Adamovich AI, Diabate M, Banerjee T, Nagy G, Smith N, Duncan K, Mendoza Mendoza E, Prida G, Freitas MA, Starita LM, and Parvin JD. The functional impact of BRCA1 BRCT domain variants using multiplexed DNA double-strand break repair assays. Am J Hum Genet. 2022 Apr 7;109(4):618-630. doi: 10.1016/j.ajhg.2022.01.019. Epub 2022 Feb 22. PMID: 35196514. https://www.sciencedirect.com/science/article/pii/S0002929722000507?via%3Dihub
Starita LM*, Islam MM*, Banerjee T, Adamovich AI, Gullingsrud, Fields S, Shendure J**, and Parvin JD**. A Multiplex Homology-Directed DNA Repair Assay Reveals the Impact of More Than 1,000 BRCA1 Missense Substitution Variants on Protein Function. The American Journal of Human Genetics2018, https://doi.org/10.1016/j.ajhg.2018.07.016PMID: 30219179
Islam MM, Banerjee T, Packard CZ, Kotian S, Selvendiran K, Cohn DE, Parvin JD. HDAC10 as a potential therapeutic target in ovarian cancer.Gynecol Oncol.2017 Mar; 144(3):613-620. doi: 10.1016/j.ygyno.2017.01.009. PMID 28073598.
MartinezAR, Kaul Z, ParvinJD*, Groden J*. Differential requirements for DNA repair proteins in immortalized cell lines using alternative lengthening of telomere mechanisms.Genes Chromosomes Cancer. 2017 Apr 11. doi: 10.1002/gcc.22465. [Epub ahead of print] PMID: 28398700.
Arora M, Packard CZ, Banerjee T, and Parvin JD. RING1A and BMI1 bookmark active genes via ubiquitination of chromatin-associated proteins. Nuc Acids Res. 2016 44(5):2136-44. doi: 10.1093/nar/gkv1223. PMID 26578590, PMCID: PMC4797268.
Lu C, Xie M, Wang J, Wendl MC, McLellan MD, Wyczalkowski MA, Banerjee T, Ning J, Tripathi P, Jayasinghe R, Zhang Q, Ye K, Schmidt HK, Fulton RS, McMichael JF, Niu B, 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, Chen F, Johnson KJ, Parvin JD, and Ding L. Patterns and Functional Implications of Rare Germline Variants across 12 Cancer Types. Nat Commun 2015 6:10086. PMID 26689913, PMCID: PMC4703835.
Lee C, Banerjee T, Gillespie J, Ceravolo A, Parvinsmith MR, Starita L, Fields S, Toland AE, and Parvin JD. Functional analysis of BARD1 missense variants in homology directed repair of DNA double strand breaks. Human Mutation 2015 36: 1205-14. PMID 26350354.
Starita LM, Young DL, Islam M, Kitzman JO, Gullingsrud J, Hause RJ, Fowler DM, Parvin JD*, Shendure J*, and Fields S*. Massively parallel functional analysis of BRCA1 RING domain variants. Genetics 2015 200:413-22. PMID 25823446; PMCID PMC4492368.
Liu HW, Banerjee T, Guan X, Freitas MA, and Parvin JD. SAFB1 localizes SUMO-1 to the promoters of ribosomal protein genes to facilitate transcription initiation and splicing. Nucleic Acids Res 2015 PMID 25800734; PMCID PMC4402547.
Hu Y, Wang C, Huang K, Xia F, Parvin JD*, and Mondal N*. Regulation of 53BP1 protein stability by RNF8 and RNF168 is important for efficient DNA double-stranded break repair. PLoS ONE 2014 9(10): e110522. PMID 25337968. PMCID PMC4118958. (* co-corresponding authors)
Hu Y and Parvin JD. Small Ubiquitin-like Modifier (SUMO) Isoforms and Conjugation-Independent Function in DNA Double-strand Break Repair Pathways. J Biol Chem 2014 289: 21289-95. PMID 24966330, PMC4118090.
Acharya S, Kaul Z, Bhattacharyya S, Sandy Gocha A, Martinez A, Harris J, Parvin JD, and Groden J. Collaboration between BLM and BRCA1 in modulating telomere metabolism in ALT cells. PLoS ONE 2014 9(8):e103819. PMID: 25084169; PMCID: PMC4118958.
