InstitutionBaylor College of Medicine
DepartmentDepartment of Molecular & Human Genetics
AddressOne Baylor Plaza
Houston, TX 77030
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    R01GM080600     (IRA, GRZEGORZ A)May 1, 2007 - Feb 28, 2025
    Role: Principal Investigator

    R01GM125650     (IRA, GRZEGORZ A)Jan 1, 2018 - Dec 31, 2021
    Regulation of Initial Steps of Chromosomal Breaks Repair
    Role: Principal Investigator

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Wang X, Dong Y, Zhao X, Li J, Lee J, Yan Z, Yang S, Wu W, Hou X, Liu G, Zhang Y, Song L, Cai G, Li Q, Ira G, Zhang X, Chen X. Rtt105 promotes high-fidelity DNA replication and repair by regulating the single-stranded DNA-binding factor RPA. Proc Natl Acad Sci U S A. 2021 06 22; 118(25). PMID: 34140406.
      Citations:    Fields:    
    2. Pham N, Yan Z, Yu Y, Faria Afreen M, Malkova A, Haber JE, Ira G. Mechanisms restraining break-induced replication at two-ended DNA double-strand breaks. EMBO J. 2021 05 17; 40(10):e104847. PMID: 33844333.
      Citations: 5     Fields:    Translation:HumansCells
    3. Liu L, Yan Z, Osia BA, Twarowski J, Sun L, Kramara J, Lee RS, Kumar S, Elango R, Li H, Dang W, Ira G, Malkova A. Tracking break-induced replication shows that it stalls at roadblocks. Nature. 2021 02; 590(7847):655-659. PMID: 33473214.
      Citations: 6     Fields:    Translation:AnimalsCells
    4. Yan Z, Kumar S, Ira G. Analysis of DNA Double-Strand Break End Resection and Single-Strand Annealing in S. pombe. Methods Mol Biol. 2021; 2153:47-57. PMID: 32840771.
      Citations:    Fields:    Translation:AnimalsCells
    5. Gallagher DN, Pham N, Tsai AM, Janto AN, Choi J, Ira G, Haber JE. A Rad51-independent pathway promotes single-strand template repair in gene editing. PLoS Genet. 2020 10; 16(10):e1008689. PMID: 33057349.
      Citations: 7     Fields:    Translation:AnimalsCells
    6. Yan Z, Xue C, Kumar S, Crickard JB, Yu Y, Wang W, Pham N, Li Y, Niu H, Sung P, Greene EC, Ira G. Rad52 Restrains Resection at DNA Double-Strand Break Ends in Yeast. Mol Cell. 2019 12 05; 76(5):699-711.e6. PMID: 31542296.
      Citations: 9     Fields:    Translation:AnimalsCells
    7. Beck CR, Carvalho CMB, Akdemir ZC, Sedlazeck FJ, Song X, Meng Q, Hu J, Doddapaneni H, Chong Z, Chen ES, Thornton PC, Liu P, Yuan B, Withers M, Jhangiani SN, Kalra D, Walker K, English AC, Han Y, Chen K, Muzny DM, Ira G, Shaw CA, Gibbs RA, Hastings PJ, Lupski JR. Megabase Length Hypermutation Accompanies Human Structural Variation at 17p11.2. Cell. 2019 03 07; 176(6):1310-1324.e10. PMID: 30827684.
      Citations: 23     Fields:    Translation:HumansCells
    8. Klein HL, Bacinskaja 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. Guidelines for DNA recombination and repair studies: Cellular assays of DNA repair pathways. Microb Cell. 2019 Jan 07; 6(1):1-64. PMID: 30652105.
      Citations: 12     
    9. Yu Y, Pham N, Xia B, Papusha A, Wang G, Yan Z, Peng G, Chen K, Ira G. Dna2 nuclease deficiency results in large and complex DNA insertions at chromosomal breaks. Nature. 2018 12; 564(7735):287-290. PMID: 30518856.
      Citations: 8     Fields:    Translation:AnimalsCells
    10. Zheng S, Li D, Lu Z, Liu G, Wang M, Xing P, Wang M, Dong Y, Wang X, Li J, Zhang S, Peng H, Ira G, Li G, Chen X. Bre1-dependent H2B ubiquitination promotes homologous recombination by stimulating histone eviction at DNA breaks. Nucleic Acids Res. 2018 11 30; 46(21):11326-11339. PMID: 30304473.
      Citations: 7     Fields:    Translation:AnimalsCells
    11. Song X, Beck CR, Du R, Campbell IM, Coban-Akdemir Z, Gu S, Breman AM, Stankiewicz P, Ira G, Shaw CA, Lupski JR. Predicting human genes susceptible to genomic instability associated with Alu/Alu-mediated rearrangements. Genome Res. 2018 08; 28(8):1228-1242. PMID: 29907612.
