation.
Mol Cell Biol 25: 9000-15 (2005)
PM ID: 16199877 PMC1265766
493: Vallböhmer D, Peters JH, Oh D, Kuramochi H, Shimizu D, DeMeester SR, Hagen JA, Chandrasoma PT, Danenberg KD, DeMeester TR, Danenberg P
Survivin, a potential biomarker in the development of Barrett's adenocarcinoma.
Surgery 138: 701-6; discussion 706-7 (2005)
PM ID: 16269299
494: Raghavan SC, Tong J, Lieber MR
Hybrid joint formation in human V(D)J recombination requires nonhomologous DNA end joining.
DNA Repair (Amst) 5: 278-85 (2005)
PM ID: 16275127
495: Kim JY, Tavaré S, Shibata D
Counting human somatic cell replications: methylation mirrors endometrial stem cell divisions.
Proc Natl Acad Sci U S A 102: 17739-44 (2005)
PM ID: 16314580 PMC1308885
496: Miyoshi Y, Uemura H, Ishiguro H, Kitamura H, Nomura N, Danenberg PV, Kubota Y
Expression of thymidylate synthase, dihydropyrimidine dehydrogenase, thymidine phosphorylase, and orotate phosphoribosyl transferase in prostate cancer.
Prostate Cancer Prostatic Dis 8: 260-5 (2005)
PM ID: 15999119
497: Shimizu D, Ishikawa T, Ichikawa Y, Togo S, Hayasizaki Y, Okazaki Y, Danenberg PV, Shimada H
Prediction of chemosensitivity of colorectal cancer to 5-fluorouracil by gene expression profiling with cDNA microarrays.
Int J Oncol 27: 371-6 (2005)
PM ID: 16010417
498: Koochekpour S, Zhuang YJ, Beroukhim R, Hsieh CL, Hofer MD, Zhau HE, Hiraiwa M, Pattan DY, Ware JL, Luftig RB, Sandhoff K, Sawyers CL, Pienta KJ, Rubin MA, Vessella RL, Sellers WR, Sartor O
Amplification and overexpression of prosaposin in prostate cancer.
Genes Chromosomes Cancer 44: 351-64 (2005)
PM ID: 16080200
499: Pan J, Al-Dubaib M, Liao CP, Fujino Y, Hinton DR, Hayes KA, Mathes LE, Roy-Burman P
In vivo expression of GFP transgene delivered via a replicating feline leukemia virus.
Vet Microbiol 110: 181-95 (2005)
PM ID: 16143471
500: Popielarski SR, Hu-Lieskovan S, French SW, Triche TJ, Davis ME
A nanoparticle-based model delivery system to guide the rational design of gene delivery to the liver. 2. In vitro and in vivo uptake results.
Bioconjug Chem 16: 1071-80 (2005)
PM ID: 16173782
501: Chen PC, Dudley S, Hagen W, Dizon D, Paxton L, Reichow D, Yoon SR, Yang K, Arnheim N, Liskay RM, Lipkin SM
Contributions by MutL homologues Mlh3 and Pms2 to DNA mismatch repair and tumor suppression in the mouse.
Cancer Res 65: 8662-70 (2005)
PM ID: 16204034
502: Hu-Lieskovan S, Heidel JD, Bartlett DW, Davis ME, Triche TJ
Sequence-specific knockdown of EWS-FLI1 by targeted, nonviral delivery of small interfering RNA inhibits tumor growth in a murine model of metastatic Ewing's sarcoma.
Cancer Res 65: 8984-92 (2005)
PM ID: 16204072
503: Sheng Z, Liang Y, Lin CY, Comai L, Chirico WJ
Direct regulation of rRNA transcription by fibroblast growth factor 2.
Mol Cell Biol 25: 9419-26 (2005)
PM ID: 16227592 PMC1265826
504: Lord RV, Brabender J, Wickramasinghe K, DeMeester SR, Holscher A, Schneider PM, Danenberg PV, DeMeester TR
Increased CDX2 and decreased PITX1 homeobox gene expression in Barrett's esophagus and Barrett's-associated adenocarcinoma.
Surgery 138: 924-31 (2006)
PM ID: 16291394
505: Law MJ, Linde ME, Chambers EJ, Oubridge C, Katsamba PS, Nilsson L, Haworth IS, Laird-Offringa IA
The role of positively charged amino acids and electrostatic interactions in the complex of U1A protein and U1 hairpin II RNA.
Nucleic Acids Res 34: 275-85 (2006)
PM ID: 16407334 PMC1326249
506: Goll MG, Kirpekar F, Maggert KA, Yoder JA, Hsieh CL, Zhang XK, Golic KG, Jacobsen SE, Bestor TH
Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2.
Science 311: 395-8 (2006)
PM ID: 16424344
507: Lecane PS, Karaman MW, Sirisawad M, Naumovski L, Miller RA, Hacia JG, Magda D
Motexafin gadolinium and zinc induce oxidative stress responses and apoptosis in B-cell lymphoma lines.
Cancer Res 65: 11676-88 (2006)
PM ID: 16357179
508: Buck D, Moshous D, de Chasseval R, Ma Y, le Deist F, Cavazzana-Calvo M, Fischer A, Casanova JL, Lieber MR, de Villartay JP
Severe combined immunodeficiency and microcephaly in siblings with hypomorphic mutations in DNA ligase IV.
Eur J Immunol 36: 224-35 (2006)
PM ID: 16358361
509: Dhillon N, Oki M, Szyjka SJ, Aparicio OM, Kamakaka RT
H2A.Z functions to regulate progression through the cell cycle.
Mol Cell Biol 26: 489-501 (2006)
PM ID: 16382141 PMC1346916
510: Kuramochi H, Hayashi K, Uchida K, Miyakura S, Shimizu D, Vallböhmer D, Park SY, Danenberg KD, Takasaki K, Danenberg PV
Vascular endothelial growth factor messenger RNA expression level is preserved in liver metastases compared with corresponding primary colorectal cancer.
Clin Cancer Res 12: 29-33 (2006)
PM ID: 16397020
511: Finkel SE
Long-term survival during stationary phase: evolution and the GASP phenotype.
Nat Rev Microbiol 4: 113-20 (2006)
PM ID: 16415927
512: Khodavirdi AC, Song Z, Yang S, Zhong C, Wang S, Wu H, Pritchard C, Nelson PS, Roy-Burman P
Increased expression of osteopontin contributes to the progression of prostate cancer.
Cancer Res 66: 883-8 (2006)
PM ID: 16424021
513: Wesoly J, Agarwal S, Sigurdsson S, Bussen W, Van Komen S, Qin J, van Steeg H, van Benthem J, Wassenaar E, Baarends WM, Ghazvini M, Tafel AA, Heath H, Galjart N, Essers J, Grootegoed JA, Arnheim N, Bezzubova O, Buerstedde JM, Sung P, Kanaar R
Differential contributions of mammalian Rad54 paralogs to recombination, DNA damage repair, and meiosis.
Mol Cell Biol 26: 976-89 (2006)
PM ID: 16428451 PMC1347043
514: Li YF, Gauderman WJ, Avol E, Dubeau L, Gilliland FD
Associations of tumor necrosis factor G-308A with childhood asthma and wheezing.
Am J Respir Crit Care Med 173: 970-6 (2006)
PM ID: 16456144 PMC2662916
515: Greiner TC, Dasgupta C, Ho VV, Weisenburger DD, Smith LM, Lynch JC, Vose JM, Fu K, Armitage JO, Braziel RM, Campo E, Delabie J, Gascoyne RD, Jaffe ES, Muller-Hermelink HK, Ott G, Rosenwald A, Staudt LM, Im MY, Karaman MW, Pike BL, Chan WC, Hacia JG
Mutation and genomic deletion status of ataxia telangiectasia mutated (ATM) and p53 confer specific gene expression profiles in mantle cell lymphoma.
Proc Natl Acad Sci U S A 103: 2352-7 (2006)
PM ID: 16461462 PMC1413716
516: Chen X, Tan Y, Li Z, Wu J
[Evaluating the impact of human papilloma virus infection on prognosis of juvenile laryngeal papilloma]
Lin Chuang Er Bi Yan Hou Ke Za Zhi 16: 109-10 (2006)
PM ID: 15510659
517: Huang FT, Yu KJ, Hsieh CL, Lieber MR
Downstream boundary of chromosomal R-loops at murine switch regions: implications for the mechanism of class switch recombination.
Proc Natl Acad Sci U S A 103: 5030-5 (2006)
PM ID: 16547142 PMC1458789
518: Cunnick J, Kaur P, Cho YH, Groffen J, Heisterkamp N
Use of bone marrow-derived macrophages to model murine innate immune responses.
J Immunol Methods 311: 96-105 (2006)
PM ID: 16563426
519: Erdreich-Epstein A, Ganguly AK, Shi XH, Zimonjic DB, Shackleford GM
Androgen inducibility of Fgf8 in Shionogi carcinoma 115 cells correlates with an adjacent t(5;19) translocation.
Genes Chromosomes Cancer 45: 169-81 (2006)
PM ID: 16252261
520: Chen X, Park R, Khankaldyyan V, Gonzales-Gomez I, Tohme M, Moats RA, Bading JR, Laug WE, Conti PS
Longitudinal microPET imaging of brain tumor growth with F-18-labeled RGD peptide.
Mol Imaging Biol 8: 9-15 (2006)
PM ID: 16315003
521: Schlacher K, Pham P, Cox MM, Goodman MF
Roles of DNA polymerase V and RecA protein in SOS damage-induced mutation.
Chem Rev 106: 406-19 (2006)
PM ID: 16464012
522: Zhong C, Saribekyan G, Liao CP, Cohen MB, Roy-Burman P
Cooperation between FGF8b overexpression and PTEN deficiency in prostate tumorigenesis.
Cancer Res 66: 2188-94 (2006)
PM ID: 16489020
523: Blavier L, Lazaryev A, Dorey F, Shackleford GM, Declerck YA
Matrix metalloproteinases play an active role in Wnt1-induced mammary tumorigenesis.
Cancer Res 66: 2691-9 (2006)
PM ID: 16510589
524: Odin E, Wettergren Y, Carlsson G, Danenberg PV, Termini A, Willén R, Gustavsson B
Expression and clinical significance of methylenetetrahydrofolate reductase in patients with colorectal cancer.
Clin Colorectal Cancer 5: 344-9 (2006)
PM ID: 16512993
525: Olsson MH, Warshel A
Monte Carlo simulations of proton pumps: on the working principles of the biological valve that controls proton pumping in cytochrome c oxidase.
Proc Natl Acad Sci U S A 103: 6500-5 (2006)
PM ID: 16614069 PMC1458913
526: Chelico L, Pham P, Calabrese P, Goodman MF
APOBEC3G DNA deaminase acts processively 3' --> 5' on single-stranded DNA.
Nat Struct Mol Biol 13: 392-9 (2006)
PM ID: 16622407
527: Bransteitter R, Sneeden JL, Allen S, Pham P, Goodman MF
First AID (activation-induced cytidine deaminase) is needed to produce high affinity isotype-switched antibodies.
J Biol Chem 281: 16833-6 (2006)
PM ID: 16624806
528: Kroeger KM, Kim J, Goodman MF, Greenberg MM
Replication of an oxidized abasic site in Escherichia coli by a dNTP-stabilized misalignment mechanism that reads upstream and downstream nucleotides.
Biochemistry 45: 5048-56 (2006)
PM ID: 16605273 PMC1447609 NIHMS9547
529: Gong JZ, Chen X, Guo Q, Zhou D, Palmer PH, Zhang D, Liu CW, Xia J, Johnson CA
Are private school students more likely to smoke than public school students in China?
Prev Med 43: 117-21 (2006)
PM ID: 16675006
530: Tiemann-Boege I, Calabrese P, Cochran DM, Sokol RZ, Arnheim N
High-resolution recombination patterns in a region of human chromosome 21 measured by sperm typing.
PLoS Genet 2: e70 (2006)
PM ID: 16680198 PMC1456319
531: Vallböhmer D, Peters JH, Kuramochi H, Oh D, Yang D, Shimizu D, DeMeester SR, Hagen JA, Chandrasoma PT, Danenberg KD, Danenberg PV, DeMeester TR
Molecular determinants in targeted therapy for esophageal adenocarcinoma.
Arch Surg 141: 476-81; discussion 481-2 (2006)
PM ID: 16702519
532: Higashimoto T, Panopoulos A, Hsieh CL, Zandi E
TNFalpha induces chromosomal abnormalities independent of ROS through IKK, JNK, p38 and caspase pathways.
Cytokine 34: 39-50 (2006)
PM ID: 16723255
533: Bui HH, Schiewe AJ, von Grafenstein H, Haworth IS
Structural prediction of peptides binding to MHC class I molecules.
