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Items: 1 to 50 of 218

1.

Essential Saccharomyces cerevisiae genome instability suppressing genes identify potential human tumor suppressors.

Srivatsan A, Li B, Sanchez DN, Somach SB, da Silva VL, de Souza SJ, Putnam CD, Kolodner RD.

Proc Natl Acad Sci U S A. 2019 Aug 27;116(35):17377-17382. doi: 10.1073/pnas.1906921116. Epub 2019 Aug 13.

PMID:
31409704
2.

Alternative splicing regulates stochastic NLRP3 activity.

Hoss F, Mueller JL, Rojas Ringeling F, Rodriguez-Alcazar JF, Brinkschulte R, Seifert G, Stahl R, Broderick L, Putnam CD, Kolodner RD, Canzar S, Geyer M, Hoffman HM, Latz E.

Nat Commun. 2019 Jul 19;10(1):3238. doi: 10.1038/s41467-019-11076-1.

3.

Inhibition of Nuclear PTEN Tyrosine Phosphorylation Enhances Glioma Radiation Sensitivity through Attenuated DNA Repair.

Ma J, Benitez JA, Li J, Miki S, Ponte de Albuquerque C, Galatro T, Orellana L, Zanca C, Reed R, Boyer A, Koga T, Varki NM, Fenton TR, Nagahashi Marie SK, Lindahl E, Gahman TC, Shiau AK, Zhou H, DeGroot J, Sulman EP, Cavenee WK, Kolodner RD, Chen CC, Furnari FB.

Cancer Cell. 2019 May 13;35(5):816. doi: 10.1016/j.ccell.2019.04.011. No abstract available.

PMID:
31085179
4.

Inhibition of Nuclear PTEN Tyrosine Phosphorylation Enhances Glioma Radiation Sensitivity through Attenuated DNA Repair.

Ma J, Benitez JA, Li J, Miki S, Ponte de Albuquerque C, Galatro T, Orellana L, Zanca C, Reed R, Boyer A, Koga T, Varki NM, Fenton TR, Nagahashi Marie SK, Lindahl E, Gahman TC, Shiau AK, Zhou H, DeGroot J, Sulman EP, Cavenee WK, Kolodner RD, Chen CC, Furnari FB.

Cancer Cell. 2019 Mar 18;35(3):504-518.e7. doi: 10.1016/j.ccell.2019.01.020. Epub 2019 Feb 28. Erratum in: Cancer Cell. 2019 May 13;35(5):816.

PMID:
30827889
5.

Guidelines for DNA recombination and repair studies: Cellular assays of DNA repair pathways.

Klein HL, Bačinskaja G, Che J, Cheblal A, Elango R, Epshtein A, Fitzgerald DM, Gómez-González B, Khan SR, Kumar S, Leland BA, Marie L, Mei Q, Miné-Hattab J, Piotrowska A, Polleys EJ, Putnam CD, Radchenko EA, Saada AA, Sakofsky CJ, Shim EY, Stracy M, Xia J, Yan Z, Yin Y, Aguilera A, Argueso JL, Freudenreich CH, Gasser SM, Gordenin DA, Haber JE, Ira G, Jinks-Robertson S, King MC, Kolodner RD, Kuzminov A, Lambert SA, Lee SE, Miller KM, Mirkin SM, Petes TD, Rosenberg SM, Rothstein R, Symington LS, Zawadzki P, Kim N, Lisby M, Malkova A.

Microb Cell. 2019 Jan 7;6(1):1-64. doi: 10.15698/mic2019.01.664. Review.

6.

The properties of Msh2-Msh6 ATP binding mutants suggest a signal amplification mechanism in DNA mismatch repair.

Graham WJ 5th, Putnam CD, Kolodner RD.

J Biol Chem. 2018 Nov 23;293(47):18055-18070. doi: 10.1074/jbc.RA118.005439. Epub 2018 Sep 20.

7.