      Citations: 27     Fields:    Translation:HumansCells
    12. Elango R, Sheng Z, Jackson J, DeCata J, Ibrahim Y, Pham NT, Liang DH, Sakofsky CJ, Vindigni A, Lobachev KS, Ira G, Malkova A. Break-induced replication promotes formation of lethal joint molecules dissolved by Srs2. Nat Commun. 2017 11 27; 8(1):1790. PMID: 29176630.
      Citations: 20     Fields:    Translation:AnimalsCells
    13. Buzovetsky O, Kwon Y, Pham NT, Kim C, Ira G, Sung P, Xiong Y. Role of the Pif1-PCNA Complex in Pol d-Dependent Strand Displacement DNA Synthesis and Break-Induced Replication. Cell Rep. 2017 Nov 14; 21(7):1707-1714. PMID: 29141206.
      Citations: 19     Fields:    Translation:HumansAnimalsCells
    14. Lemaçon D, Jackson J, Quinet A, Brickner JR, Li S, Yazinski S, You Z, Ira G, Zou L, Mosammaparast N, Vindigni A. MRE11 and EXO1 nucleases degrade reversed forks and elicit MUS81-dependent fork rescue in BRCA2-deficient cells. Nat Commun. 2017 10 16; 8(1):860. PMID: 29038425.
      Citations: 115     Fields:    Translation:HumansCells
    15. Lopez CR, Singh S, Hambarde S, Griffin WC, Gao J, Chib S, Yu Y, Ira G, Raney KD, Kim N. Yeast Sub1 and human PC4 are G-quadruplex binding proteins that suppress genome instability at co-transcriptionally formed G4 DNA. Nucleic Acids Res. 2017 Jun 02; 45(10):5850-5862. PMID: 28369605.
      Citations: 18     Fields:    Translation:HumansAnimalsCells
    16. Kumar S, Peng X, Daley J, Yang L, Shen J, Nguyen N, Bae G, Niu H, Peng Y, Hsieh HJ, Wang L, Rao C, Stephan CC, Sung P, Ira G, Peng G. Inhibition of DNA2 nuclease as a therapeutic strategy targeting replication stress in cancer cells. Oncogenesis. 2017 Apr 17; 6(4):e319. PMID: 28414320.
      Citations: 19     
    17. Miller AS, Daley JM, Pham NT, Niu H, Xue X, Ira G, Sung P. A novel role of the Dna2 translocase function in DNA break resection. Genes Dev. 2017 03 01; 31(5):503-510. PMID: 28336516.
      Citations: 17     Fields:    Translation:AnimalsCells
    18. Xue X, Papusha A, Choi K, Bonner JN, Kumar S, Niu H, Kaur H, Zheng XF, Donnianni RA, Lu L, Lichten M, Zhao X, Ira G, Sung P. Differential regulation of the anti-crossover and replication fork regression activities of Mph1 by Mte1. Genes Dev. 2016 03 15; 30(6):687-99. PMID: 26966246.
      Citations: 13     Fields:    Translation:AnimalsCells
    19. Chen X, Niu H, Yu Y, Wang J, Zhu S, Zhou J, Papusha A, Cui D, Pan X, Kwon Y, Sung P, Ira G. Enrichment of Cdk1-cyclins at DNA double-strand breaks stimulates Fun30 phosphorylation and DNA end resection. Nucleic Acids Res. 2016 Apr 07; 44(6):2742-53. PMID: 26801641.
      Citations: 17     Fields:    Translation:AnimalsCells
    20. Sakofsky CJ, Ayyar S, Deem AK, Chung WH, Ira G, Malkova A. Translesion Polymerases Drive Microhomology-Mediated Break-Induced Replication Leading to Complex Chromosomal Rearrangements. Mol Cell. 2015 Dec 17; 60(6):860-72. PMID: 26669261.
      Citations: 51     Fields:    Translation:HumansAnimalsCells
    21. Mayle R, Campbell IM, Beck CR, Yu Y, Wilson M, Shaw CA, Bjergbaek L, Lupski JR, Ira G. DNA REPAIR. Mus81 and converging forks limit the mutagenicity of replication fork breakage. Science. 2015 Aug 14; 349(6249):742-7. PMID: 26273056.
      Citations: 88     Fields:    Translation:HumansAnimalsCells
    22. Xue X, Choi K, Bonner JN, Szakal B, Chen YH, Papusha A, Saro D, Niu H, Ira G, Branzei D, Sung P, Zhao X. Selective modulation of the functions of a conserved DNA motor by a histone fold complex. Genes Dev. 2015 05 15; 29(10):1000-5. PMID: 25956905.