Proteins 63: 43-52 (2006)
PM ID: 16447245
534: Ehrlich M, Woods CB, Yu MC, Dubeau L, Yang F, Campan M, Weisenberger DJ, Long TI, Youn B, Fiala ES, Laird PW
Quantitative analysis of associations between DNA hypermethylation, hypomethylation, and DNMT RNA levels in ovarian tumors.
Oncogene 25: 2636-45 (2006)
PM ID: 16532039 PMC1449872 NIHMS6123
535: Raghavan SC, Lieber MR
DNA structures at chromosomal translocation sites.
Bioessays 28: 480-94 (2006)
PM ID: 16615081
536: Yang S, Lim M, Pham LK, Kendall SE, Reddi AH, Altieri DC, Roy-Burman P
Bone morphogenetic protein 7 protects prostate cancer cells from stress-induced apoptosis via both Smad and c-Jun NH2-terminal kinase pathways.
Cancer Res 66: 4285-90 (2006)
PM ID: 16618753
537: Vallböhmer D, Brabender J, Yang DY, Danenberg K, Schneider PM, Metzger R, Holscher AH, Danenberg PV
Sex differences in the predictive power of the molecular prognostic factor HER2/neu in patients with non-small-cell lung cancer.
Clin Lung Cancer 7: 332-7 (2006)
PM ID: 16640805
538: Pike BL, Groshen S, Hsu YH, Shai RM, Wang XD, Holtan N, Futscher BW, Hacia JG
Comparisons of PCR-based genome amplification systems using CpG island microarrays.
Hum Mutat 27: 589-96 (2006)
PM ID: 16652338
539: Wyrobek AJ, Eskenazi B, Young S, Arnheim N, Tiemann-Boege I, Jabs EW, Glaser RL, Pearson FS, Evenson D
Advancing age has differential effects on DNA damage, chromatin integrity, gene mutations, and aneuploidies in sperm.
Proc Natl Acad Sci U S A 103: 9601-6 (2006)
PM ID: 16766665 PMC1480453
540: Lieber MR, Yu KJ, Raghavan SC
Roles of nonhomologous DNA end joining, V(D)J recombination, and class switch recombination in chromosomal translocations.
DNA Repair (Amst) 5: 1234-45 (2006)
PM ID: 16793349
541: Shao Y, Molnar LF, Jung Y, Kussmann J, Ochsenfeld C, Brown ST, Gilbert AT, Slipchenko LV, Levchenko SV, O'Neill DP, DiStasio RA, Lochan RC, Wang T, Beran GJ, Besley NA, Herbert JM, Lin CY, Van Voorhis T, Chien SH, Sodt A, Steele RP, Rassolov VA, Maslen PE, Korambath PP, Adamson RD, Austin B, Baker J, Byrd EF, Dachsel H, Doerksen RJ, Dreuw A, Dunietz BD, Dutoi AD, Furlani TR, Gwaltney SR, Heyden A, Hirata S, Hsu CP, Kedziora G, Khalliulin RZ, Klunzinger P, Lee AM, Lee MS, Liang W, Lotan I, Nair N, Peters B, Proynov EI, Pieniazek PA, Rhee YM, Ritchie J, Rosta E, Sherrill CD, Simmonett AC, Subotnik JE, Woodcock HL, Zhang W, Bell AT, Chakraborty AK, Chipman DM, Keil FJ, Warshel A, Hehre WJ, Schaefer HF, Kong J, Krylov AI, Gill PM, Head-Gordon M
Advances in methods and algorithms in a modern quantum chemistry program package.
Phys Chem Chem Phys 8: 3172-91 (2006)
PM ID: 16902710
542: Artinyan A, Essani R, Lake J, Kaiser AM, Vukasin P, Danenberg P, Danenberg K, Haile R, Beart RW
Molecular predictors of lymph node metastasis in colon cancer: increased risk with decreased thymidylate synthase expression.
J Gastrointest Surg 9: 1216-21; discussion 1221 (2006)
PM ID: 16332476
543: Kuramochi H, Hayashi K, Uchida K, Miyakura S, Shimizu D, Vallbohmer D, Park SY, Danenberg KD, Takasaki K, Danenberg PV
5-fluorouracil-related gene expression levels in primary colorectal cancer and corresponding liver metastasis.
Int J Cancer 119: 522-6 (2006)
PM ID: 16572420
544: Mishra S, Zhang B, Cunnick JM, Heisterkamp N, Groffen J
Resistance to imatinib of bcr/abl p190 lymphoblastic leukemia cells.
Cancer Res 66: 5387-93 (2006)
PM ID: 16707466
545: Dziadziuszko R, Witta SE, Cappuzzo F, Park SY, Tanaka K, Danenberg PV, Barón AE, Crino L, Franklin WA, Bunn PA, Varella-Garcia M, Danenberg KD, Hirsch FR
Epidermal growth factor receptor messenger RNA expression, gene dosage, and gefitinib sensitivity in non-small cell lung cancer.
Clin Cancer Res 12: 3078-84 (2006)
PM ID: 16707605
546: Palchevskiy V, Finkel SE
Escherichia coli competence gene homologs are essential for competitive fitness and the use of DNA as a nutrient.
J Bacteriol 188: 3902-10 (2006)
PM ID: 16707682 PMC1482900
547: Shimizu D, Vallböhmer D, Kuramochi H, Uchida K, Schneider S, Chandrasoma PT, Shimada H, DeMeester TR, Danenberg KD, Peters JH, DeMeester SR, Danenberg PV
Increasing cyclooxygenase-2 (cox-2) gene expression in the progression of Barrett's esophagus to adenocarcinoma correlates with that of Bcl-2.
Int J Cancer 119: 765-70 (2006)
PM ID: 16550596
548: Pinski J, Wang QS, Quek ML, Cole A, Cooc J, Danenberg K, Danenberg PV
Genistein-induced neuroendocrine differentiation of prostate cancer cells.
Prostate 66: 1136-43 (2006)
PM ID: 16652383
549: Xiang YB, Oelschlaeger P, Florián J, Goodman MF, Warshel A
Simulating the effect of DNA polymerase mutations on transition-state energetics and fidelity: evaluating amino acid group contribution and allosteric coupling for ionized residues in human pol beta.
Biochemistry 45: 7036-48 (2006)
PM ID: 16752894
550: Raghavan SC, Tsai AG, Hsieh CL, Lieber MR
Analysis of non-B DNA structure at chromosomal sites in the mammalian genome.
Methods Enzymol 409: 301-16 (2006)
PM ID: 16793408
551: Yu KJ, Roy D, Huang FT, Lieber MR
Detection and structural analysis of R-loops.
Methods Enzymol 409: 316-29 (2006)
PM ID: 16793409
552: Dayam R, Aiello F, Deng J, Wu Y, Garofalo A, Chen X, Neamati N
Discovery of small molecule integrin alphavbeta3 antagonists as novel anticancer agents.
J Med Chem 49: 4526-34 (2006)
PM ID: 16854058
553: Vallböhmer D, DeMeester SR, Oh DS, Banki F, Kuramochi H, Shimizu D, Hagen JA, Danenberg KD, Danenberg PV, Chandrasoma PT, Peters JH, DeMeester TR
Antireflux surgery normalizes cyclooxygenase-2 expression in squamous epithelium of the distal esophagus.
Am J Gastroenterol 101: 1458-66 (2006)
PM ID: 16863546
554: Niewolik D, Pannicke U, Lu H, Ma Y, Wang LC, Kulesza P, Zandi E, Lieber MR, Schwarz K
DNA-PKcs dependence of Artemis endonucleolytic activity, differences between hairpins and 5' or 3' overhangs.
J Biol Chem 281: 33900-9 (2006)
PM ID: 16914548
555: Wang JG, Barsky LW, Davicioni E, Weinberg KI, Triche TJ, Zhang XK, Wu L
Retinoic acid induces leukemia cell G1 arrest and transition into differentiation by inhibiting cyclin-dependent kinase-activating kinase binding and phosphorylation of PML/RARalpha.
FASEB J 20: 2142-4 (2006)
PM ID: 16935935
556: Paul S, Dansithong W, Kim DH, Rossi J, Webster NJ, Comai L, Reddy S
Interaction of muscleblind, CUG-BP1 and hnRNP H proteins in DM1-associated aberrant IR splicing.
EMBO J 25: 4271-83 (2006)
PM ID: 16946708 PMC1570429
557: Choi J, Forman HJ, Ou JH, Lai MM, Seronello S, Nandipati A
Redox modulation of the hepatitis C virus replication complex is calcium dependent.
Free Radic Biol Med 41: 1488-98 (2006)
PM ID: 17023276
558: Warshel A, Sharma PK, Kato M, Parson WW
Modeling electrostatic effects in proteins.
Biochim Biophys Acta 1764: 1647-76 (2006)
PM ID: 17049320
559: Gibson DG, Bell SP, Aparicio OM
Cell cycle execution point analysis of ORC function and characterization of the checkpoint response to ORC inactivation in Saccharomyces cerevisiae.
Genes Cells 11: 557-73 (2006)
PM ID: 16716188
560: Kato M, Pisliakov AV, Warshel A
The barrier for proton transport in aquaporins as a challenge for electrostatic models: the role of protein relaxation in mutational calculations.
Proteins 64: 829-44 (2006)
PM ID: 16779836
561: Davicioni E, Finckenstein FG, Shahbazian V, Buckley JD, Triche TJ, Anderson MJ
Identification of a PAX-FKHR gene expression signature that defines molecular classes and determines the prognosis of alveolar rhabdomyosarcomas.
Cancer Res 66: 6936-46 (2006)
PM ID: 16849537
562: Schlacher K, Cox MM, Woodgate R, Goodman MF
RecA acts in trans to allow replication of damaged DNA by DNA polymerase V.
Nature 442: 883-7 (2006)
PM ID: 16929290
563: Cai Q, Kusnetzow AK, Hubbell WL, Haworth IS, Gacho GP, Van Eps N, Hideg K, Chambers EJ, Qin PZ
Site-directed spin labeling measurements of nanometer distances in nucleic acids using a sequence-independent nitroxide probe.
Nucleic Acids Res 34: 4722-30 (2006)
PM ID: 16966338 PMC1635252
564: Lin CY, Navarro S, Reddy S, Comai L
CK2-mediated stimulation of Pol I transcription by stabilization of UBF-SL1 interaction.
Nucleic Acids Res 34: 4752-66 (2006)
PM ID: 16971462 PMC1635259
565: Ceppi P, Volante M, Novello S, Rapa I, Danenberg KD, Danenberg PV, Cambieri A, Selvaggi G, Saviozzi S, Calogero R, Papotti M, Scagliotti GV
ERCC1 and RRM1 gene expressions but not EGFR are predictive of shorter survival in advanced non-small-cell lung cancer treated with cisplatin and gemcitabine.
Ann Oncol 17: 1818-25 (2006)
PM ID: 16980606
566: Kulkarni AA, Davies DL, Links JS, Patel LN, Lee VH, Haworth IS
A charge pair interaction between Arg282 in transmembrane segment 7 and Asp341 in transmembrane segment 8 of hPepT1.
Pharm Res 24: 66-72 (2006)
PM ID: 17009102
567: Haworth IS
Computational drug delivery.
Adv Drug Deliv Rev 58: 1271-3 (2006)
PM ID: 17069930
568: Olsson MH, Mavri J, Warshel A
Transition state theory can be used in studies of enzyme catalysis: lessons from simulations of tunnelling and dynamical effects in lipoxygenase and other systems.
Philos Trans R Soc Lond B Biol Sci 361: 1417-32 (2006)
PM ID: 16873128 PMC1647313
569: Xu W, Aparicio JG, Aparicio OM, Tavaré S
Genome-wide mapping of ORC and Mcm2p binding sites on tiling arrays and identification of essential ARS consensus sequences in S. cerevisiae.
BMC Genomics 7: 276 (2006)
PM ID: 17067396 PMC1657020
570: Roy-Burman P
Not too contemplative but still amazing turns.
Cancer Biol Ther 5: 1416-9 (2006)
PM ID: 17106241
571: Azuma M, Danenberg KD, Iqbal S, El-Khoueiry AB, Zhang W, Yang D, Koizumi W, Saigenji K, Danenberg PV, Lenz HJ
Epidermal growth factor receptor and epidermal growth factor receptor variant III gene expression in metastatic colorectal cancer.
Clin Colorectal Cancer 6: 214-8 (2006)
PM ID: 17026791
572: Mishra S, Pertz V, Zhang B, Kaur P, Shimada H, Groffen J, Kazimierczuk Z, Pinna LA, Heisterkamp N
Treatment of P190 Bcr/Abl lymphoblastic leukemia cells with inhibitors of the serine/threonine kinase CK2.
Leukemia 21: 178-80 (2006)
PM ID: 17082777
573: Cho YJ, Cunnick JM, Yi SJ, Kaartinen V, Groffen J, Heisterkamp N
Abr and Bcr, two homologous Rac GTPase-activating proteins, control multiple cellular functions of murine macrophages.