Kotian S, Banerjee T, Lockhart A, Huang K, Catalyurek UV, and Parvin JD. NUSAP1 influences the DNA damage response by controlling BRCA1 protein levels. Cancer Biology & Therapy 2014 15: 533-43. PMID 24521615 PMCID PMC4026076.
Liebner DA, Huang, K, and Parvin JD. MMAD: Microarray Micro-dissection with Analysis of Differences is a computational tool for deconvoluting cell type specific contributions from tissue samples. Bioinformatics 2013 1;30(5):682-9. doi: 10.1093/bioinformatics/btt566. PMID 24085566; PMCID: PMC3933869.
Webb A, Papp AC, Sanford JC, Huang K, Parvin JD, and Sadee W. Expression of mRNA transcripts encoding membrane transporters detected with whole transcriptome sequencing of human brain and liver. Pharmacogenetics and Genomics 2013 23: 269-78. PMID: 23492907
Towler WI, Zhang J, Ransburgh DJR, Toland AE, Ishioka C, Chiba N, and Parvin JD. Analysis of BRCA1 variants in double strand break repair by homologous recombination and single strand annealing. Human Mutation 2013 34: 439-45. PMC3906639.
Arora M, Zhang J, Heine GF, Ozer HG, Liu HW, Huang K, and Parvin JD. Promoters active in interphase are bookmarked during mitosis by ubiquitination. Nuc Acids Res 2012 40: 10187-202. [PMID: 22941662; PMCID: PMC3488253]
Liu HW, Zhang J, Heine GF, Arora M, Ozer HG, Onti-Srinivasan R, Huang K, and Parvin JD. Genomic distribution of SUMO-1 on chromatin in human cells tracks with active promoters during cell cycle progression. Nuc Acids Res 2012 40: 10172-86. [PMID: 22941651; PMCID: PMC3488252]
Zhang J, Lu K, Xiang Y, Islam M, Kotian S, Kais Z, Lee C, Arora M, Liu H-W, Parvin JD*, and Huang K*. Weighted frequent gene co-expression network mining to identify genes involved in genome stability. PLoS Computational Biology 2012 Aug 8(8) e1002656. [PMID: 22956898, PMCID: PMC3431293]
Ozer HG, Parvin JD, and Huang K. DFI: gene feature discovery in RNA-seq experiments from multiple sources. BMC Genomics 2012;13 Suppl 8:S11. PMID: 23281963, PMCID PMC3535702.
Kais Z, Chiba N, Ishioka C, and Parvin JD. Functional differences among BRCA1 missense mutations in the control of centrosome duplication. Oncogene 2012, 31:799-804.
Kais Z, Barsky SH, Mathsyraja H, Zha A, Ransburgh DJR, He G, Pilarski RT, Shapiro CL, Huang K, and Parvin JD. KIAA0101 interacts with BRCA1 and regulates centrosome number. Mol Cancer Res 2011, 9: 1091-9. PMC3157549.
Kotian S, Liyanarachchi S, Zelent A, and Parvin JD. Histone deacetylases 9 and 10 are required for homologous recombination. J Biol Chem 2011 286: 7722-6. PMID 21247901; PMCID PMC30448658.
Lamber EP, Horwitz AA, and Parvin JD. BRCA1 represses Amphiregulin gene expression. Cancer Res 2010 70:996-1005. PMID 20103632; PMCID: PMC2816672.
Ransburgh DJR, *Chiba N, Ishioka C, Toland AE, and Parvin JD. The effect of BRCA1 missense mutations on homology directed recombination. Cancer Res 2010 70:988-95. PMID 20103620; PMCID: PMC2943742.
Heine, GF, Horwitz AA, and Parvin JD. Multiple mechanisms contribute to inhibit transcription in response to DNA damage. J Biol Chem 2008 283, 9555-61.
Sankaran S, Crone DE, Palazzo RE, and Parvin JD. BRCA1 regulates g-tubulin binding to centrosomes. Cancer Biology and Therapy 2007 6: 1853-7.
Sankaran S, Crone DE, Palazzo RE, and Parvin JD. Aurora A Kinase Regulates BRCA1 Inhibition of Centrosome-Dependent Microtubule Nucleation. Cancer Res 2007 67, 11186-94.
