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Functional analysis of BARD1 missense variants in homology-directed repair and damage sensitivity.

Adamovich AI, Banerjee T, Wingo M, Duncan K, Ning J, Martins Rodrigues F, Huang KL, Lee C, Chen F, Ding L, Parvin JD.

PLoS Genet. 2019 Mar 29;15(3):e1008049. doi: 10.1371/journal.pgen.1008049. eCollection 2019 Mar.


F-Box Protein-Mediated Resistance to PARP Inhibitor Therapy.

Adamovich AI, Toland AE, Parvin JD.

Mol Cell. 2019 Jan 17;73(2):195-196. doi: 10.1016/j.molcel.2018.12.019.


A Multiplex Homology-Directed DNA Repair Assay Reveals the Impact of More Than 1,000 BRCA1 Missense Substitution Variants on Protein Function.

Starita LM, Islam MM, Banerjee T, Adamovich AI, Gullingsrud J, Fields S, Shendure J, Parvin JD.

Am J Hum Genet. 2018 Oct 4;103(4):498-508. doi: 10.1016/j.ajhg.2018.07.016. Epub 2018 Sep 12.


Discovery of Stromal Regulatory Networks that Suppress Ras-Sensitized Epithelial Cell Proliferation.

Liu H, Dowdle JA, Khurshid S, Sullivan NJ, Bertos N, Rambani K, Mair M, Daniel P, Wheeler E, Tang X, Toth K, Lause M, Harrigan ME, Eiring K, Sullivan C, Sullivan MJ, Chang SW, Srivastava S, Conway JS, Kladney R, McElroy J, Bae S, Lu Y, Tofigh A, Saleh SMI, Fernandez SA, Parvin JD, Coppola V, Macrae ER, Majumder S, Shapiro CL, Yee LD, Ramaswamy B, Hallett M, Ostrowski MC, Park M, Chamberlin HM, Leone G.

Dev Cell. 2017 May 22;41(4):392-407.e6. doi: 10.1016/j.devcel.2017.04.024.


Camptothecin resistance is determined by the regulation of topoisomerase I degradation mediated by ubiquitin proteasome pathway.

Ando K, Shah AK, Sachdev V, Kleinstiver BP, Taylor-Parker J, Welch MM, Hu Y, Salgia R, White FM, Parvin JD, Ozonoff A, Rameh LE, Joung JK, Bharti AK.

Oncotarget. 2017 Jul 4;8(27):43733-43751. doi: 10.18632/oncotarget.16376.


Differential requirements for DNA repair proteins in immortalized cell lines using alternative lengthening of telomere mechanisms.

Martinez AR, Kaul Z, Parvin JD, Groden J.

Genes Chromosomes Cancer. 2017 Aug;56(8):617-631. doi: 10.1002/gcc.22465. Epub 2017 May 31.


HDAC10 as a potential therapeutic target in ovarian cancer.

Islam MM, Banerjee T, Packard CZ, Kotian S, Selvendiran K, Cohn DE, Parvin JD.

Gynecol Oncol. 2017 Mar;144(3):613-620. doi: 10.1016/j.ygyno.2017.01.009. Epub 2017 Jan 7.


Wwox-Brca1 interaction: role in DNA repair pathway choice.

Schrock MS, Batar B, Lee J, Druck T, Ferguson B, Cho JH, Akakpo K, Hagrass H, Heerema NA, Xia F, Parvin JD, Aldaz CM, Huebner K.

Oncogene. 2017 Apr 20;36(16):2215-2227. doi: 10.1038/onc.2016.389. Epub 2016 Nov 21.


Integrative analysis of somatic mutations and transcriptomic data to functionally stratify breast cancer patients.

Zhang J, Abrams Z, Parvin JD, Huang K.

BMC Genomics. 2016 Aug 22;17 Suppl 7:513. doi: 10.1186/s12864-016-2902-0.


Ran Binding Protein 9 (RanBP9) is a novel mediator of cellular DNA damage response in lung cancer cells.

Palmieri D, Scarpa M, Tessari A, Uka R, Amari F, Lee C, Richmond T, Foray C, Sheetz T, Braddom A, Burd CE, Parvin JD, Ludwig T, Croce CM, Coppola V.

Oncotarget. 2016 Apr 5;7(14):18371-83. doi: 10.18632/oncotarget.7813.


Genetic suppression reveals DNA repair-independent antagonism between BRCA1 and COBRA1 in mammary gland development.

Nair SJ, Zhang X, Chiang HC, Jahid MJ, Wang Y, Garza P, April C, Salathia N, Banerjee T, Alenazi FS, Ruan J, Fan JB, Parvin JD, Jin VX, Hu Y, Li R.