Mol Cell Biol 27: 899-911 (2006)
PM ID: 17116687 PMC1800684
574: Oelschlaeger P, Klahn M, Beard WA, Wilson SH, Warshel A
Magnesium-cationic dummy atom molecules enhance representation of DNA polymerase beta in molecular dynamics simulations: improved accuracy in studies of structural features and mutational effects.
J Mol Biol 366: 687-701 (2006)
PM ID: 17174326 PMC1859854 NIHMS17574
575: Vallböhmer D, DeMeester SR, Peters JH, Oh DS, Kuramochi H, Shimizu D, Hagen JA, Danenberg KD, Danenberg PV, DeMeester TR, Chandrasoma PT
Cdx-2 expression in squamous and metaplastic columnar epithelia of the esophagus.
Dis Esophagus 19: 260-6 (2006)
PM ID: 16866857
576: Vallböhmer D, Brabender J, Yang D, Schneider PM, Metzger R, Danenberg KD, Hölscher AH, Danenberg PV
DNA methyltransferases messenger RNA expression and aberrant methylation of CpG islands in non-small-cell lung cancer: association and prognostic value.
Clin Lung Cancer 8: 39-44 (2006)
PM ID: 16870044
577: Pepper ED, Farrell MJ, Finkel SE
Role of penicillin-binding protein 1b in competitive stationary-phase survival of Escherichia coli.
FEMS Microbiol Lett 263: 61-7 (2006)
PM ID: 16958852
578: Clark VJ, Ptak SE, Tiemann I, Qian Y, Coop G, Stone AC, Przeworski M, Arnheim N, Di Rienzo A
Combining sperm typing and linkage disequilibrium analyses reveals differences in selective pressures or recombination rates across human populations.
Genetics 175: 795-804 (2006)
PM ID: 17151245 PMC1800598
579: Lin CH, Platt MD, Ficarro SB, Hoofnagle MH, Shabanowitz J, Comai L, Hunt DF, Owens GK
Mass spectrometric identification of phosphorylation sites of rRNA transcription factor upstream binding factor.
Am J Physiol Cell Physiol 292: C1617-24 (2006)
PM ID: 17182730
580: Prochnow C, Bransteitter R, Klein MG, Goodman MF, Chen XS
The APOBEC-2 crystal structure and functional implications for the deaminase AID.
Nature 445: 447-51 (2006)
PM ID: 17187054
581: Viggiani CJ, Aparicio OM
New vectors for simplified construction of BrdU-Incorporating strains of Saccharomyces cerevisiae.
Yeast 23: 1045-51 (2007)
PM ID: 17083135
582: Klähn M, Rosta E, Warshel A
On the mechanism of hydrolysis of phosphate monoesters dianions in solutions and proteins.
J Am Chem Soc 128: 15310-23 (2007)
PM ID: 17117884
583: Zheng YT, Chen WL, Louie SG, Yen TS, Ou JH
Hepatitis B virus promotes hepatocarcinogenesis in transgenic mice.
Hepatology 45: 16-21 (2007)
PM ID: 17187428
584: Tedeschi-Blok N, Buckley JD, Varma R, Triche TJ, Hinton DR
Population-based study of early age-related macular degeneration: role of the complement factor H Y402H polymorphism in bilateral but not unilateral disease.
Ophthalmology 114: 99-103 (2007)
PM ID: 17198853
585: Martínek V, Bren U, Goodman MF, Warshel A, Florián J
DNA polymerase beta catalytic efficiency mirrors the Asn279-dCTP H-bonding strength.
FEBS Lett 581: 775-80 (2007)
PM ID: 17286973 PMC2001272 NIHMS18410
586: Olsson MH, Siegbahn PE, Blomberg MR, Warshel A
Exploring pathways and barriers for coupled ET/PT in cytochrome c oxidase: a general framework for examining energetics and mechanistic alternatives.
Biochim Biophys Acta 1767: 244-60 (2007)
PM ID: 17350588 PMC2025695 NIHMS20460
587: Vallböhmer D, Kuramochi H, Shimizu D, Danenberg KD, Lindebjerg J, Nielsen JN, Jakobsen A, Danenberg PV
Molecular factors of 5-fluorouracil metabolism in colorectal cancer: analysis of primary tumor and lymph node metastasis.
Int J Oncol 28: 527-33 (2007)
PM ID: 16391809
588: Schlacher K, Jiang Q, Woodgate R, Goodman MF
Purification and characterization of Escherichia coli DNA polymerase V.
Methods Enzymol 408: 378-90 (2007)
PM ID: 16793381
589: Ma Y, Lieber MR
In vitro nonhomologous DNA end joining system.
Methods Enzymol 408: 502-10 (2007)
PM ID: 16793389
590: Sucato CA, Upton TG, Kashemirov BA, Batra VK, Martínek V, Xiang YB, Beard WA, Pedersen LC, Wilson SH, McKenna CE, Florián J, Warshel A, Goodman MF
Modifying the beta,gamma leaving-group bridging oxygen alters nucleotide incorporation efficiency, fidelity, and the catalytic mechanism of DNA polymerase beta.
Biochemistry 46: 461-71 (2007)
PM ID: 17209556
591: Yang D, Schneider S, Azuma M, Iqbal S, El-Khoueiry AB, Groshen S, Agafitei D, Danenberg KD, Danenberg PV, Ladner RD, Lenz HJ
Gene expression levels of epidermal growth factor receptor, survivin, and vascular endothelial growth factor as molecular markers of lymph node involvement in patients with locally advanced rectal cancer.
Clin Colorectal Cancer 6: 305-11 (2007)
PM ID: 17241515
592: Gu J, Lu H, Tippin B, Shimazaki N, Goodman MF, Lieber MR
XRCC4:DNA ligase IV can ligate incompatible DNA ends and can ligate across gaps.
EMBO J 26: 1010-23 (2007)
PM ID: 17290226 PMC1852838
593: Pham P, Chelico L, Goodman MF
DNA deaminases AID and APOBEC3G act processively on single-stranded DNA.
DNA Repair (Amst) 6: 689-92; author reply 693-4 (2007)
PM ID: 17291835
594: Zheng YT, Chen WL, Ma WL, Chang CC, Ou JH
Enhancement of gene transactivation activity of androgen receptor by hepatitis B virus X protein.
Virology 363: 454-61 (2007)
PM ID: 17335866 PMC1976269 NIHMS25245
595: Zhu NL, Li C, Huang HH, Sebald M, Londhe VA, Heisterkamp N, Warburton D, Bellusci S, Minoo P
TNF-alpha represses transcription of human Bone Morphogenetic Protein-4 in lung epithelial cells.
Gene 393: 70-80 (2007)
PM ID: 17350185 PMC1945170 NIHMS22407
596: Kumar SR, Masood R, Spannuth WA, Singh J, Scehnet JS, Kleiber G, Jennings N, Deavers M, Krasnoperov V, Dubeau L, Weaver FA, Sood AK, Gill PS
The receptor tyrosine kinase EphB4 is overexpressed in ovarian cancer, provides survival signals and predicts poor outcome.
Br J Cancer 96: 1083-91 (2007)
PM ID: 17353927 PMC2360128
597: Zhang B, Groffen J, Heisterkamp N
Increased resistance to a farnesyltransferase inhibitor by N-cadherin expression in Bcr/Abl-P190 lymphoblastic leukemia cells.
Leukemia 21: 1189-97 (2007)
PM ID: 17392819
598: Warshel A, Sharma PK, Chu ZT, Aqvist J
Electrostatic contributions to binding of transition state analogues can be very different from the corresponding contributions to catalysis: phenolates binding to the oxyanion hole of ketosteroid isomerase.
Biochemistry 46: 1466-76 (2007)
PM ID: 17279612
599: Bruxvoort KJ, Charbonneau HM, Giambernardi TA, Goolsby JC, Qian CN, Zylstra CR, Robinson DR, Roy-Burman P, Shaw AK, Buckner-Berghuis BD, Sigler RE, Resau JH, Sullivan R, Bushman W, Williams BO
Inactivation of Apc in the mouse prostate causes prostate carcinoma.
Cancer Res 67: 2490-6 (2007)
PM ID: 17363566
600: Heo K, Kim BH, Kim KJ, Choi J, Kim HJ, Zhan Y, Ranish JA, An W
Isolation and characterization of proteins associated with histone H3 tails in vivo.
J Biol Chem 282: 15476-83 (2007)
PM ID: 17403666
601: Shelbourne PF, Keller-McGandy C, Bi WL, Yoon SR, Dubeau L, Veitch NJ, Vonsattel JP, Wexler NS, US-Venezuela Collaborative Research Group , Arnheim N, Augood SJ
Triplet repeat mutation length gains correlate with cell-type specific vulnerability in Huntington disease brain.
Hum Mol Genet 16: 1133-42 (2007)
PM ID: 17409200
602: Roca M, Messer B, Warshel A
Electrostatic contributions to protein stability and folding energy.
FEBS Lett 581: 2065-71 (2007)
PM ID: 17466986
603: Schiewe AJ, Haworth IS
Structure-based prediction of MHC-peptide association: algorithm comparison and application to cancer vaccine design.
J Mol Graph Model 26: 667-75 (2007)
PM ID: 17493854
604: De Clerck YA, Weissman BE, Yu D, Parsons R, Bar-Eli M, Roy-Burman P, Seewaldt VL, Cress AE, Languino LR, Batra SK, Tang CK, Sheng S, Chen WT, Chellappan S, Cheng SY, Ladisch S, McCarthy JB, Coussens LM, Cohen MB
Tumor progression and metastasis from genetic to microenvironmental determinants: a workshop of the tumor progression and metastasis NIH study section in honor of Dr. Martin L. Padarathsingh, May 31, 2006, Georgetown, Washington, DC.
Cancer Biol Ther 5: 1588-99 (2007)
PM ID: 17224636
605: Kang HG, Jenabi JM, Zhang J, Keshelava N, Shimada H, May WA, Ng T, Reynolds CP, Triche TJ, Sorensen PH
E-cadherin cell-cell adhesion in ewing tumor cells mediates suppression of anoikis through activation of the ErbB4 tyrosine kinase.
Cancer Res 67: 3094-105 (2007)
PM ID: 17409416
606: Liu HM, Warshel A
The catalytic effect of dihydrofolate reductase and its mutants is determined by reorganization energies.
Biochemistry 46: 6011-25 (2007)
PM ID: 17469852
607: O'Neill BM, Szyjka SJ, Lis ET, Bailey AO, Yates JR, Aparicio OM, Romesberg FE
Pph3-Psy2 is a phosphatase complex required for Rad53 dephosphorylation and replication fork restart during recovery from DNA damage.
Proc Natl Acad Sci U S A 104: 9290-5 (2007)
PM ID: 17517611 PMC1890487
608: Sharma PK, Chu ZT, Olsson MH, Warshel A
A new paradigm for electrostatic catalysis of radical reactions in vitamin B12 enzymes.
Proc Natl Acad Sci U S A 104: 9661-6 (2007)
PM ID: 17517615 PMC1887576
609: Yu J, Roy D, Brockmeyer AD, Dubeau L
Increased chromosomal stability in cultures of ovarian tumours of low malignant potential compared to cystadenomas.
Br J Cancer 96: 1908-13 (2007)
PM ID: 17519898 PMC2359981
610: Cai Q, Kusnetzow AK, Hideg K, Price EA, Haworth IS, Qin PZ
Nanometer distance measurements in RNA using site-directed spin labeling.
Biophys J 93: 2110-7 (2007)
PM ID: 17526583 PMC1959523
611: Chen X, Lv F, Zheng J, Pu HB, Yin XQ, Zhang YH, Qin BY, Pan H
[Estimation on the number of drug users in Hongjiang, Hunan: a capture-recapture study]
Zhonghua Liu Xing Bing Xue Za Zhi 26: 417-20 (2007)
PM ID: 16185451
612: Ku TK, Nguyen DC, Karaman MW, Gill P, Hacia JG, Crowe DL
Loss of p53 expression correlates with metastatic phenotype and transcriptional profile in a new mouse model of head and neck cancer.
Mol Cancer Res 5: 351-62 (2007)
PM ID: 17426250
613: An W
Histone acetylation and methylation: combinatorial players for transcriptional regulation.
Subcell Biochem 41: 351-69 (2007)
PM ID: 17484136
614: Nikitin AY, Matoso A, Roy-Burman P
Prostate stem cells and cancer.
Histol Histopathol 22: 1043-9 (2007)
PM ID: 17523082
615: Huang FT, Yu KJ, Balter BB, Selsing E, Oruc Z, Khamlichi AA, Hsieh CL, Lieber MR
Sequence dependence of chromosomal R-loops at the immunoglobulin heavy-chain Smu class switch region.