The Swr1 chromatin-remodeling complex prevents genome instability induced by replication fork progression defects.

Srivatsan A, Li BZ, Szakal B, Branzei D, Putnam CD, Kolodner RD.

Nat Commun. 2018 Sep 11;9(1):3680. doi: 10.1038/s41467-018-06131-2.

8.

Identification of Exo1-Msh2 interaction motifs in DNA mismatch repair and new Msh2-binding partners.

Goellner EM, Putnam CD, Graham WJ 5th, Rahal CM, Li BZ, Kolodner RD.

Nat Struct Mol Biol. 2018 Aug;25(8):650-659. doi: 10.1038/s41594-018-0092-y. Epub 2018 Jul 30.

PMID:
30061603
9.

SUMO E3 ligase Mms21 prevents spontaneous DNA damage induced genome rearrangements.

Liang J, Li BZ, Tan AP, Kolodner RD, Putnam CD, Zhou H.

PLoS Genet. 2018 Mar 5;14(3):e1007250. doi: 10.1371/journal.pgen.1007250. eCollection 2018 Mar.

10.

Cdc73 suppresses genome instability by mediating telomere homeostasis.

Nene RV, Putnam CD, Li BZ, Nguyen KG, Srivatsan A, Campbell CS, Desai A, Kolodner RD.

PLoS Genet. 2018 Jan 10;14(1):e1007170. doi: 10.1371/journal.pgen.1007170. eCollection 2018 Jan.

11.

Analyzing Genome Rearrangements in Saccharomyces cerevisiae.

Srivatsan A, Putnam CD, Kolodner RD.

Methods Mol Biol. 2018;1672:43-61. doi: 10.1007/978-1-4939-7306-4_5.

12.

Pathways and Mechanisms that Prevent Genome Instability in Saccharomyces cerevisiae.

Putnam CD, Kolodner RD.

Genetics. 2017 Jul;206(3):1187-1225. doi: 10.1534/genetics.112.145805. Review.

13.

Reconstitution of Saccharomyces cerevisiae DNA polymerase ε-dependent mismatch repair with purified proteins.

Bowen N, Kolodner RD.

Proc Natl Acad Sci U S A. 2017 Apr 4;114(14):3607-3612. doi: 10.1073/pnas.1701753114. Epub 2017 Mar 6.

14.

Uner Tan syndrome caused by a homozygous TUBB2B mutation affecting microtubule stability.

Breuss MW, Nguyen T, Srivatsan A, Leca I, Tian G, Fritz T, Hansen AH, Musaev D, McEvoy-Venneri J, James KN, Rosti RO, Scott E, Tan U, Kolodner RD, Cowan NJ, Keays DA, Gleeson JG.

Hum Mol Genet. 2017 Jan 15;26(2):258-269. doi: 10.1093/hmg/ddw383.

15.

Correction: Distinct SUMO Ligases Cooperate with Esc2 and Slx5 to Suppress Duplication-Mediated Genome Rearrangements.

Albuquerque CP, Wang G, Lee NS, Kolodner RD, Putnam CD, Zhou H.

PLoS Genet. 2016 Aug 31;12(8):e1006302. doi: 10.1371/journal.pgen.1006302. eCollection 2016 Aug.

16.

A genetic network that suppresses genome rearrangements in Saccharomyces cerevisiae and contains defects in cancers.

Putnam CD, Srivatsan A, Nene RV, Martinez SL, Clotfelter SP, Bell SN, Somach SB, de Souza JE, Fonseca AF, de Souza SJ, Kolodner RD.

Nat Commun. 2016 Apr 13;7:11256. doi: 10.1038/ncomms11256.

17.

A personal historical view of DNA mismatch repair with an emphasis on eukaryotic DNA mismatch repair.

Kolodner RD.

DNA Repair (Amst). 2016 Feb;38:3-13. doi: 10.1016/j.dnarep.2015.11.009. Epub 2015 Dec 3. Review. No abstract available.