Nat Commun. 2016 Mar 4;7:10913. doi: 10.1038/ncomms10913.


Patterns and functional implications of rare germline variants across 12 cancer types.

Lu C, Xie M, Wendl MC, Wang J, McLellan MD, Leiserson MD, Huang KL, Wyczalkowski MA, Jayasinghe R, Banerjee T, Ning J, Tripathi P, Zhang Q, Niu B, Ye K, Schmidt HK, Fulton RS, McMichael JF, Batra P, Kandoth C, Bharadwaj M, Koboldt DC, Miller CA, Kanchi KL, Eldred JM, Larson DE, Welch JS, You M, Ozenberger BA, Govindan R, Walter MJ, Ellis MJ, Mardis ER, Graubert TA, Dipersio JF, Ley TJ, Wilson RK, Goodfellow PJ, Raphael BJ, Chen F, Johnson KJ, Parvin JD, Ding L.

Nat Commun. 2015 Dec 22;6:10086. doi: 10.1038/ncomms10086.


RING1A and BMI1 bookmark active genes via ubiquitination of chromatin-associated proteins.

Arora M, Packard CZ, Banerjee T, Parvin JD.

Nucleic Acids Res. 2016 Mar 18;44(5):2136-44. doi: 10.1093/nar/gkv1223. Epub 2015 Nov 17.


Roles for SUMO in pre-mRNA processing.

Nuro-Gyina PK, Parvin JD.

Wiley Interdiscip Rev RNA. 2016 Jan-Feb;7(1):105-12. doi: 10.1002/wrna.1318. Epub 2015 Nov 13. Review.


Functional Analysis of BARD1 Missense Variants in Homology-Directed Repair of DNA Double Strand Breaks.

Lee C, Banerjee T, Gillespie J, Ceravolo A, Parvinsmith MR, Starita LM, Fields S, Toland AE, Parvin JD.

Hum Mutat. 2015 Dec;36(12):1205-14. doi: 10.1002/humu.22902. Epub 2015 Sep 22.


Massively Parallel Functional Analysis of BRCA1 RING Domain Variants.

Starita LM, Young DL, Islam M, Kitzman JO, Gullingsrud J, Hause RJ, Fowler DM, Parvin JD, Shendure J, Fields S.

Genetics. 2015 Jun;200(2):413-22. doi: 10.1534/genetics.115.175802. Epub 2015 Mar 30. Erratum in: Genetics. 2017 Dec;207 (4):1713.


The chromatin scaffold protein SAFB1 localizes SUMO-1 to the promoters of ribosomal protein genes to facilitate transcription initiation and splicing.

Liu HW, Banerjee T, Guan X, Freitas MA, Parvin JD.

Nucleic Acids Res. 2015 Apr 20;43(7):3605-13. doi: 10.1093/nar/gkv246. Epub 2015 Mar 23.


Regulation of 53BP1 protein stability by RNF8 and RNF168 is important for efficient DNA double-strand break repair.

Hu Y, Wang C, Huang K, Xia F, Parvin JD, Mondal N.

PLoS One. 2014 Oct 22;9(10):e110522. doi: 10.1371/journal.pone.0110522. eCollection 2014.


Association of BLM and BRCA1 during Telomere Maintenance in ALT Cells.

Acharya S, Kaul Z, Gocha AS, Martinez AR, Harris J, Parvin JD, Groden J.

PLoS One. 2014 Aug 1;9(8):e103819. doi: 10.1371/journal.pone.0103819. eCollection 2014.


Small ubiquitin-like modifier (SUMO) isoforms and conjugation-independent function in DNA double-strand break repair pathways.

Hu Y, Parvin JD.

J Biol Chem. 2014 Aug 1;289(31):21289-95. doi: 10.1074/jbc.C114.582122. Epub 2014 Jun 25.


NUSAP1 influences the DNA damage response by controlling BRCA1 protein levels.

Kotian S, Banerjee T, Lockhart A, Huang K, Catalyurek UV, Parvin JD.

Cancer Biol Ther. 2014 May;15(5):533-43. doi: 10.4161/cbt.28019. Epub 2014 Feb 12.


MMAD: microarray microdissection with analysis of differences is a computational tool for deconvoluting cell type-specific contributions from tissue samples.

Liebner DA, Huang K, Parvin JD.

Bioinformatics. 2014 Mar 1;30(5):682-9. doi: 10.1093/bioinformatics/btt566. Epub 2013 Oct 1.


BRCA1 promotes the ubiquitination of PCNA and recruitment of translesion polymerases in response to replication blockade.