Mol Cell Biol 27: 5921-32 (2007)
PM ID: 17562862 PMC1952116
616: Keshelava N, Davicioni E, Wan Z, Ji L, Sposto R, Triche TJ, Reynolds CP
Histone deacetylase 1 gene expression and sensitization of multidrug-resistant neuroblastoma cell lines to cytotoxic agents by depsipeptide.
J Natl Cancer Inst 99: 1107-19 (2007)
PM ID: 17623797
617: Luo P, Wang A, Payne KJ, Peng H, Wang JG, Parrish YK, Rogerio JW, Triche TJ, He QY, Wu L
Intrinsic retinoic acid receptor alpha-cyclin-dependent kinase-activating kinase signaling involves coordination of the restricted proliferation and granulocytic differentiation of human hematopoietic stem cells.
Stem Cells 25: 2628-37 (2007)
PM ID: 17628022
618: Crans DC, Holder AA, Saha TK, Prakash GK, Yousufuddin M, Kultyshev R, Ismail R, Goodman MF, Borden J, Florian J
Chelation of vanadium(V) by difluoromethylene bisphosphonate, a structural analogue of pyrophosphate.
Inorg Chem 46: 6723-32 (2007)
PM ID: 17628058
619: Chu MW, Siegmund KD, Eckstam CL, Kim JY, Yang AS, Kanel GC, Tavaré S, Shibata D
Lack of increases in methylation at three CpG-rich genomic loci in non-mitotic adult tissues during aging.
BMC Med Genet 8: 50 (2007)
PM ID: 17672908 PMC1950491
620: Rosta E, Klähn M, Warshel A
Towards accurate ab initio QM/MM calculations of free-energy profiles of enzymatic reactions.
J Phys Chem B 110: 2934-41 (2007)
PM ID: 16471904
621: Kato M, Warshel A
Using a charging coordinate in studies of ionization induced partial unfolding.
J Phys Chem B 110: 11566-70 (2007)
PM ID: 16771433
622: Warshel A, Sharma PK, Kato M, Xiang YB, Liu HM, Olsson MH
Electrostatic basis for enzyme catalysis.
Chem Rev 106: 3210-35 (2007)
PM ID: 16895325
623: Hong G, Rosta E, Warshel A
Using the constrained DFT approach in generating diabatic surfaces and off diagonal empirical valence bond terms for modeling reactions in condensed phases.
J Phys Chem B 110: 19570-4 (2007)
PM ID: 17004821
624: Schlacher K, Goodman MF
Lessons from 50 years of SOS DNA-damage-induced mutagenesis.
Nat Rev Mol Cell Biol 8: 587-94 (2007)
PM ID: 17551516
625: Gu J, Lu H, Tsai AG, Schwarz K, Lieber MR
Single-stranded DNA ligation and XLF-stimulated incompatible DNA end ligation by the XRCC4-DNA ligase IV complex: influence of terminal DNA sequence.
Nucleic Acids Res 35: 5755-62 (2007)
PM ID: 17717001 PMC2034460
626: Mori R, Ishikawa T, Ichikawa Y, Taniguchi K, Matsuyama R, Ueda M, Fujii Y, Endo I, Togo S, Danenberg PV, Shimada H
Human equilibrative nucleoside transporter 1 is associated with the chemosensitivity of gemcitabine in human pancreatic adenocarcinoma and biliary tract carcinoma cells.
Oncol Rep 17: 1201-5 (2007)
PM ID: 17390066
627: Ding W, Shi W, Bellusci S, Groffen J, Heisterkamp N, Minoo P, Warburton D
Sprouty2 downregulation plays a pivotal role in mediating crosstalk between TGF-beta1 signaling and EGF as well as FGF receptor tyrosine kinase-ERK pathways in mesenchymal cells.
J Cell Physiol 212: 796-806 (2007)
PM ID: 17516543
628: Sadun RE, Sachsman SM, Chen X, Christenson KW, Morris WZ, Hu P, Epstein AL
Immune signatures of murine and human cancers reveal unique mechanisms of tumor escape and new targets for cancer immunotherapy.
Clin Cancer Res 13: 4016-25 (2007)
PM ID: 17606736
629: Liao CP, Zhong C, Saribekyan G, Bading JR, Park R, Conti PS, Moats RA, Berns A, Shi W, Zhou Z, Nikitin AY, Roy-Burman P
Mouse models of prostate adenocarcinoma with the capacity to monitor spontaneous carcinogenesis by bioluminescence or fluorescence.
Cancer Res 67: 7525-33 (2007)
PM ID: 17671224
630: Abdueva D, Wing MR, Schaub B, Triche TJ
Experimental comparison and evaluation of the Affymetrix exon and U133Plus2 GeneChip arrays.
PLoS One 2: e913 (2007)
PM ID: 17878948 PMC1976394
631: Bui HH, Schiewe AJ, Haworth IS
WATGEN: an algorithm for modeling water networks at protein-protein interfaces.
J Comput Chem 28: 2241-51 (2007)
PM ID: 17471455
632: Price EA, Sutch BT, Cai Q, Qin PZ, Haworth IS
Computation of nitroxide-nitroxide distances in spin-labeled DNA duplexes.
Biopolymers 87: 40-50 (2007)
PM ID: 17538992 PMC2430107 NIHMS52036
633: Vallböhmer D, Yang DY, Kuramochi H, Shimizu D, Danenberg KD, Lindebjerg J, Nielsen JN, Jakobsen A, Danenberg PV
DPD is a molecular determinant of capecitabine efficacy in colorectal cancer.
Int J Oncol 31: 413-8 (2007)
PM ID: 17611699
634: Lu H, Schwarz K, Lieber MR
Extent to which hairpin opening by the Artemis:DNA-PKcs complex can contribute to junctional diversity in V(D)J recombination.
Nucleic Acids Res 35: 6917-23 (2007)
PM ID: 17932067 PMC2175297
635: Roy D, Yu KJ, Lieber MR
Mechanism of R-loop formation at immunoglobulin class switch sequences.
Mol Cell Biol 28: 50-60 (2007)
PM ID: 17954560 PMC2223306
636: Kaur P, Feldhahn N, Zhang B, Trageser D, Müschen M, Pertz V, Groffen J, Heisterkamp N
Nilotinib treatment in mouse models of P190 Bcr/Abl lymphoblastic leukemia.
Mol Cancer 6: 67 (2007)
PM ID: 17958915 PMC2169263
637: Olsson MH, Parson WW, Warshel A
Dynamical contributions to enzyme catalysis: critical tests of a popular hypothesis.
Chem Rev 106: 1737-56 (2007)
PM ID: 16683752
638: Wang MY, Lu KV, Zhu SH, Dia EQ, Vivanco I, Shackleford GM, Cavenee WK, Mellinghoff IK, Cloughesy TF, Sawyers CL, Mischel PS
Mammalian target of rapamycin inhibition promotes response to epidermal growth factor receptor kinase inhibitors in PTEN-deficient and PTEN-intact glioblastoma cells.
Cancer Res 66: 7864-9 (2007)
PM ID: 16912159
639: Zhou Z, Flesken-Nikitin A, Corney DC, Wang W, Goodrich DW, Roy-Burman P, Nikitin AY
Synergy of p53 and Rb deficiency in a conditional mouse model for metastatic prostate cancer.
Cancer Res 66: 7889-98 (2007)
PM ID: 16912162
640: Sodir NM, Chen X, Park R, Nickel AE, Conti PS, Moats RA, Bading JR, Shibata D, Laird PW
Smad3 deficiency promotes tumorigenesis in the distal colon of ApcMin/+ mice.
Cancer Res 66: 8430-8 (2007)
PM ID: 16951153
641: Chen T, Burke KA, Zhan Y, Wang XD, Shibata D, Zhao Y
IL-12 facilitates both the recovery of endogenous hematopoiesis and the engraftment of stem cells after ionizing radiation.
Exp Hematol 35: 203-13 (2007)
PM ID: 17258069
642: Silverman AP, Jiang Q, Goodman MF, Kool ET
Steric and electrostatic effects in DNA synthesis by the SOS-induced DNA polymerases II and IV of Escherichia coli.
Biochemistry 46: 13874-81 (2007)
PM ID: 17988102 PMC2555966 NIHMS62897
643: Lieber MR
The mechanism of human nonhomologous DNA end joining.
J Biol Chem 283: 1-5 (2007)
PM ID: 17999957
644: McKenna CE, Kashemirov BA, Upton TG, Batra VK, Goodman MF, Pedersen LC, Beard WA, Wilson SH
(R)-beta,gamma-fluoromethylene-dGTP-DNA ternary complex with DNA polymerase beta.
J Am Chem Soc 129: 15412-3 (2007)
PM ID: 18031037 PMC2677377 NIHMS104578
645: Rubio-Viqueira B, Jimeno A, Cusatis G, Zhang XK, Iacobuzio-Donahue C, Karikari C, Shi C, Danenberg K, Danenberg PV, Kuramochi H, Tanaka K, Singh S, Salimi-Moosavi H, Bouraoud N, Amador ML, Altiok S, Kulesza P, Yeo C, Messersmith W, Eshleman J, Hruban RH, Maitra A, Hidalgo M
An in vivo platform for translational drug development in pancreatic cancer.
Clin Cancer Res 12: 4652-61 (2007)
PM ID: 16899615
646: Vallböhmer D, Marjoram P, Kuramochi H, Shimizu D, Jung HS, DeMeester SR, Oh D, Chandrasoma PT, Danenberg KD, DeMeester TR, Danenberg PV, Peters JH
Towards the molecular characterization of disease: comparison of molecular and histological analysis of esophageal epithelia.
J Gastrointest Surg 11: 1095-104 (2007)
PM ID: 17623264
647: Mavri J, Liu HM, Olsson MH, Warshel A
Simulation of tunneling in enzyme catalysis by combining a biased propagation approach and the quantum classical path method: application to lipoxygenase.
J Phys Chem B 112: 5950-4 (2007)
PM ID: 18069813
648: Kweon SM, Cho YJ, Minoo P, Groffen J, Heisterkamp N
Activity of the Bcr GTPase-activating domain is regulated through direct protein/protein interaction with the Rho guanine nucleotide dissociation inhibitor.
J Biol Chem 283: 3023-30 (2007)
PM ID: 18070886
649: Zwerner JP, Joo J, Warner KL, Christensen L, Hu-Lieskovan S, Triche TJ, May WA
The EWS/FLI1 oncogenic transcription factor deregulates GLI1.
Oncogene 27: 3282-91 (2007)
PM ID: 18084326
650: Sucato CA, Upton TG, Kashemirov BA, Osuna J, Oertell K, Beard WA, Wilson SH, Florián J, Warshel A, McKenna CE, Goodman MF
DNA polymerase beta fidelity: halomethylene-modified leaving groups in pre-steady-state kinetic analysis reveal differences at the chemical transition state.
Biochemistry 47: 870-9 (2007)
PM ID: 18161950
651: Wei M, Fabrizio P, Hu J, Ge H, Cheng CY, Li L, Longo VD
Life span extension by calorie restriction depends on Rim15 and transcription factors downstream of Ras/PKA, Tor, and Sch9.
PLoS Genet 4: e13 (2007)
PM ID: 18225956 PMC2213705
652: Xiang YB, Goodman MF, Beard WA, Wilson SH, Warshel A
Exploring the role of large conformational changes in the fidelity of DNA polymerase beta.
Proteins 70: 231-47 (2008)
PM ID: 17671961 PMC2365506 NIHMS44484
653: Xiang YB, Warshel A
Quantifying free energy profiles of proton transfer reactions in solution and proteins by using a diabatic FDFT mapping.
J Phys Chem B 112: 1007-15 (2008)
PM ID: 18166038
654: Evans E, Zhang W, Jerdeva G, Chen CY, Chen X, Hamm-Alvarez SF, Okamoto CT
Direct interaction between Rab3D and the polymeric immunoglobulin receptor and trafficking through regulated secretory vesicles in lacrimal gland acinar cells.
Am J Physiol Cell Physiol 294: C662-74 (2008)
PM ID: 18171724
655: Bailis JM, Luche DD, Hunter T, Forsburg SL
Minichromosome maintenance proteins interact with checkpoint and recombination proteins to promote s-phase genome stability.
Mol Cell Biol 28: 1724-38 (2008)
PM ID: 18180284 PMC2258774
656: Pique-Regi R, Monso-Varona J, Ortega A, Seeger RC, Triche TJ, Asgharzadeh S
Sparse representation and Bayesian detection of genome copy number alterations from microarray data.
Bioinformatics 24: 309-18 (2008)
PM ID: 18203770 PMC2704547
657: Li B, Jog SP, Reddy S, Comai L
WRN controls formation of extrachromosomal telomeric circles and is required for TRF2DeltaB-mediated telomere shortening.