18.

Activation of Saccharomyces cerevisiae Mlh1-Pms1 Endonuclease in a Reconstituted Mismatch Repair System.

Smith CE, Bowen N, Graham WJ 5th, Goellner EM, Srivatsan A, Kolodner RD.

J Biol Chem. 2015 Aug 28;290(35):21580-90. doi: 10.1074/jbc.M115.662189. Epub 2015 Jul 13.

19.

Exonuclease 1-dependent and independent mismatch repair.

Goellner EM, Putnam CD, Kolodner RD.

DNA Repair (Amst). 2015 Aug;32:24-32. doi: 10.1016/j.dnarep.2015.04.010. Epub 2015 Apr 30. Review.

20.

New insights into the mechanism of DNA mismatch repair.

Reyes GX, Schmidt TT, Kolodner RD, Hombauer H.

Chromosoma. 2015 Dec;124(4):443-62. doi: 10.1007/s00412-015-0514-0. Epub 2015 Apr 11. Review.

21.

Loss of the thioredoxin reductase Trr1 suppresses the genomic instability of peroxiredoxin tsa1 mutants.

Ragu S, Dardalhon M, Sharma S, Iraqui I, Buhagiar-Labarchède G, Grondin V, Kienda G, Vernis L, Chanet R, Kolodner RD, Huang ME, Faye G.

PLoS One. 2014 Sep 23;9(9):e108123. doi: 10.1371/journal.pone.0108123. eCollection 2014.

22.

PCNA and Msh2-Msh6 activate an Mlh1-Pms1 endonuclease pathway required for Exo1-independent mismatch repair.

Goellner EM, Smith CE, Campbell CS, Hombauer H, Desai A, Putnam CD, Kolodner RD.

Mol Cell. 2014 Jul 17;55(2):291-304. doi: 10.1016/j.molcel.2014.04.034. Epub 2014 Jun 26.

23.

Mlh2 is an accessory factor for DNA mismatch repair in Saccharomyces cerevisiae.

Campbell CS, Hombauer H, Srivatsan A, Bowen N, Gries K, Desai A, Putnam CD, Kolodner RD.

PLoS Genet. 2014 May 8;10(5):e1004327. doi: 10.1371/journal.pgen.1004327. eCollection 2014 May.

24.

S-score: a scoring system for the identification and prioritization of predicted cancer genes.

de Souza JE, Fonseca AF, Valieris R, Carraro DM, Wang JY, Kolodner RD, de Souza SJ.

PLoS One. 2014 Apr 7;9(4):e94147. doi: 10.1371/journal.pone.0094147. eCollection 2014.

25.

DNA repair pathway selection caused by defects in TEL1, SAE2, and de novo telomere addition generates specific chromosomal rearrangement signatures.

Putnam CD, Pallis K, Hayes TK, Kolodner RD.

PLoS Genet. 2014 Apr 3;10(4):e1004277. doi: 10.1371/journal.pgen.1004277. eCollection 2014 Apr.

26.

Mispair-specific recruitment of the Mlh1-Pms1 complex identifies repair substrates of the Saccharomyces cerevisiae Msh2-Msh3 complex.

Srivatsan A, Bowen N, Kolodner RD.

J Biol Chem. 2014 Mar 28;289(13):9352-64. doi: 10.1074/jbc.M114.552190. Epub 2014 Feb 18.

27.

A saccharomyces cerevisiae RNase H2 interaction network functions to suppress genome instability.

Allen-Soltero S, Martinez SL, Putnam CD, Kolodner RD.

Mol Cell Biol. 2014 Apr;34(8):1521-34. doi: 10.1128/MCB.00960-13. Epub 2014 Feb 18.

28.

Dominant mutations in S. cerevisiae PMS1 identify the Mlh1-Pms1 endonuclease active site and an exonuclease 1-independent mismatch repair pathway.