Pujana, MA*, Han, JD*, Starita, LM*, Stevens, Kn*, Tewari, M, Ahn, JS, Rennert, G, Moreno, V, Assmann, V, ElShamy, WM, J Rual, JF, Rozek, LS, Gelman, RS, Gunsalus, KC, Greenberg, RA, Sobhian, B, Bertin, N, Venkatesan, K, Ayivi-Guedehoussou, N, Lázaro, C, Nathanson, KL, Weber, BL, Cusick, ME, Hill, DE, Livingston, DM, Gruber, SB**, Parvin, JD**, and Vidal, M**. Network modeling links breast cancer susceptibility and centrosome dysfunction. Nat Genet 2007 39, 1338-49. (*co-first authors; **co-corresponding authors)
Horwitz AA, Affar EB, Heine GF, Shi Y, and Parvin JD. A mechanism for transcriptional repression dependent on the BRCA1 E3 ubiquitin ligase. Proc Natl Acad Sci USA 2007 104, 6614-9.
Horwitz AA, Sankaran S, and Parvin JD. Direct stimulation of transcription initiation by BRCA1 requires both its amino and carboxy-termini. J Biol Chem 2006 281, 8317-20.
Sankaran, S, Starita, LM, Simons, AM, and Parvin, JD. Identification of domains of BRCA1 critical for the ubiquitin-dependent inhibition of centrosome function. Cancer Res 2006: 66, 4100-7.
Simons, AM, Horwitz, AA, Starita, LM, Williams, RS, Griffin, K, Glover, JNM, and Parvin, JD. BRCA1 DNA binding activity is stimulated by BARD1. Cancer Res 2006: 66, 2012-8.
Ko MJ, Murata K, Hwang DS, and Parvin JD. Inhibition of BRCA1 in breast cell lines causes the centrosome duplication cycle to be disconnected from the cell cycle. Oncogene 2006: 25, 298-303.
Sankaran S, Starita LM, Groen AC, Ko MJ, and Parvin JD. Centrosomal microtubule nucleation activity is inhibited by BRCA1-dependent ubiquitination. Mol Cell Biol. 2005: 25, 8656-68.
Mondal N, and Parvin JD. The tumor suppressor protein p53 functions similarly to p63 and p73 in activating transcription in vitro. Cancer Biology and Therapy 2005: 4, 414-8.
Starita LM, Horwitz AA, Keogh MC, Ishioka C, Parvin JD*, and Chiba N*. BRCA1/BARD1 ubiquitinate phosphorylated RNA polymerase II. J Biol Chem 2005: 280, 24498-505.
Park WH, Margossian S, Horwitz A, Simons AM, D’Andrea AD, and Parvin JD. Direct DNA binding activity of the Fanconi Anemia D2 protein. J Biol Chem 2005: 280, 23593-8.
Starita LM, Machida Y, Sankaran S, Elias JE, Griffin K, Schlegel BP, Gygi SP, and Parvin JD. BRCA1-dependent ubiquitination of g-tubulin regulates centrosome number. Mol Cell Biol. 2004: 24, 8457-8466.
Zhang Y, Griffin K, Mondal N, and Parvin JD. Phosphorylation of histone H2A inhibits transcription on chromatin templates. J Biol Chem 2004; 279, 21866-72.
Mondal N, Zhang Y, Jonsson Z, Dhar S, Kannapiran M, Parvin JD. Elongation by RNA polymerase II on chromatin templates requires topoisomerase activity. Nuc Acids Res 2003; 31, 5016-24.
Schlegel BP, Starita LM, Parvin JD. Overexpression of a protein fragment of RNA Helicase A causes inhibition of endogenous BRCA1 function and defects in ploidy and cytokinesis in mammary epithelial cells. Oncogene 2003; 22, 983-91.
Chiba N, Parvin JD. The BRCA1 and BARD1 association with the RNA polymerase II holoenzyme. Cancer Research 2002; 62, 4222-8.
Mondal N, Parvin JD. DNA Topoisomerase IIa is required for RNA polymerase II transcription on chromatin templates. Nature 2001; 413, 435-38.
Chiba N, Suldan Z, Freedman LP, Parvin JD. Binding of liganded vitamin D receptor to the DRIP coactivator complex induces interaction with RNA polymerase II. J Biol Chem 2000; 275, 10719-22.
Schlegel BP, Green VJ, Ladias JAA, Parvin JD. BRCA1 interaction with RNA polymerase II reveals a role for hRPB2 and hRPB10a in activated transcription. Proc Natl Acad Sci USA 2000; 97, 3148-53.