Mol Cell Biol 28: 1892-904 (2008)
PM ID: 18212065 PMC2268394
658: Banki F, Mason RJ, Hagen JA, DeMeester SR, Lipham JC, Danenberg K, Danenberg P, DeMeester TR
Plasma DNA: a molecular marker of surgical insult and postoperative recovery in esophageal cancer.
Eur Surg Res 40: 273-8 (2008)
PM ID: 18219202
659: Lewinger JP, Conti DV, Baurley JW, Triche TJ, Thomas DC
Hierarchical Bayes prioritization of marker associations from a genome-wide association scan for further investigation.
Genet Epidemiol 31: 871-82 (2008)
PM ID: 17654612
660: Shibata D
Stem cells as common ancestors in a colorectal cancer ancestral tree.
Curr Opin Gastroenterol 24: 59-63 (2008)
PM ID: 18043234
661: Lieber MR, Lu H, Gu J, Schwarz K
Flexibility in the order of action and in the enzymology of the nuclease, polymerases, and ligase of vertebrate non-homologous DNA end joining: relevance to cancer, aging, and the immune system.
Cell Res 18: 125-33 (2008)
PM ID: 18087292
662: Yang S, Pham LK, Liao CP, Frenkel B, Reddi AH, Roy-Burman P
A novel bone morphogenetic protein signaling in heterotypic cell interactions in prostate cancer.
Cancer Res 68: 198-205 (2008)
PM ID: 18172312
663: Madia F, Gattazzo C, Wei M, Fabrizio P, Burhans WC, Weinberger M, Galbani A, Smith JR, Nguyen C, Huey S, Comai L, Longo VD
Longevity mutation in SCH9 prevents recombination errors and premature genomic instability in a Werner/Bloom model system.
J Cell Biol 180: 67-81 (2008)
PM ID: 18195102 PMC2213615
664: Dong D, Ni M, Li JZ, Xiong S, Ye W, Virrey JJ, Mao C, Ye R, Wang M, Pen L, Dubeau L, Groshen S, Hofman FM, Lee AS
Critical role of the stress chaperone GRP78/BiP in tumor proliferation, survival, and tumor angiogenesis in transgene-induced mammary tumor development.
Cancer Res 68: 498-505 (2008)
PM ID: 18199545
665: Forsburg SL
The MCM helicase: linking checkpoints to the replication fork.
Biochem Soc Trans 36: 114-9 (2008)
PM ID: 18208397
666: Kobayashi H, Sugihara K, Uetake H, Higuchi T, Yasuno M, Enomoto M, Kuramochi H, Lenz HJ, Danenberg KD, Danenberg PV
Messenger RNA expression of vascular endothelial growth factor and its receptors in primary colorectal cancer and corresponding liver metastasis.
Ann Surg Oncol 15: 1232-8 (2008)
PM ID: 18239970
667: Shibata D
Mistakes make history: visualizing intestinal tectonics.
Gastroenterology 134: 628-31 (2008)
PM ID: 18242228
668: Jong A, Wu CH, Shackleford GM, Kwon-Chung KJ, Chang YC, Chen HM, Ouyang Y, Huang SH
Involvement of human CD44 during Cryptococcus neoformans infection of brain microvascular endothelial cells.
Cell Microbiol 10: 1313-26 (2008)
PM ID: 18248627
669: Kim KJ, Choi J, Heo K, Kim HJ, Levens D, Kohno K, Johnson EM, Brock HW, An W
Isolation and characterization of a novel H1.2 complex that acts as a repressor of p53-mediated transcription.
J Biol Chem 283: 9113-26 (2008)
PM ID: 18258596 PMC2431041
670: Miller AJ, Dudley SD, Tsao JL, Shibata D, Liskay RM
Tractable Cre-lox system for stochastic alteration of genes in mice.
Nat Methods 5: 227-9 (2008)
PM ID: 18264106 PMC2394730 NIHMS49371
671: Pike BL, Greiner TC, Wang XD, Weisenburger DD, Hsu YH, Renaud G, Wolfsberg TG, Kim MH, Weisenberger DJ, Siegmund KD, Ye W, Groshen S, Mehrian-Shai R, Delabie J, Chan WC, Laird PW, Hacia JG
DNA methylation profiles in diffuse large B-cell lymphoma and their relationship to gene expression status.
Leukemia 22: 1035-43 (2008)
PM ID: 18288132 PMC2654231 NIHMS97202
672: Rosta E, Kamerlin SC, Warshel A
On the interpretation of the observed linear free energy relationship in phosphate hydrolysis: a thorough computational study of phosphate diester hydrolysis in solution.
Biochemistry 47: 3725-35 (2008)
PM ID: 18307312
673: Furukohri A, Goodman MF, Maki H
A dynamic polymerase exchange with Escherichia coli DNA polymerase IV replacing DNA polymerase III on the sliding clamp.
J Biol Chem 283: 11260-9 (2008)
PM ID: 18308729 PMC2431065
674: Kuramochi H, Hayashi K, Uchida K, Nakajima G, Hatori T, Danenberg KD, Danenberg PV, Yamamoto M
High intratumoral dihydropyrimidine dehydrogenase mRNA levels in pancreatic cancer associated with a high rate of response to S-1.
Cancer Chemother Pharmacol 63: 85-9 (2008)
PM ID: 18309485
675: Ishikita H, Warshel A
Predicting drug-resistant mutations of HIV protease.
Angew Chem Int Ed Engl 47: 697-700 (2008)
PM ID: 18058968
676: Kuramochi H, Tanaka K, Oh D, Lehman BJ, Dunst CM, Yang DY, De Meester SR, Hagen JA, Danenberg KD, De Meester TR, Danenberg PV
Thymidylate synthase polymorphisms and mRNA expression are independent chemotherapy predictive markers in esophageal adenocarcinoma patients.
Int J Oncol 32: 201-8 (2008)
PM ID: 18097560
677: Li K, Xu LY, Kulkarni AA, Perkins DI, Haworth IS, Davies DL
Ethanol inhibits functional activity of the human intestinal dipeptide transporter hPepT1 expressed in Xenopus oocytes.
Alcohol Clin Exp Res 32: 777-84 (2008)
PM ID: 18336632
678: Candelario J, Sudhakar S, Navarro S, Reddy S, Comai L
Perturbation of wild-type lamin A metabolism results in a progeroid phenotype.
Aging Cell 7: 355-67 (2008)
PM ID: 18363904 PMC2527236 NIHMS56478
679: Cao Q, Li ZB, Chen KY, Wu Z, He L, Neamati N, Chen X
Evaluation of biodistribution and anti-tumor effect of a dimeric RGD peptide-paclitaxel conjugate in mice with breast cancer.
Eur J Nucl Med Mol Imaging 35: 1489-98 (2008)
PM ID: 18373091
680: Raffaghello L, Lee CT, Safdie FM, Wei M, Madia F, Bianchi G, Longo VD
Starvation-dependent differential stress resistance protects normal but not cancer cells against high-dose chemotherapy.
Proc Natl Acad Sci U S A 105: 8215-20 (2008)
PM ID: 18378900 PMC2448817
681: Braun-Sand S, Sharma PK, Chu ZT, Pisliakov AV, Warshel A
The energetics of the primary proton transfer in bacteriorhodopsin revisited: it is a sequential light-induced charge separation after all.
Biochim Biophys Acta 1777: 441-52 (2008)
PM ID: 18387356 PMC2443747 NIHMS51300
682: Yoo CB, Chuang JC, Byun HM, Egger G, Yang AS, Dubeau L, Long TI, Laird PW, Marquez VE, Jones PA
Long-term epigenetic therapy with oral zebularine has minimal side effects and prevents intestinal tumors in mice.
Cancer Prev Res (Phila Pa) 1: 233-40 (2008)
PM ID: 19138966
683: Dowd CL, Sutch BT, Haworth IS, Eritja R, Marquez VE, Yang AS
Incorporation of zebularine from its 2'-deoxyribonucleoside triphosphate derivative and activity as a template-coding nucleobase.
Nucleosides Nucleotides Nucleic Acids 27: 131-45 (2008)
PM ID: 18205068
684: Gu J, Lieber MR
Mechanistic flexibility as a conserved theme across 3 billion years of nonhomologous DNA end-joining.
Genes Dev 22: 411-5 (2008)
PM ID: 18281457 PMC2731650
685: Heisterkamp N, Groffen J, Warburton D, Sneddon TP
The human gamma-glutamyltransferase gene family.
Hum Genet 123: 321-32 (2008)
PM ID: 18357469
686: Mori R, Wang QS, Quek ML, Tarabolous C, Cheung EM, Ye W, Groshen S, Hawes D, Togo S, Shimada H, Danenberg KD, Danenberg PV, Pinski JK
Prognostic value of the androgen receptor and its coactivators in patients with D1 prostate cancer.
Anticancer Res 28: 425-30 (2008)
PM ID: 18383880
687: Ma HC, Lin TW, Li HY, Iguchi-Ariga SM, Ariga H, Chuang YL, Ou JH, Lo SY
Hepatitis C virus ARFP/F protein interacts with cellular MM-1 protein and enhances the gene trans-activation activity of c-Myc.
J Biomed Sci 15: 417-25 (2008)
PM ID: 18398700
688: Chu MW, Siegmund KD, Hao QL, Crooks GM, Tavaré S, Shibata D
Inferring relative numbers of human leucocyte genome replications.
Br J Haematol 141: 862-71 (2008)
PM ID: 18410448
689: Rosta E, Haranczyk M, Chu ZT, Warshel A
Accelerating QM/MM free energy calculations: representing the surroundings by an updated mean charge distribution.
J Phys Chem B 112: 5680-92 (2008)
PM ID: 18412414 PMC2651397 NIHMS96684
690: Pham P, Smolka MB, Calabrese P, Landolph A, Zhang K, Zhou H, Goodman MF
Impact of phosphorylation and phosphorylation-null mutants on the activity and deamination specificity of activation-induced cytidine deaminase.
J Biol Chem 283: 17428-39 (2008)
PM ID: 18417471 PMC2427360
691: Theisen J, Danenberg K, Ott K, Becker K, Danenberg P, Stein HJ, Siewert JR
Predictors of response and survival for neoadjuvant treated patients with esophageal adenocarcinoma.
Dis Esophagus 21: 601-6 (2008)
PM ID: 18430179
692: Garcia-Closas M, Hall P, Nevanlinna H, Pooley KA, Morrison JL, Richesson DA, Bojesen SE, Nordestgaard BG, Axelsson CK, Arias JI, Milne RL, Ribas G, González-Neira A, Benítez J, Zamora P, Brauch H, Justenhoven C, Hamann U, Ko YD, Bruening T, Haas S, Dörk T, Schürmann P, Hillemanns P, Bogdanova N, Bremer M, Karstens JH, Fagerholm R, Aaltonen K, Aittomäki K, von Smitten K, Blomqvist C, Mannermaa A, Uusitupa M, Eskelinen M, Tengström M, Kosma VM, Kataja V, Chenevix-Trench G, Spurdle AB, Beesley J, Chen X, Australian Ovarian Cancer Management Group , Kathleen Cuningham Foundation Consortium For Resea , Devilee P, van Asperen CJ, Jacobi CE, Tollenaar RA, Huijts PE, Klijn JG, Chang-Claude J, Kropp S, Slanger T, Flesch-Janys D, Mutschelknauss E, Salazar R, Wang-Gohrke S, Couch FJ, Goode EL, Olson JE, Vachon C, Fredericksen ZS, Giles GG, Baglietto L, Severi G, Hopper JL, English DR, Southey MC, Haiman CA, Henderson BE, Kolonel LN, Le Marchand L, Stram DO, Hunter DJ, Hankinson SE, Cox DG, Tamimi RM, Kraft P, Sherman ME, Chanock SJ, Lissowska J, Brinton LA, Peplonska B, Klijn JG, Hooning MJ, Meijers-Heijboer H, Collee JM, van den Ouweland A, Uitterlinden AG, Liu JF, Lin LY, Yuqing L, Humphreys K, Czene K, Cox A, Balasubramanian SP, Cross SS, Reed MW, Blows F, Driver K, Dunning AM, Tyrer J, Ponder BA, Sangrajrang S, Brennan P, McKay J, Odefrey F, Gabrieau V, Sigurdson AJ, Doody M, Struewing JP, Alexander BH, Easton DF, Pharoah PD
Heterogeneity of breast cancer associations with five susceptibility loci by clinical and pathological characteristics.
PLoS Genet 4: e1000054 (2008)
PM ID: 18437204 PMC2291027
693: Fabrizio P, Longo VD
Chronological aging-induced apoptosis in yeast.
Biochim Biophys Acta 1783: 1280-5 (2008)
PM ID: 18445486 PMC2536486 NIHMS56388
694: Banki F, Yacoub WN, Hagen JA, Mason RJ, Ayazi S, DeMeester SR, Lipham JC, Danenberg K, Danenberg P, DeMeester TR
Plasma DNA is more reliable than carcinoembryonic antigen for diagnosis of recurrent esophageal cancer.