Tian F, Sharma S, Zou J, Lin SY, Wang B, Rezvani K, Wang H, Parvin JD, Ludwig T, Canman CE, Zhang D.

Proc Natl Acad Sci U S A. 2013 Aug 13;110(33):13558-63. doi: 10.1073/pnas.1306534110. Epub 2013 Jul 30. Erratum in: Proc Natl Acad Sci U S A. 2013 Oct 1;110(40):16283.


Expression of mRNA transcripts encoding membrane transporters detected with whole transcriptome sequencing of human brain and liver.

Webb A, Papp AC, Sanford JC, Huang K, Parvin JD, Sadee W.

Pharmacogenet Genomics. 2013 May;23(5):269-78. doi: 10.1097/FPC.0b013e32835ff536.


Gene Co-expression analysis predicts genetic aberration loci associated with colon cancer metastasis.

Zhang J, Ni S, Xiang Y, Parvin JD, Yang Y, Zhou Y, Huang K.

Int J Comput Biol Drug Des. 2013;6(1-2):60-71. doi: 10.1504/IJCBDD.2013.052202. Epub 2013 Feb 21.


DFI: gene feature discovery in RNA-seq experiments from multiple sources.

Ozer HG, Parvin JD, Huang K.

BMC Genomics. 2012;13 Suppl 8:S11. doi: 10.1186/1471-2164-13-S8-S11. Epub 2012 Dec 17.


Analysis of BRCA1 variants in double-strand break repair by homologous recombination and single-strand annealing.

Towler WI, Zhang J, Ransburgh DJ, Toland AE, Ishioka C, Chiba N, Parvin JD.

Hum Mutat. 2013 Mar;34(3):439-45. doi: 10.1002/humu.22251. Epub 2012 Dec 12.


Weighted frequent gene co-expression network mining to identify genes involved in genome stability.

Zhang J, Lu K, Xiang Y, Islam M, Kotian S, Kais Z, Lee C, Arora M, Liu HW, Parvin JD, Huang K.

PLoS Comput Biol. 2012;8(8):e1002656. doi: 10.1371/journal.pcbi.1002656. Epub 2012 Aug 30.


Promoters active in interphase are bookmarked during mitosis by ubiquitination.

Arora M, Zhang J, Heine GF, Ozer G, Liu HW, Huang K, Parvin JD.

Nucleic Acids Res. 2012 Nov 1;40(20):10187-202. doi: 10.1093/nar/gks820. Epub 2012 Aug 31.


Chromatin modification by SUMO-1 stimulates the promoters of translation machinery genes.

Liu HW, Zhang J, Heine GF, Arora M, Gulcin Ozer H, Onti-Srinivasan R, Huang K, Parvin JD.

Nucleic Acids Res. 2012 Nov 1;40(20):10172-86. doi: 10.1093/nar/gks819. Epub 2012 Aug 31.


BRCA1 contributes to transcription-coupled repair of DNA damage through polyubiquitination and degradation of Cockayne syndrome B protein.

Wei L, Lan L, Yasui A, Tanaka K, Saijo M, Matsuzawa A, Kashiwagi R, Maseki E, Hu Y, Parvin JD, Ishioka C, Chiba N.

Cancer Sci. 2011 Oct;102(10):1840-7. doi: 10.1111/j.1349-7006.2011.02037.x. Epub 2011 Aug 18.


Functional differences among BRCA1 missense mutations in the control of centrosome duplication.

Kais Z, Chiba N, Ishioka C, Parvin JD.

Oncogene. 2012 Feb 9;31(6):799-804. doi: 10.1038/onc.2011.271. Epub 2011 Jul 4.


KIAA0101 interacts with BRCA1 and regulates centrosome number.

Kais Z, Barsky SH, Mathsyaraja H, Zha A, Ransburgh DJ, He G, Pilarski RT, Shapiro CL, Huang K, Parvin JD.

Mol Cancer Res. 2011 Aug;9(8):1091-9. doi: 10.1158/1541-7786.MCR-10-0503. Epub 2011 Jun 14.


Comparing multiple ChIP-sequencing experiments.

Ozer HG, Huang YW, Wu J, Parvin JD, Huang TH, Huang K.

J Bioinform Comput Biol. 2011 Apr;9(2):269-82.


Fanconi anemia protein FANCD2 inhibits TRF1 polyADP-ribosylation through tankyrase1-dependent manner.

Lyakhovich A, Ramirez MJ, Castellanos A, Castella M, Simons AM, Parvin JD, Surralles J.

Genome Integr. 2011 Feb 12;2(1):4. doi: 10.1186/2041-9414-2-4.