      Citations: 9     Fields:    Translation:AnimalsCells
    23. Carvalho CM, Pfundt R, King DA, Lindsay SJ, Zuccherato LW, Macville MV, Liu P, Johnson D, Stankiewicz P, Brown CW, Shaw CA, Hurles ME, Ira G, Hastings PJ, Brunner HG, Lupski JR. Absence of heterozygosity due to template switching during replicative rearrangements. Am J Hum Genet. 2015 Apr 02; 96(4):555-64. PMID: 25799105.
      Citations: 24     Fields:    Translation:HumansCells
    24. Ira G, Nussenzweig A. A new Riff: Rif1 eats its cake and has it too. EMBO Rep. 2014 Jun; 15(6):622-4. PMID: 24769453.
      Citations: 4     Fields:    Translation:AnimalsCells
    25. Wilson MA, Kwon Y, Xu Y, Chung WH, Chi P, Niu H, Mayle R, Chen X, Malkova A, Sung P, Ira G. Pif1 helicase and Pold promote recombination-coupled DNA synthesis via bubble migration. Nature. 2013 Oct 17; 502(7471):393-6. PMID: 24025768.
      Citations: 150     Fields:    Translation:AnimalsCells
    26. Saini N, Ramakrishnan S, Elango R, Ayyar S, Zhang Y, Deem A, Ira G, Haber JE, Lobachev KS, Malkova A. Migrating bubble during break-induced replication drives conservative DNA synthesis. Nature. 2013 Oct 17; 502(7471):389-92. PMID: 24025772.
      Citations: 166     Fields:    Translation:AnimalsCells
    27. Malkova A, Ira G. Break-induced replication: functions and molecular mechanism. Curr Opin Genet Dev. 2013 Jun; 23(3):271-9. PMID: 23790415.
      Citations: 86     Fields:    Translation:HumansCells
    28. Chen X, Cui D, Papusha A, Zhang X, Chu CD, Tang J, Chen K, Pan X, Ira G. The Fun30 nucleosome remodeller promotes resection of DNA double-strand break ends. Nature. 2012 Sep 27; 489(7417):576-80. PMID: 22960743.
      Citations: 117     Fields:    Translation:AnimalsCells
    29. Ira G, Hastings PJ. DNA breakage drives nuclear search. Nat Cell Biol. 2012 May 02; 14(5):448-50. PMID: 22552144.
      Citations: 5     Fields:    Translation:Cells
    30. Peng G, Dai H, Zhang W, Hsieh HJ, Pan MR, Park YY, Tsai RY, Bedrosian I, Lee JS, Ira G, Lin SY. Human nuclease/helicase DNA2 alleviates replication stress by promoting DNA end resection. Cancer Res. 2012 Jun 01; 72(11):2802-13. PMID: 22491672.
      Citations: 41     Fields:    Translation:HumansCells
    31. Chen X, Niu H, Chung WH, Zhu Z, Papusha A, Shim EY, Lee SE, Sung P, Ira G. Cell cycle regulation of DNA double-strand break end resection by Cdk1-dependent Dna2 phosphorylation. Nat Struct Mol Biol. 2011 Aug 14; 18(9):1015-9. PMID: 21841787.
      Citations: 97     Fields:    Translation:AnimalsCells
    32. Oum JH, Seong C, Kwon Y, Ji JH, Sid A, Ramakrishnan S, Ira G, Malkova A, Sung P, Lee SE, Shim EY. RSC facilitates Rad59-dependent homologous recombination between sister chromatids by promoting cohesin loading at DNA double-strand breaks. Mol Cell Biol. 2011 Oct; 31(19):3924-37. PMID: 21807899.
      Citations: 28     Fields:    Translation:AnimalsCells
    33. Shim EY, Chung WH, Nicolette ML, Zhang Y, Davis M, Zhu Z, Paull TT, Ira G, Lee SE. Saccharomyces cerevisiae Mre11/Rad50/Xrs2 and Ku proteins regulate association of Exo1 and Dna2 with DNA breaks. EMBO J. 2010 Oct 06; 29(19):3370-80. PMID: 20834227.
      Citations: 128     Fields:    Translation:AnimalsCells
    34. Niu H, Chung WH, Zhu Z, Kwon Y, Zhao W, Chi P, Prakash R, Seong C, Liu D, Lu L, Ira G, Sung P. Mechanism of the ATP-dependent DNA end-resection machinery from Saccharomyces cerevisiae. Nature. 2010 Sep 02; 467(7311):108-11. PMID: 20811460.