J Am Coll Surg 207: 30-5 (2008)
PM ID: 18589358
695: Robinson PJ, An W, Routh A, Martino F, Chapman L, Roeder RG, Rhodes D
30 nm chromatin fibre decompaction requires both H4-K16 acetylation and linker histone eviction.
J Mol Biol 381: 816-25 (2008)
PM ID: 18653199
696: Heo K, Kim HJ, Choi SH, Choi J, Kim KJ, Gu J, Lieber MR, Yang AS, An W
FACT-mediated exchange of histone variant H2AX regulated by phosphorylation of H2AX and ADP-ribosylation of Spt16.
Mol Cell 30: 86-97 (2008)
PM ID: 18406329
697: Thomas M, Dasgupta J, Zhang Y, Chen X, Banks L
Analysis of specificity determinants in the interactions of different HPV E6 proteins with their PDZ domain-containing substrates.
Virology 376: 371-8 (2008)
PM ID: 18452965
698: Johnson SA, Dubeau L, Johnson DL
Enhanced RNA polymerase III-dependent transcription is required for oncogenic transformation.
J Biol Chem 283: 19184-91 (2008)
PM ID: 18456653 PMC2443659
699: Jong A, Wu CH, Prasadarao NV, Kwon-Chung KJ, Chang YC, Ouyang Y, Shackleford GM, Huang SH
Invasion of Cryptococcus neoformans into human brain microvascular endothelial cells requires protein kinase C-alpha activation.
Cell Microbiol 10: 1854-65 (2008)
PM ID: 18489726 PMC2729555 NIHMS106049
700: Basile LA, Gallaher TK, Shibata D, Miller JD, Douer D
Multilineage hematopoietic recovery with concomitant antitumor effects using low dose Interleukin-12 in myelosuppressed tumor-bearing mice.
J Transl Med 6: 26 (2008)
PM ID: 18489769 PMC2424034
701: Pisliakov AV, Sharma PK, Chu ZT, Haranczyk M, Warshel A
Electrostatic basis for the unidirectionality of the primary proton transfer in cytochrome c oxidase.
Proc Natl Acad Sci U S A 105: 7726-31 (2008)
PM ID: 18509049 PMC2409407
702: Hacia JG, Lee CC, Jimenez DF, Karaman MW, Ho VV, Siegmund KD, Tarantal AF
Age-related gene expression profiles of rhesus monkey bone marrow-derived mesenchymal stem cells.
J Cell Biochem 103: 1198-210 (2008)
PM ID: 17685434
703: Shimazaki N, Lieber MR
DNA-PKcs at 7 angstrom: insights for DNA repair.
Structure 16: 334-6 (2008)
PM ID: 18334206
704: Ramus SJ, Vierkant RA, Johnatty SE, Pike MC, Van Den Berg DJ, Wu AH, Pearce CL, Menon U, Gentry-Maharaj A, Gayther SA, DiCioccio RA, McGuire V, Whittemore AS, Song H, Easton DF, Pharoah PD, Garcia-Closas M, Chanock SJ, Lissowska J, Brinton LA, Terry KL, Cramer DW, Tworoger SS, Hankinson SE, Berchuck A, Moorman PG, Schildkraut JM, Cunningham JM, Liebow M, Kjaer SK, Hogdall E, Hogdall CK, Blaakaer J, Ness RB, Moysich KB, Edwards RP, Carney ME, Lurie G, Goodman MT, Wang-Gohrke S, Kropp S, Chang-Claude J, Australian Ovarian Cancer Study Group , Australian Cancer Study (Ovarian Cancer) , Webb PM, Chen X, Beesley J, Chenevix-Trench G, Goode EL, Ovarian Cancer Association Consortium
Consortium analysis of 7 candidate SNPs for ovarian cancer.
Int J Cancer 123: 380-8 (2008)
PM ID: 18431743 PMC2667795 NIHMS104109
705: Siegmund KD, Marjoram P, Shibata D
Modeling DNA methylation in a population of cancer cells.
Stat Appl Genet Mol Biol 7: Article 18 (2008)
PM ID: 18597664
706: Liang C, Sir D, Lee SY, Ou JH, Jung JU
Beyond autophagy: the role of UVRAG in membrane trafficking.
Autophagy 4: 817-20 (2008)
PM ID: 18612260
707: Longo VD
Linking sirtuins, IGF-I signaling, and starvation.
Exp Gerontol 44: 70-4 (2008)
PM ID: 18638538
708: Haranczyk M, Gutowski M, Warshel A
Solvation free energies of molecules. The most stable anionic tautomers of uracil.
Phys Chem Chem Phys 10: 4442-8 (2008)
PM ID: 18654684 PMC2562795 NIHMS50105
709: Chelico L, Sacho EJ, Erie DA, Goodman MF
A model for oligomeric regulation of APOBEC3G cytosine deaminase-dependent restriction of HIV.
J Biol Chem 283: 13780-91 (2008)
PM ID: 18362149 PMC2376223
710: Choi SK, Yoon SR, Calabrese P, Arnheim N
A germ-line-selective advantage rather than an increased mutation rate can explain some unexpectedly common human disease mutations.
Proc Natl Acad Sci U S A 105: 10143-8 (2008)
PM ID: 18632557 PMC2474563
711: Sir D, Liang C, Chen WL, Jung JU, Ou JH
Perturbation of autophagic pathway by hepatitis C virus.
Autophagy 4: 830-1 (2008)
PM ID: 18635950 PMC2574555 [Available on 11/01/09] NIHMS60148 [Available on 11/01/09]
712: Somlo G, Chu P, Frankel P, Ye W, Groshen S, Doroshow JH, Danenberg K, Danenberg P
Molecular profiling including epidermal growth factor receptor and p21 expression in high-risk breast cancer patients as indicators of outcome.
Ann Oncol 19: 1853-9 (2008)
PM ID: 18641005 PMC2733077 [Available on 11/01/09]
713: Makino H, Uetake H, Danenberg K, Danenberg PV, Sugihara K
Efficacy of laser capture microdissection plus RT-PCR technique in analyzing gene expression levels in human gastric cancer and colon cancer.
BMC Cancer 8: 210 (2008)
PM ID: 18652704 PMC2533342
714: Gutschow CA, Vallböhmer D, Stolte M, Oh D, Danenberg K, Danenberg P, Schneider PM, Hölscher AH
Adenocarcinoma developing in de novo Barrett's mucosa in the remnant esophagus after esophagectomy: clinical and molecular assessment.
Dis Esophagus 21: E6-8 (2008)
PM ID: 18430096
715: Gómez EB, Nugent RL, Laria S, Forsburg SL
Schizosaccharomyces pombe histone acetyltransferase Mst1 (KAT5) is an essential protein required for damage response and chromosome segregation.
Genetics 179: 757-71 (2008)
PM ID: 18505873 PMC2429872
716: Hu F, Gan Y, Aparicio OM
Identification of Clb2 residues required for Swe1 regulation of Clb2-Cdc28 in Saccharomyces cerevisiae.
Genetics 179: 863-74 (2008)
PM ID: 18558651 PMC2429880
717: Li YT, Xu W, McBurney MW, Longo VD
SirT1 inhibition reduces IGF-I/IRS-2/Ras/ERK1/2 signaling and protects neurons.
Cell Metab 8: 38-48 (2008)
PM ID: 18590691
718: Magda D, Lecane PS, Wang ZZ, Hu W, Thiemann P, Ma X, Dranchak PK, Wang XD, Lynch V, Wei W, Csokai V, Hacia JG, Sessler JL
Synthesis and anticancer properties of water-soluble zinc ionophores.
Cancer Res 68: 5318-25 (2008)
PM ID: 18593933
719: Kumari A, Minko IG, Harbut MB, Finkel SE, Goodman MF, Lloyd RS
Replication bypass of interstrand cross-link intermediates by Escherichia coli DNA polymerase IV.
J Biol Chem 283: 27433-7 (2008)
PM ID: 18697749 PMC2562078
720: Hoffmann AC, Mori R, Vallbohmer D, Brabender J, Drebber U, Baldus SE, Klein EA, Azuma M, Metzger R, Hoffmann C, Hoelscher AH, Danenberg KD, Prenzel KL, Danenberg PV
High expression of heparanase is significantly associated with dedifferentiation and lymph node metastasis in patients with pancreatic ductal adenocarcinomas and correlated to PDGFA and via HIF1a to HB-EGF and bFGF.
J Gastrointest Surg 12: 1674-81; discussion 1681-2 (2008)
PM ID: 18704599
721: Kamerlin SC, Williams NH, Warshel A
Dineopentyl phosphate hydrolysis: evidence for stepwise water attack.
J Org Chem 73: 6960-9 (2008)
PM ID: 18729515
722: Wang LC, Okitsu CY, Kochounian HH, Rodriguez A, Hsieh CL, Zandi E
A simple and inexpensive on-column frit fabrication method for fused-silica capillaries for increased capacity and versatility in LC-MS/MS applications.
Proteomics 8: 1758-61 (2008)
PM ID: 18384106
723: Hoffmann AC, Mori R, Vallbohmer D, Brabender J, Klein EA, Drebber U, Baldus SE, Cooc J, Azuma M, Metzger R, Hoelscher AH, Danenberg KD, Prenzel KL, Danenberg PV
High expression of HIF1a is a predictor of clinical outcome in patients with pancreatic ductal adenocarcinomas and correlated to PDGFA, VEGF, and bFGF.
Neoplasia 10: 674-9 (2008)
PM ID: 18592007 PMC2435004
724: Jiang X, Castelao JE, Groshen S, Cortessis VK, Shibata DK, Conti DV, Gago-Dominguez M
Water intake and bladder cancer risk in Los Angeles County.
Int J Cancer 123: 1649-56 (2008)
PM ID: 18623082
725: Szyjka SJ, Aparicio JG, Viggiani CJ, Knott S, Xu W, Tavaré S, Aparicio OM
Rad53 regulates replication fork restart after DNA damage in Saccharomyces cerevisiae.
Genes Dev 22: 1906-20 (2008)
PM ID: 18628397 PMC2492737
726: Neale G, Su X, Morton CL, Phelps DA, Gorlick R, Lock RB, Reynolds CP, Maris JM, Friedman HS, Dome JS, Khoury J, Triche TJ, Seeger RC, Gilbertson RJ, Khan J, Smith MA, Houghton PJ
Molecular characterization of the pediatric preclinical testing panel.
Clin Cancer Res 14: 4572-83 (2008)
PM ID: 18628472
727: Mori R, Wang QS, Danenberg KD, Pinski JK, Danenberg PV
Both beta-actin and GAPDH are useful reference genes for normalization of quantitative RT-PCR in human FFPE tissue samples of prostate cancer.
Prostate 68: 1555-60 (2008)
PM ID: 18651557
728: Kim JH, Yang CK, Heo K, Roeder RG, An W, Stallcup MR
CCAR1, a key regulator of mediator complex recruitment to nuclear receptor transcription complexes.
Mol Cell 31: 510-9 (2008)
PM ID: 18722177 PMC2562329 NIHMS64408
729: Gajecka M, Gentles AJ, Tsai AG, Chitayat D, Mackay KL, Glotzbach CD, Lieber MR, Shaffer LG
Unexpected complexity at breakpoint junctions in phenotypically normal individuals and mechanisms involved in generating balanced translocations t(1;22)(p36;q13).
Genome Res 18: 1733-42 (2008)
PM ID: 18765821 PMC2577863
730: Roca M, Messer B, Hilvert D, Warshel A
On the relationship between folding and chemical landscapes in enzyme catalysis.
Proc Natl Acad Sci U S A 105: 13877-82 (2008)
PM ID: 18779576 PMC2544547
731: Zagar TM, Triche TJ, Kinsella TJ
Extraosseous Ewing's sarcoma: 25 years later.
J Clin Oncol 26: 4230-2 (2008)
PM ID: 18779607
732: Pham P, Zhang K, Goodman MF
Hypermutation at A/T sites during G.U mismatch repair in vitro by human B-cell lysates.
J Biol Chem 283: 31754-62 (2008)
PM ID: 18786917 PMC2581569 [Available on 11/14/09]
733: Minko IG, Yamanaka K, Kozekov ID, Kozekova A, Indiani C, O'Donnell ME, Jiang Q, Goodman MF, Rizzo CJ, Lloyd RS
Replication bypass of the acrolein-mediated deoxyguanine DNA-peptide cross-links by DNA polymerases of the DinB family.
Chem Res Toxicol 21: 1983-90 (2008)
PM ID: 18788757 PMC2673917 NIHMS86382
734: Oh DS, DeMeester SR, Dunst CM, Mori R, Lehman BJ, Kuramochi H, Danenberg K, Danenberg P, Hagen JA, Chandrasoma PT, DeMeester TR
Validation of a rodent model of Barrett's esophagus using quantitative gene expression profiling.