Smith CE, Mendillo ML, Bowen N, Hombauer H, Campbell CS, Desai A, Putnam CD, Kolodner RD.

PLoS Genet. 2013 Oct;9(10):e1003869. doi: 10.1371/journal.pgen.1003869. Epub 2013 Oct 31.

29.

Reconstitution of long and short patch mismatch repair reactions using Saccharomyces cerevisiae proteins.

Bowen N, Smith CE, Srivatsan A, Willcox S, Griffith JD, Kolodner RD.

Proc Natl Acad Sci U S A. 2013 Nov 12;110(46):18472-7. doi: 10.1073/pnas.1318971110. Epub 2013 Nov 1.

30.

DNA conformations in mismatch repair probed in solution by X-ray scattering from gold nanocrystals.

Hura GL, Tsai CL, Claridge SA, Mendillo ML, Smith JM, Williams GJ, Mastroianni AJ, Alivisatos AP, Putnam CD, Kolodner RD, Tainer JA.

Proc Natl Acad Sci U S A. 2013 Oct 22;110(43):17308-13. doi: 10.1073/pnas.1308595110. Epub 2013 Oct 7.

31.

Distinct SUMO ligases cooperate with Esc2 and Slx5 to suppress duplication-mediated genome rearrangements.

Albuquerque CP, Wang G, Lee NS, Kolodner RD, Putnam CD, Zhou H.

PLoS Genet. 2013;9(8):e1003670. doi: 10.1371/journal.pgen.1003670. Epub 2013 Aug 1. Erratum in: PLoS Genet. 2016 Aug;12(8):e1006302.

32.

Checkpoint kinases regulate a global network of transcription factors in response to DNA damage.

Jaehnig EJ, Kuo D, Hombauer H, Ideker TG, Kolodner RD.

Cell Rep. 2013 Jul 11;4(1):174-88. doi: 10.1016/j.celrep.2013.05.041. Epub 2013 Jun 27.

33.

Bioinformatic identification of genes suppressing genome instability.

Putnam CD, Allen-Soltero SR, Martinez SL, Chan JE, Hayes TK, Kolodner RD.

Proc Natl Acad Sci U S A. 2012 Nov 20;109(47):E3251-9. doi: 10.1073/pnas.1216733109. Epub 2012 Nov 5.

34.

Engineered disulfide-forming amino acid substitutions interfere with a conformational change in the mismatch recognition complex Msh2-Msh6 required for mismatch repair.

Hargreaves VV, Putnam CD, Kolodner RD.

J Biol Chem. 2012 Nov 30;287(49):41232-44. doi: 10.1074/jbc.M112.402495. Epub 2012 Oct 8.

35.

Rapid analysis of Saccharomyces cerevisiae genome rearrangements by multiplex ligation-dependent probe amplification.

Chan JE, Kolodner RD.

PLoS Genet. 2012;8(3):e1002539. doi: 10.1371/journal.pgen.1002539. Epub 2012 Mar 1.

36.

What makes the engine hum: Rad6, a cell cycle supercharger.

Enserink JM, Kolodner RD.

Cell Cycle. 2012 Jan 15;11(2):249-52. doi: 10.4161/cc.11.2.19023. Epub 2012 Jan 15.

37.

Mismatch repair, but not heteroduplex rejection, is temporally coupled to DNA replication.

Hombauer H, Srivatsan A, Putnam CD, Kolodner RD.

Science. 2011 Dec 23;334(6063):1713-6. doi: 10.1126/science.1210770.

38.

Visualization of eukaryotic DNA mismatch repair reveals distinct recognition and repair intermediates.

Hombauer H, Campbell CS, Smith CE, Desai A, Kolodner RD.

Cell. 2011 Nov 23;147(5):1040-53. doi: 10.1016/j.cell.2011.10.025.

39.