      Citations: 205     Fields:    Translation:AnimalsCells
    35. Chung WH, Zhu Z, Papusha A, Malkova A, Ira G. Defective resection at DNA double-strand breaks leads to de novo telomere formation and enhances gene targeting. PLoS Genet. 2010 May 13; 6(5):e1000948. PMID: 20485519.
      Citations: 103     Fields:    Translation:Cells
    36. Hastings PJ, Lupski JR, Rosenberg SM, Ira G. Mechanisms of change in gene copy number. Nat Rev Genet. 2009 Aug; 10(8):551-64. PMID: 19597530.
      Citations: 479     Fields:    Translation:Humans
    37. Hastings PJ, Ira G, Lupski JR. A microhomology-mediated break-induced replication model for the origin of human copy number variation. PLoS Genet. 2009 Jan; 5(1):e1000327. PMID: 19180184.
      Citations: 382     Fields:    Translation:HumansAnimalsCells
    38. Prakash R, Satory D, Dray E, Papusha A, Scheller J, Kramer W, Krejci L, Klein H, Haber JE, Sung P, Ira G. Yeast Mph1 helicase dissociates Rad51-made D-loops: implications for crossover control in mitotic recombination. Genes Dev. 2009 Jan 01; 23(1):67-79. PMID: 19136626.
      Citations: 145     Fields:    Translation:AnimalsCells
    39. Zhu Z, Chung WH, Shim EY, Lee SE, Ira G. Sgs1 helicase and two nucleases Dna2 and Exo1 resect DNA double-strand break ends. Cell. 2008 Sep 19; 134(6):981-94. PMID: 18805091.
      Citations: 579     Fields:    Translation:AnimalsCells
    40. Ira G, Satory D, Haber JE. Conservative inheritance of newly synthesized DNA in double-strand break-induced gene conversion. Mol Cell Biol. 2006 Dec; 26(24):9424-9. PMID: 17030630.
      Citations: 35     Fields:    Translation:AnimalsCells
    41. Malkova A, Naylor ML, Yamaguchi M, Ira G, Haber JE. RAD51-dependent break-induced replication differs in kinetics and checkpoint responses from RAD51-mediated gene conversion. Mol Cell Biol. 2005 Feb; 25(3):933-44. PMID: 15657422.
      Citations: 95     Fields:    Translation:AnimalsCells
    42. Ira G, Pellicioli A, Balijja A, Wang X, Fiorani S, Carotenuto W, Liberi G, Bressan D, Wan L, Hollingsworth NM, Haber JE, Foiani M. DNA end resection, homologous recombination and DNA damage checkpoint activation require CDK1. Nature. 2004 Oct 21; 431(7011):1011-7. PMID: 15496928.
      Citations: 372     Fields:    Translation:AnimalsCells
    43. Shroff R, Arbel-Eden A, Pilch D, Ira G, Bonner WM, Petrini JH, Haber JE, Lichten M. Distribution and dynamics of chromatin modification induced by a defined DNA double-strand break. Curr Biol. 2004 Oct 05; 14(19):1703-11. PMID: 15458641.
      Citations: 206     Fields:    Translation:AnimalsCells
    44. Wang X, Ira G, Tercero JA, Holmes AM, Diffley JF, Haber JE. Role of DNA replication proteins in double-strand break-induced recombination in Saccharomyces cerevisiae. Mol Cell Biol. 2004 Aug; 24(16):6891-9. PMID: 15282291.
      Citations: 69     Fields:    Translation:AnimalsCells
    45. Ira G, Król J, Filipski J. Mapping of the hotspots of recombination in human DNA cloned as yeast artificial chromosomes. Methods Mol Biol. 2004; 240:35-52. PMID: 14970404.
      Citations:    Fields:    Translation:HumansCells
    46. Ira G, Malkova A, Liberi G, Foiani M, Haber JE. Srs2 and Sgs1-Top3 suppress crossovers during double-strand break repair in yeast. Cell. 2003 Nov 14; 115(4):401-11. PMID: 14622595.
      Citations: 341     Fields:    Translation:AnimalsCells
    47. Ira G, Haber JE. Characterization of RAD51-independent break-induced replication that acts preferentially with short homologous sequences. Mol Cell Biol. 2002 Sep; 22(18):6384-92. PMID: 12192038.
      Citations: 112     Fields:    Translation:AnimalsCells
    48. Vaze MB, Pellicioli A, Lee SE, Ira G, Liberi G, Arbel-Eden A, Foiani M, Haber JE. Recovery from checkpoint-mediated arrest after repair of a double-strand break requires Srs2 helicase. Mol Cell. 2002 Aug; 10(2):373-85. PMID: 12191482.
      Citations: 177     Fields:    Translation:AnimalsCells
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