Histone deacetylases 9 and 10 are required for homologous recombination.

Kotian S, Liyanarachchi S, Zelent A, Parvin JD.

J Biol Chem. 2011 Mar 11;286(10):7722-6. doi: 10.1074/jbc.C110.194233. Epub 2011 Jan 18.


PI 3 kinase related kinases-independent proteolysis of BRCA1 regulates Rad51 recruitment during genotoxic stress in human cells.

Hammond-Martel I, Pak H, Yu H, Rouget R, Horwitz AA, Parvin JD, Drobetsky EA, Affar el B.

PLoS One. 2010 Nov 17;5(11):e14027. doi: 10.1371/journal.pone.0014027.


BRCA1 represses amphiregulin gene expression.

Lamber EP, Horwitz AA, Parvin JD.

Cancer Res. 2010 Feb 1;70(3):996-1005. doi: 10.1158/0008-5472.CAN-09-2842. Epub 2010 Jan 26.


Identification of breast tumor mutations in BRCA1 that abolish its function in homologous DNA recombination.

Ransburgh DJ, Chiba N, Ishioka C, Toland AE, Parvin JD.

Cancer Res. 2010 Feb 1;70(3):988-95. doi: 10.1158/0008-5472.CAN-09-2850. Epub 2010 Jan 26.


Cdk1 participates in BRCA1-dependent S phase checkpoint control in response to DNA damage.

Johnson N, Cai D, Kennedy RD, Pathania S, Arora M, Li YC, D'Andrea AD, Parvin JD, Shapiro GI.

Mol Cell. 2009 Aug 14;35(3):327-39. doi: 10.1016/j.molcel.2009.06.036.


The BRCA1-dependent ubiquitin ligase, gamma-tubulin, and centrosomes.

Parvin JD.

Environ Mol Mutagen. 2009 Oct;50(8):649-53. doi: 10.1002/em.20475. Review.


Regulation of centrosomes by the BRCA1-dependent ubiquitin ligase.

Kais Z, Parvin JD.

Cancer Biol Ther. 2008 Oct;7(10):1540-3. Epub 2008 Oct 19. Review.


Multiple mechanisms contribute to inhibit transcription in response to DNA damage.

Heine GF, Horwitz AA, Parvin JD.

J Biol Chem. 2008 Apr 11;283(15):9555-61. doi: 10.1074/jbc.M707700200. Epub 2008 Feb 15.


BRCA1 regulates gamma-tubulin binding to centrosomes.

Sankaran S, Crone DE, Palazzo RE, Parvin JD.

Cancer Biol Ther. 2007 Dec;6(12):1853-7. Epub 2007 Oct 13.


Aurora-A kinase regulates breast cancer associated gene 1 inhibition of centrosome-dependent microtubule nucleation.

Sankaran S, Crone DE, Palazzo RE, Parvin JD.

Cancer Res. 2007 Dec 1;67(23):11186-94.


Network modeling links breast cancer susceptibility and centrosome dysfunction.

Pujana MA, Han JD, Starita LM, Stevens KN, Tewari M, Ahn JS, Rennert G, Moreno V, Kirchhoff T, Gold B, Assmann V, Elshamy WM, Rual JF, Levine D, Rozek LS, Gelman RS, Gunsalus KC, Greenberg RA, Sobhian B, Bertin N, Venkatesan K, Ayivi-Guedehoussou N, Solé X, Hernández P, Lázaro C, Nathanson KL, Weber BL, Cusick ME, Hill DE, Offit K, Livingston DM, Gruber SB, Parvin JD, Vidal M.

Nat Genet. 2007 Nov;39(11):1338-49. Epub 2007 Oct 7.


BRCA1 control of steroid receptor ubiquitination.

Heine GF, Parvin JD.

Sci STKE. 2007 Jun 19;2007(391):pe34.


A mechanism for transcriptional repression dependent on the BRCA1 E3 ubiquitin ligase.

Horwitz AA, Affar el B, Heine GF, Shi Y, Parvin JD.

Proc Natl Acad Sci U S A. 2007 Apr 17;104(16):6614-9. Epub 2007 Apr 9.


The BRCA1 E3 ubiquitin ligase controls centrosome dynamics.

Parvin JD, Sankaran S.

Cell Cycle. 2006 Sep;5(17):1946-50. Epub 2006 Sep 1. Review.


Alpha-synuclein acts in the nucleus to inhibit histone acetylation and promote neurotoxicity.

Kontopoulos E, Parvin JD, Feany MB.

Hum Mol Genet. 2006 Oct 15;15(20):3012-23. Epub 2006 Sep 7.


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