Haile DT, Parvin JD. Activation of transcription in vitro by the BRCA1 carboxy-terminal domain. J Biol Chem 1999; 274, 2113-7
Anderson SF, Schlegel BP, Nakajima T, Wolpin ES, Parvin JD. BRCA1 protein is linked to the RNA polymerase II holoenzyme complex via RNA helicase A. Nature Genetics 1998; 19: 254-6.
Neish AS, Anderson SF, Schlegel BP, Wei W, Parvin JD. Factors associated with the mammalian RNA polymerase II holoenzyme complex. Nuc Acids Res 1998; 26: 847-53.
Nakajima T, Uchida C, Anderson SF, Lee CG, Hurwitz J, Parvin JD, Montminy M. RNA helicase A mediates association of CBP with RNA polymerase II. Cell 1997; 90: 1107-12.
Nakajima T, Uchida C, Anderson SF, Parvin JD, Montminy M. Analysis of a cAMP-responsive activator reveals a two-component mechanism for transcriptional induction via signal-dependent factors. Genes Dev 1997; 11: 738-47.
Scully R, Anderson SF, Chao DM, Wei W, Ye L, Young RA, Livingston DM, Parvin JD. BRCA1 is a component of the RNA polymerase II holoenzyme. Proc Natl Acad Sci U S A 1997; 94: 5605-10.
Chao DM, Gadbois EL, Murray PJ, Anderson SF, Sonu MS, Parvin JD, Young RA. A mammalian SRB protein associated with an RNA polymerase II holoenzyme. Nature 1996; 380: 82-5.
Makela TP, Parvin JD, Kim J, Huber LJ, Sharp PA, Weinberg RA. A kinase-deficient transcription factor TFIIH is functional in basal and activated transcription. Proc Natl Acad Sci U S A 1995; 92: 5174-8.
Parvin JD, McCormick RJ, Sharp PA, Fisher DE. Pre-bending of a promoter sequence enhances affinity for the TATA-binding factor. Nature 1995; 373: 724-7.
Parvin JD, Shykind BM, Meyers RE, Kim J, Sharp PA. Multiple sets of basal factors initiate transcription by RNA polymerase II. J Biol Chem 1994; 269: 18414-21.
Parvin JD, Sharp PA. DNA topology and a minimal set of basal factors for transcription by RNA polymerase II. Cell 1993; 73: 533-40.
Parvin JD, Timmers HT, Sharp PA. Promoter specificity of basal transcription factors. Cell 1992; 68: 1135-44.
Luytjes W, Krystal M, Enami M, Parvin JD, Palese P. Amplification, expression, and packaging of foreign gene by influenza virus. Cell 1989; 59: 1107-13.
Parvin JD, Palese P, Honda A, Ishihama A, Krystal M. Promoter analysis of influenza virus RNA polymerase. J Virol 1989; 63: 5142-52.
Hsu MT, Parvin JD, Gupta S, Krystal M, Palese P. Genomic RNAs of influenza viruses are held in a circular conformation in virions and in infected cells by a terminal panhandle. Proc Natl Acad Sci U S A 1987; 84: 8140-4.
Smith FI, Parvin JD, Palese P. Detection of single base substitutions in influenza virus RNA molecules by denaturing gradient gel electrophoresis of RNA-RNA or DNA-RNA heteroduplexes. Virology 1986; 150: 55-64.
Buonagurio DA, Nakada S, Parvin JD, Krystal M, Palese P, Fitch WM. Evolution of human influenza A viruses over 50 years: rapid, uniform rate of change in NS gene. Science 1986; 232: 980-2.
Parvin JD, Smith FI, Palese P. Rapid RNA sequencing using double-stranded template DNA, SP6 polymerase, and 3′-deoxynucleotide triphosphates. DNA 1986; 5: 167-71.
Parvin JD, Moscona A, Pan WT, Leider JM, Palese P. Measurement of the mutation rates of animal viruses: influenza A virus and poliovirus type 1. J Virol 1986; 59: 377-83.
Parvin JD, Wang LH. Mechanisms for the generation of src-deletion mutants and recovered sarcoma viruses: identification of viral sequences involved in src deletions and in recombination with c-src sequences. Virology 1984; 138: 236-45.
Parvin JD, Young J, Palese P. Nonsense mutations affecting the lengths of the NS1 nonstructural proteins of influenza A virus isolates. Virology 1983; 128: 512-7.