A chemical-genetic screen to unravel the genetic network of CDC28/CDK1 links ubiquitin and Rad6-Bre1 to cell cycle progression.

Zimmermann C, Chymkowitch P, Eldholm V, Putnam CD, Lindvall JM, Omerzu M, Bjørås M, Kolodner RD, Enserink JM.

Proc Natl Acad Sci U S A. 2011 Nov 15;108(46):18748-53. doi: 10.1073/pnas.1115885108. Epub 2011 Oct 31.

40.

Cancer. Aneuploidy drives a mutator phenotype in cancer.

Kolodner RD, Cleveland DW, Putnam CD.

Science. 2011 Aug 19;333(6045):942-3. doi: 10.1126/science.1211154. No abstract available.

41.

A genetic and structural study of genome rearrangements mediated by high copy repeat Ty1 elements.

Chan JE, Kolodner RD.

PLoS Genet. 2011 May;7(5):e1002089. doi: 10.1371/journal.pgen.1002089. Epub 2011 May 26.

42.

Rewiring of genetic networks in response to DNA damage.

Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller B, Licon K, Copeland W, Shales M, Fiedler D, Dutkowski J, Guénolé A, van Attikum H, Shokat KM, Kolodner RD, Huh WK, Aebersold R, Keogh MC, Krogan NJ, Ideker T.

Science. 2010 Dec 3;330(6009):1385-9. doi: 10.1126/science.1195618. Erratum in: Science. 2011 Jan 21;331(6015):284.

43.

Determination of gross chromosomal rearrangement rates.

Putnam CD, Kolodner RD.

Cold Spring Harb Protoc. 2010 Sep 1;2010(9):pdb.prot5492. doi: 10.1101/pdb.prot5492.

44.

Genes essential for cell viability that are linked to tumor suppressor genes play a role in cancer susceptibility.

Wang Y, Huang B, Edelmann L, Kolodner RD, Edelmann W.

Cell Cycle. 2010 Aug 15;9(16):3144-5. doi: 10.4161/cc.9.16.12951. Epub 2010 Aug 9. No abstract available.

45.

An overview of Cdk1-controlled targets and processes.

Enserink JM, Kolodner RD.

Cell Div. 2010 May 13;5:11. doi: 10.1186/1747-1028-5-11.

46.

Post-replication repair suppresses duplication-mediated genome instability.

Putnam CD, Hayes TK, Kolodner RD.

PLoS Genet. 2010 May 6;6(5):e1000933. doi: 10.1371/journal.pgen.1000933.

47.

Functional studies and homology modeling of Msh2-Msh3 predict that mispair recognition involves DNA bending and strand separation.

Dowen JM, Putnam CD, Kolodner RD.

Mol Cell Biol. 2010 Jul;30(13):3321-8. doi: 10.1128/MCB.01558-09. Epub 2010 Apr 26.

48.

Cis lethal genetic interactions attenuate and alter p53 tumorigenesis.

Wang Y, Zhang W, Edelmann L, Kolodner RD, Kucherlapati R, Edelmann W.

Proc Natl Acad Sci U S A. 2010 Mar 23;107(12):5511-5. doi: 10.1073/pnas.1001223107. Epub 2010 Mar 8.

49.

Probing DNA- and ATP-mediated conformational changes in the MutS family of mispair recognition proteins using deuterium exchange mass spectrometry.

Mendillo ML, Putnam CD, Mo AO, Jamison JW, Li S, Woods VL Jr, Kolodner RD.

J Biol Chem. 2010 Apr 23;285(17):13170-82. doi: 10.1074/jbc.M110.108894. Epub 2010 Feb 24.

50.

Functional analysis of human mismatch repair gene mutations identifies weak alleles and polymorphisms capable of polygenic interactions.

Martinez SL, Kolodner RD.

Proc Natl Acad Sci U S A. 2010 Mar 16;107(11):5070-5. doi: 10.1073/pnas.1000798107. Epub 2010 Feb 22.

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