Surg Endosc 23: 1346-52 (2008)
PM ID: 18813976
735: Sir D, Chen WL, Choi J, Wakita T, Yen TS, Ou JH
Induction of incomplete autophagic response by hepatitis C virus via the unfolded protein response.
Hepatology 48: 1054-61 (2008)
PM ID: 18688877 PMC2562598 NIHMS57806
736: Douglas D, Hsu JH, Hung L, Cooper A, Abdueva D, van Doorninck J, Peng G, Shimada H, Triche TJ, Lawlor ER
BMI-1 promotes ewing sarcoma tumorigenicity independent of CDKN2A repression.
Cancer Res 68: 6507-15 (2008)
PM ID: 18701473 PMC2570201 NIHMS56191
737: Yi SJ, Lee HT, Groffen J, Heisterkamp N
Bcr/Abl P190 interaction with Spa-1, a GTPase activating protein for the small GTPase Rap1.
Int J Mol Med 22: 453-8 (2008)
PM ID: 18813851
738: Holden LG, Prochnow C, Chang YP, Bransteitter R, Chelico L, Sen U, Stevens RC, Goodman MF, Chen XS
Crystal structure of the anti-viral APOBEC3G catalytic domain and functional implications.
Nature 456: 121-4 (2008)
PM ID: 18849968 PMC2714533 [Available on 11/06/09] NIHMS115824 [Available on 11/06/09]
739: Parrella E, Longo VD
The chronological life span of Saccharomyces cerevisiae to study mitochondrial dysfunction and disease.
Methods 46: 256-62 (2008)
PM ID: 18930829
740: Longo VD, Lieber MR, Vijg J
Turning anti-ageing genes against cancer.
Nat Rev Mol Cell Biol 9: 903-10 (2008)
PM ID: 18946478
741: Ren C, Finkel SE, Tower J
Conditional inhibition of autophagy genes in adult Drosophila impairs immunity without compromising longevity.
Exp Gerontol 44: 228-35 (2008)
PM ID: 18955126 PMC2664319 [Available on 03/01/10] NIHMS99063 [Available on 03/01/10]
742: Yuksek K, Chen WL, Chien D, Ou JH
Ubiquitin-independent degradation of hepatitis C virus F protein.
J Virol 83: 612-21 (2008)
PM ID: 18971267 PMC2612388
743: Magda D, Lecane PS, Prescott J, Thiemann P, Ma X, Dranchak PK, Toleno DM, Ramaswamy K, Siegmund KD, Hacia JG
mtDNA depletion confers specific gene expression profiles in human cells grown in culture and in xenograft.
BMC Genomics 9: 521 (2008)
PM ID: 18980691 PMC2612029
744: Haga K, Tomioka A, Liao CP, Kimura T, Matsumoto H, Ohno I, Hermann K, Logg CR, Jiao J, Tanaka MS, Hirao Y, Wu H, Kruse CA, Roy-Burman P, Kasahara N
PTEN knockout prostate cancer as a model for experimental immunotherapy.
J Urol 181: 354-62 (2008)
PM ID: 19010487
745: Fu Y, Wey S, Wang M, Ye R, Liao CP, Roy-Burman P, Lee AS
Pten null prostate tumorigenesis and AKT activation are blocked by targeted knockout of ER chaperone GRP78/BiP in prostate epithelium.
Proc Natl Acad Sci U S A 105: 19444-9 (2008)
PM ID: 19033462 PMC2614780
746: Mori R, Xiong S, Wang QS, Tarabolous C, Shimada H, Panteris E, Danenberg KD, Danenberg PV, Pinski JK
Gene profiling and pathway analysis of neuroendocrine transdifferentiated prostate cancer cells.
Prostate 69: 12-23 (2008)
PM ID: 18814146
747: de Villartay JP, Shimazaki N, Charbonnier JB, Fischer A, Mornon JP, Lieber MR, Callebaut I
A histidine in the beta-CASP domain of Artemis is critical for its full in vitro and in vivo functions.
DNA Repair (Amst) 8: 202-8 (2008)
PM ID: 19022407
748: Dubeau L
The cell of origin of ovarian epithelial tumours.
Lancet Oncol 9: 1191-7 (2008)
PM ID: 19038766
749: Tsai AG, Lu H, Raghavan SC, Muschen M, Hsieh CL, Lieber MR
Human chromosomal translocations at CpG sites and a theoretical basis for their lineage and stage specificity.
Cell 135: 1130-42 (2008)
PM ID: 19070581 PMC2642632 [Available on 12/12/09] NIHMS84558 [Available on 12/12/09]
750: Tsai AG, Engelhart AE, Hatmal MM, Houston SI, Hud NV, Haworth IS, Lieber MR
Conformational variants of duplex DNA correlated with cytosine-rich chromosomal fragile sites.
J Biol Chem 284: 7157-64 (2008)
PM ID: 19106104 PMC2652318 [Available on 03/13/10]
751: Palmieri RT, Wilson MA, Iversen ES, Clyde MA, Calingaert B, Moorman PG, Poole C, Anderson AR, Anderson SA, Anton-Culver H, Beesley J, Hogdall E, Brewster W, Carney ME, Chen X, Chenevix-Trench G, Chang-Claude J, Cunningham JM, DiCioccio RA, Doherty JA, Easton DF, Edlund CK, Gayther SA, Gentry-Maharaj A, Goode EL, Goodman MT, Kjaer SK, Hogdall CK, Hopkins MP, Jenison EL, Blaakaer J, Lurie G, McGuire V, Menon U, Moysich KB, Ness RB, Pearce CL, Pharoah PD, Pike MC, Ramus SJ, Rossing MA, Song H, Terada KY, VanDenBerg D, Vierkant RA, Wang-Gohrke S, Webb PM, Whittemore AS, Wu AH, Ziogas A, Berchuck A, Schildkraut JM, Ovarian Cancer Association Consortium , Australian Cancer Study (Ovarian Cancer Group) , Australian Ovarian Cancer Study Group
Polymorphism in the IL18 gene and epithelial ovarian cancer in non-Hispanic white women.
Cancer Epidemiol Biomarkers Prev 17: 3567-72 (2009)
PM ID: 19064572 PMC2664299 [Available on 12/01/09] NIHMS94130 [Available on 12/01/09]
752: Li P, Tong C, Mehrian-Shai R, Jia L, Wu N, Yan Y, Maxson RE, Schulze EN, Song H, Hsieh CL, Pera MF, Ying QL
Germline competent embryonic stem cells derived from rat blastocysts.
Cell 135: 1299-310 (2009)
PM ID: 19109898 PMC2735113 NIHMS131481
753: Dunning AM, Healey CS, Baynes C, Maia AT, Scollen S, Vega A, Rodríguez R, Barbosa-Morais NL, Ponder BA, SEARCH , Low YL, Bingham S, EPIC , Haiman CA, Le Marchand L, MEC , Broeks A, Schmidt MK, ABCS , Hopper JL, Southey M, ABCFS , Beckmann MW, Fasching PA, BBCC , Peto J, Johnson NJ, BBCS , Bojesen SE, Nordestgaard BG, CGPS , Milne RL, Benitez J, CNIO-BCS , Hamann U, Ko YD, GENICA , Schmutzler RK, Burwinkel B, GC-HBOC , Schürmann P, Dörk T, HABCS , Heikkinen T, Nevanlinna H, HEBCS , Lindblom A, Margolin S, KARBAC , Mannermaa A, Kosma VM, KBCS , Chen X, Spurdle AB, kConFab and the AOCS Management Group , Change-Claude J, Flesch-Janys D, MARIE , Couch FJ, Olson JE, for MCBCS , Severi G, Baglietto L, MCCS , Børresen-Dale AL, Kristensen V, NBCS , Hunter DJ, Hankinson SE, NHS , Devilee P, Vreeswijk MP, ORIGO , Lissowska J, Brinton LA, PBCS , Liu JF, Hall P, SASBAC , Kang D, Yoo KY, SEBCS , Shen CY, Yu JC, TWBCS , Anton-Culver H, Ziogoas A, UCIBCS , Sigurdson AJ, Struewing JP, USRTS , Easton DF, Garcia-Closas M, Humphreys MK, Morrison JL, Pharoah PD, Pooley KA, Chenevix-Trench G, BCAC
Association of ESR1 gene tagging SNPs with breast cancer risk.
Hum Mol Genet 18: 1131-9 (2009)
PM ID: 19126777 PMC2722230 [Available on 03/15/10]
754: Pearce CL, Near AM, Van Den Berg DJ, Ramus SJ, Gentry-Maharaj A, Menon U, Gayther SA, Anderson AR, Edlund CK, Wu AH, Chen X, Beesley J, Webb PM, Holt SK, Chen CS, Doherty JA, Rossing MA, Whittemore AS, McGuire V, DiCioccio RA, Goodman MT, Lurie G, Carney ME, Wilkens LR, Ness RB, Moysich KB, Edwards RD, Jennison E, Kjaer SK, Hogdall E, Hogdall CK, Goode EL, Sellers TA, Vierkant RA, Cunningham JC, Schildkraut JM, Berchuck A, Moorman PG, Iversen ES, Cramer DW, Terry KL, Vitonis AF, Titus-Ernstoff L, Song H, Pharoah PD, Spurdle AB, Anton-Culver H, Ziogas A, Brewster W, Galitovskiy V, Chenevix-Trench G, Australian Cancer Study , Australian Ovarian Cancer Study Group
Validating genetic risk associations for ovarian cancer through the international Ovarian Cancer Association Consortium.
Br J Cancer 100: 412-20 (2009)
PM ID: 19127255 PMC2634713 [Available on 01/27/10]
755: Rausch JW, Chelico L, Goodman MF, Le Grice SF
Dissecting APOBEC3G substrate specificity by nucleoside analog interference.
J Biol Chem 284: 7047-58 (2009)
PM ID: 19136562 PMC2652320 [Available on 03/13/10]
756: Davicioni E, Anderson MJ, Finckenstein FG, Lynch JC, Qualman SJ, Shimada H, Schofield DE, Buckley JD, Meyer WH, Sorensen PH, Triche TJ
Molecular classification of rhabdomyosarcoma--genotypic and phenotypic determinants of diagnosis: a report from the Children's Oncology Group.
Am J Pathol 174: 550-64 (2009)
PM ID: 19147825 PMC2630563
757: Gasparyan HJ, Xu LY, Petreaca RC, Rex AE, Small VY, Bhogal NS, Julius JA, Warsi TH, Bachant J, Aparicio OM, Nugent CI
Yeast telomere capping protein Stn1 overrides DNA replication control through the S phase checkpoint.
Proc Natl Acad Sci U S A 106: 2206-11 (2009)
PM ID: 19171895 PMC2650133
758: Machida K, Tsukamoto H, Mkrtchyan H, Duan L, Dynnyk A, Liu HM, Asahina K, Govindarajan S, Ray R, Ou JH, Seki E, Deshaies R, Miyake K, Lai MM
Toll-like receptor 4 mediates synergism between alcohol and HCV in hepatic oncogenesis involving stem cell marker Nanog.
Proc Natl Acad Sci U S A 106: 1548-53 (2009)
PM ID: 19171902 PMC2635765
759: Jiang X, Castelao JE, Groshen S, Cortessis VK, Shibata D, Conti DV, Yuan JM, Pike MC, Gago-Dominguez M
Urinary tract infections and reduced risk of bladder cancer in Los Angeles.
Br J Cancer 100: 834-9 (2009)
PM ID: 19174821 PMC2653778 [Available on 03/10/10]
760: Yu XJ, Wang Y, Jiang M, Bierie B, Roy-Burman P, Shen MM, Taketo MM, Wills M, Matusik RJ
Activation of beta-Catenin in mouse prostate causes HGPIN and continuous prostate growth after castration.
Prostate 69: 249-62 (2009)
PM ID: 18991257
761: Kobayashi H, Sugihara K, Uetake H, Higuchi T, Yasuno M, Enomoto M, Iida S, Azuma M, Mori R, Omori A, Lenz HJ, Danenberg KD, Danenberg PV
Messenger RNA expression of TS and ERCC1 in colorectal cancer and matched liver metastasis.
Int J Oncol 33: 1257-62 (2009)
PM ID: 19020759
762: Chen JL, Lin HH, Kim KJ, Lin AH, Ou JH, Ann DK
PKC delta signaling: a dual role in regulating hypoxic stress-induced autophagy and apoptosis.
Autophagy 5: 244-6 (2009)
PM ID: 19098423 PMC2743529 NIHMS123596
763: Ohta S, Uemura H, Matsui Y, Ishiguro H, Fujinami K, Kondo K, Miyamoto H, Yazawa T, Danenberg K, Danenberg PV, Tohnai I, Kubota Y
Alterations of p16 and p14ARF genes and their 9p21 locus in oral squamous cell carcinoma.
Oral Surg Oral Med Oral Pathol Oral Radiol Endod 107: 81-91 (2009)
PM ID: 19101490
764: Fujino Y, Liao CP, Zhao YS, Pan J, Mathes LE, Hayes KA, Ohno K, Tsujimoto H, Roy-Burman P
Identification of a novel common proviral integration site, flit-1, in feline leukemia virus induced thymic lymphoma.
Virology 386: 16-22 (2009)
PM ID: 19203775
765: Kraigsley AM, Finkel SE
Adaptive evolution in single species bacterial biofilms.
FEMS Microbiol Lett 293: 135-40 (2009)
PM ID: 19239496
766: Chelico L, Pham P, Goodman MF
Stochastic properties of processive cytidine DNA deaminases AID and APOBEC3G.
Philos Trans R Soc Lond B Biol Sci 364: 583-93 (2009)
PM ID: 19022738 PMC2660917 [Available on 03/12/10]
767: Kamerlin SC, Haranczyk M, Warshel A
Progress in ab initio QM/MM free-energy simulations of electrostatic energies in proteins: accelerated QM/MM studies of pKa, redox reactions and solvation free energies.
J Phys Chem B 113: 1253-72 (2009)
PM ID: 19055405 PMC2679392 [Available on 02/05/10] NIHMS86597 [Available on 02/05/10]
768: Woo YJ, Siegmund KD, Tavaré S, Shibata D
Older individuals appear to acquire mitotically older colorectal cancers.
J Pathol 217: 483-8 (2009)
PM ID: 19165870
769: Siegmund KD, Marjoram P, Woo YJ, Tavaré S, Shibata D
Inferring clonal expansion and cancer stem cell dynamics from DNA methylation patterns in colorectal cancers.
Proc Natl Acad Sci U S A 106: 4828-33 (2009)
PM ID: 19261858 PMC2651202
770: Toleno DM, Renaud G, Wolfsberg TG, Islam M, Wildman DE, Siegmund KD, Hacia JG
Development and evaluation of new mask protocols for gene expression profiling in humans and chimpanzees.
BMC Bioinformatics 10: 77 (2009)
PM ID: 19265541 PMC2660304
771: Schildkraut JM, Goode EL, Clyde MA, Iversen ES, Moorman PG, Berchuck A, Marks JR, Lissowska J, Brinton LA, Peplonska B, Cunningham JM, Vierkant RA, Rider DN, Chenevix-Trench G, Webb PM, Beesley J, Chen X, Phelan C, Sutphen R, Sellers TA, Pearce L, Wu AH, Van Den Berg D, Conti DV, Elund CK, Anderson R, Goodman MT, Lurie G, Carney ME, Thompson PJ, Gayther SA, Ramus SJ, Jacobs I, Krüger Kjaer S, Hogdall E, Blaakaer J, Hogdall CK, Easton DF, Song H, Pharoah PD, Whittemore AS, McGuire V, Quaye L, Anton-Culver H, Ziogas A, Terry KL, Cramer DW, Hankinson SE, Tworoger SS, Calingaert B, Chanock SJ, Sherman ME, Garcia-Closas M, Australian Ovarian Cancer Study Group
Single nucleotide polymorphisms in the TP53 region and susceptibility to invasive epithelial ovarian cancer.
Cancer Res 69: 2349-57 (2009)
PM ID: 19276375 PMC2666150 [Available on 03/15/10] NIHMS89154 [Available on 03/15/10]
772: Indiani C, Langston LD, Yurieva O, Goodman MF, O'Donnell ME
Translesion DNA polymerases remodel the replisome and alter the speed of the replicative helicase.
Proc Natl Acad Sci U S A 106: 6031-8 (2009)
PM ID: 19279203 PMC2654394
773: Song H, Ramus SJ, Kjaer SK, DiCioccio RA, Chenevix-Trench G, Pearce CL, Hogdall E, Whittemore AS, McGuire V, Hogdall CK, Blaakaer J, Wu AH, Van Den Berg DJ, Stram DO, Menon U, Gentry-Maharaj A, Jacobs IJ, Webb PM, Beesley J, Chen X, Australian Cancer (Ovarian) Study , Australian Ovarian Cancer Study Group , Rossing MA, Doherty JA, Chang-Claude J, Wang-Gohrke S, Goodman MT, Lurie G, Thompson PJ, Carney ME, Ness RB, Moysich KB, Goode EL, Vierkant RA, Cunningham JM, Anderson SA, Schildkraut JM, Berchuck A, Iversen ES, Moorman PG, Garcia-Closas M, Chanock SJ, Lissowska J, Brinton LA, Anton-Culver H, Ziogas A, Brewster WR, Ponder BA, Easton DF, Gayther SA, Pharoah PD, Ovarian Cancer Association Consortium (OCAC)
Association between invasive ovarian cancer susceptibility and 11 best candidate SNPs from breast cancer genome-wide association study.
Hum Mol Genet 18: 2297-304 (2009)
PM ID: 19304784 PMC2685754
774: Roy D, Lieber MR
G clustering is important for the initiation of transcription-induced R-loops in vitro, whereas high G density without clustering is sufficient thereafter.
Mol Cell Biol 29: 3124-33 (2009)
PM ID: 19307304 PMC2682002 [Available on 12/01/09]
775: Palchevskiy V, Finkel SE
A role for single-stranded exonucleases in the use of DNA as a nutrient.
J Bacteriol 191: 3712-6 (2009)
PM ID: 19329645 PMC2681894 [Available on 12/01/09]
776: Figueiredo JC, Grau MV, Wallace K, Levine AJ, Shen LJ, Hamdan R, Chen X, Bresalier RS, McKeown-Eyssen GE, Haile RW, Baron JA, Issa JP
Global DNA hypomethylation (LINE-1) in the normal colon and lifestyle characteristics and dietary and genetic factors.
Cancer Epidemiol Biomarkers Prev 18: 1041-9 (2009)
PM ID: 19336559 PMC2712652 [Available on 04/01/10] NIHMS112791 [Available on 04/01/10]
777: Shao CH, Lacey M, Dubeau L, Ehrlich M
Hemimethylation footprints of DNA demethylation in cancer.
Epigenetics 4: 165-75 (2009)
PM ID: 19287214
778: Liu HM, Shi Y, Chen XS, Warshel A
Simulating the electrostatic guidance of the vectorial translocations in hexameric helicases and translocases.
Proc Natl Acad Sci U S A 106: 7449-54 (2009)
PM ID: 19383795 PMC2678657 [Available on 11/05/09]
779: Yik WY, Steinberg SJ, Moser AB, Moser HW, Hacia JG
Identification of novel mutations and sequence variation in the Zellweger syndrome spectrum of peroxisome biogenesis disorders.
Hum Mutat 30: E467-80 (2009)
PM ID: 19105186 PMC2649967 NIHMS86157
780: Roca M, Vardi-Kilshtain A, Warshel A
Toward accurate screening in computer-aided enzyme design.
Biochemistry 48: 3046-56 (2009)
PM ID: 19161327
781: Biffinger JC, Ray R, Little BJ, Fitzgerald LA, Ribbens M, Finkel SE, Ringeisen BR
Simultaneous analysis of physiological and electrical output changes in an operating microbial fuel cell with Shewanella oneidensis.
Biotechnol Bioeng 103: 524-31 (2009)
PM ID: 19189395
782: Upton TG, Kashemirov BA, McKenna CE, Goodman MF, Prakash GK, Kultyshev R, Batra VK, Shock DD, Pedersen LC, Beard WA, Wilson SH
Alpha,beta-difluoromethylene deoxynucleoside 5'-triphosphates: a convenient synthesis of useful probes for DNA polymerase beta structure and function.
Org Lett 11: 1883-6 (2009)
PM ID: 19351147 PMC2722935 [Available on 05/07/10] NIHMS108641 [Available on 05/07/10]
783: Knott SR, Viggiani CJ, Tavaré S, Aparicio OM
Genome-wide replication profiles indicate an expansive role for Rpd3L in regulating replication initiation timing or efficiency, and reveal genomic loci of Rpd3 function in Saccharomyces cerevisiae.
Genes Dev 23: 1077-90 (2009)
PM ID: 19417103 PMC2682954 [Available on 11/01/09]
784: Chelico L, Pham P, Goodman MF
Mechanisms of APOBEC3G-catalyzed processive deamination of deoxycytidine on single-stranded DNA.
Nat Struct Mol Biol 16: 454-5; author reply 455-6 (2009)
PM ID: 19421154
785: Wei M, Fabrizio P, Madia F, Hu J, Ge H, Li LM, Longo VD
Tor1/Sch9-regulated carbon source substitution is as effective as calorie restriction in life span extension.
PLoS Genet 5: e1000467 (2009)
PM ID: 19424415 PMC2669710
786: MacCarthy T, Kalis SL, Roa S, Pham P, Goodman MF, Scharff MD, Bergman A
V-region mutation in vitro, in vivo, and in silico reveal the importance of the enzymatic properties of AID and the sequence environment.
Proc Natl Acad Sci U S A 106: 8629-34 (2009)
PM ID: 19443686 PMC2682541
787: Kuramochi H, Uchida K, Peters JH, Shimizu D, Vallbohmer D, Schneider S, Danenberg KD, Danenberg PV
Loss of heterozygosity at thymidylate synthase locus in Barrett's metaplasia, dysplasia, and carcinoma sequences.
BMC Cancer 9: 157 (2009)
PM ID: 19460136 PMC2694818
788: Vardi-Kilshtain A, Roca M, Warshel A
The empirical valence bond as an effective strategy for computer-aided enzyme design.
Biotechnol J 4: 495-500 (2009)
PM ID: 19229886 PMC2671572 NIHMS96908
789: Fukui Y, Oka T, Nagayama S, Danenberg PV, Danenberg KD, Fukushima M
Thymidylate synthase, dihydropyrimidine dehydrogenase, orotate phosphoribosyltransferase mRNA and protein expression levels in solid tumors in large scale population analysis.
Int J Mol Med 22: 709-16 (2009)
PM ID: 19020767
790: Kobayashi H, Sugihara K, Uetake H, Higuchi T, Yasuno M, Enomoto M, Iida S, Lenz HJ, Danenberg KD, Danenberg PV
Messenger RNA expression of COX-2 and angiogenic factors in primary colorectal cancer and corresponding liver metastasis.
Int J Oncol 34: 1147-53 (2009)
PM ID: 19287974
791: Kamerlin SC, Haranczyk M, Warshel A
Are mixed explicit/implicit solvation models reliable for studying phosphate hydrolysis? A comparative study of continuum, explicit and mixed solvation models.
Chemphyschem 10: 1125-34 (2009)
PM ID: 19301306
792: Singh N, Warshel A
Toward accurate microscopic calculation of solvation entropies: extending the restraint release approach to studies of solvation effects.
J Phys Chem B 113: 7372-82 (2009)
PM ID: 19402609 PMC2738853 [Available on 05/21/10] NIHMS114340 [Available on 05/21/10]
793: Shimazaki N, Tsai AG, Lieber MR
H3K4me3 stimulates the V(D)J RAG complex for both nicking and hairpinning in trans in addition to tethering in cis: implications for translocations.
Mol Cell 34: 535-44 (2009)
PM ID: 19524534
794: Evdokimova V, Tognon C, Ng T, Ruzanov P, Melnyk N, Fink D, Sorokin A, Ovchinnikov LP, Davicioni E, Triche TJ, Sorensen PH
Translational activation of snail1 and other developmentally regulated transcription factors by YB-1 promotes an epithelial-mesenchymal transition.
Cancer Cell 15: 402-15 (2009)
PM ID: 19411069
795: Viggiani CJ, Aparicio JG, Aparicio OM
ChIP-chip to analyze the binding of replication proteins to chromatin using oligonucleotide DNA microarrays.
Methods Mol Biol 521: 255-78 (2009)
PM ID: 19563111
796: Luche DD, Forsburg SL
Cell-cycle synchrony for analysis of S. pombe DNA replication.
Methods Mol Biol 521: 437-48 (2009)
PM ID: 19563121
797: Sabatinos SA, Forsburg SL
Measuring DNA content by flow cytometry in fission yeast.
Methods Mol Biol 521: 449-61 (2009)
PM ID: 19563122
798: Green MD, Sabatinos SA, Forsburg SL
Microscopy techniques to examine DNA replication in fission yeast.
Methods Mol Biol 521: 463-82 (2009)
PM ID: 19563123
799: Willmann M, Wacheck V, Buckley JD, Nagy K, Thalhammer J, Paschke R, Triche TJ, Jansen B, Selzer E
Characterization of NVX-207, a novel betulinic acid-derived anti-cancer compound.
Eur J Clin Invest 39: 384-94 (2009)
PM ID: 19309323
800: Kilshtain AV, Warshel A
On the origin of the catalytic power of carboxypeptidase A and other metalloenzymes.
Proteins 77: 536-550 (2009)
PM ID: 19480013