My Bibliography

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Soukar I, Mitra A, Vo L, Rofoo M, Greenberg ML, Pile LA. The histone modification regulator, SIN3, plays a role in the cellular response to changes in glycolytic flux. PLoS One. 2025;20(11):e0335411. doi: 10.1371/journal.pone.0335411. eCollection 2025. PubMed PMID: 41296708; PubMed Central PMCID: PMC12654916.

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Prifti MV, Nuga O, Dulay RO, Patel NC, Kula T, Libohova K, Jackson-Butler A, Tsou WL, Richardson K, Todi SV. Insights into dentatorubral-pallidoluysian atrophy from a new Drosophila model of disease. Neurobiol Dis. 2025 Apr;207:106834. doi: 10.1016/j.nbd.2025.106834. Epub 2025 Feb 5. PubMed PMID: 39921111; PubMed Central PMCID: PMC11969221.

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Soukar I, Mitra A, Pile LA. Analysis of the chromatin landscape and RNA polymerase II binding at SIN3-regulated genes. Biol Open. 2023 Nov 15;12(11). doi: 10.1242/bio.060026. Epub 2023 Nov 10. PubMed PMID: 37850739; PubMed Central PMCID: PMC10651107.

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Blount JR, Patel NC, Libohova K, Harris AL, Tsou WL, Sujkowski A, Todi SV. Lysine 117 on ataxin-3 modulates toxicity in Drosophila models of Spinocerebellar Ataxia Type 3. J Neurol Sci. 2023 Nov 15;454:120828. doi: 10.1016/j.jns.2023.120828. Epub 2023 Oct 5. PubMed PMID: 37865002; PubMed Central PMCID: PMC10841544.

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Mitchell AV, Wu L, James Block C, Zhang M, Hackett J, Craig DB, Chen W, Zhao Y, Zhang B, Dang Y, Zhang X, Zhang S, Wang C, Gibson H, Pile LA, Kidder B, Matherly L, Yang Z, Dou Y, Wu G. FOXQ1 recruits the MLL complex to activate transcription of EMT and promote breast cancer metastasis. Nat Commun. 2022 Nov 1;13(1):6548. doi: 10.1038/s41467-022-34239-z. PubMed PMID: 36319643; PubMed Central PMCID: PMC9626503.

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Mitra A, Vo L, Soukar I, Chaubal A, Greenberg ML, Pile LA. Isoforms of the transcriptional cofactor SIN3 differentially regulate genes necessary for energy metabolism and cell survival. Biochim Biophys Acta Mol Cell Res. 2022 Oct;1869(10):119322. doi: 10.1016/j.bbamcr.2022.119322. Epub 2022 Jul 9. PubMed PMID: 35820484; PubMed Central PMCID: PMC10557476.

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Dwyer K, Agarwal N, Pile L, Ansari A. Gene Architecture Facilitates Intron-Mediated Enhancement of Transcription. Front Mol Biosci. 2021;8:669004. doi: 10.3389/fmolb.2021.669004. eCollection 2021. Review. PubMed PMID: 33968994; PubMed Central PMCID: PMC8097089.

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Mitra A, Raicu AM, Hickey SL, Pile LA, Arnosti DN. Soft repression: Subtle transcriptional regulation with global impact. Bioessays. 2021 Feb;43(2):e2000231. doi: 10.1002/bies.202000231. Epub 2020 Nov 20. PubMed PMID: 33215731; PubMed Central PMCID: PMC9068271.

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Liu M, Saha N, Gajan A, Saadat N, Gupta SV, Pile LA. A complex interplay between SAM synthetase and the epigenetic regulator SIN3 controls metabolism and transcription. J Biol Chem. 2020 Jan 10;295(2):375-389. doi: 10.1074/jbc.RA119.010032. Epub 2019 Nov 27. PubMed PMID: 31776190; PubMed Central PMCID: PMC6956547.

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Barnes VL, Laity KA, Pilecki M, Pile LA. Systematic Analysis of SIN3 Histone Modifying Complex Components During Development. Sci Rep. 2018 Nov 19;8(1):17048. doi: 10.1038/s41598-018-35093-0. PubMed PMID: 30451916; PubMed Central PMCID: PMC6242963.

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Chaubal A, Pile LA. Same agent, different messages: insight into transcriptional regulation by SIN3 isoforms. Epigenetics Chromatin. 2018 Apr 17;11(1):17. doi: 10.1186/s13072-018-0188-y. Review. PubMed PMID: 29665841; PubMed Central PMCID: PMC5902990.

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Liu M, Pile LA. The Transcriptional Corepressor SIN3 Directly Regulates Genes Involved in Methionine Catabolism and Affects Histone Methylation, Linking Epigenetics and Metabolism. J Biol Chem. 2017 Feb 3;292(5):1970-1976. doi: 10.1074/jbc.M116.749754. Epub 2016 Dec 27. PubMed PMID: 28028175; PubMed Central PMCID: PMC5290966.

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Chaubal A, Todi SV, Pile LA. Inter-isoform-dependent Regulation of the Drosophila Master Transcriptional Regulator SIN3. J Biol Chem. 2016 May 27;291(22):11566-71. doi: 10.1074/jbc.C116.724799. Epub 2016 Apr 20. PubMed PMID: 27129248; PubMed Central PMCID: PMC4882427.

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Saha N, Liu M, Gajan A, Pile LA. Genome-wide studies reveal novel and distinct biological pathways regulated by SIN3 isoforms. BMC Genomics. 2016 Feb 13;17:111. doi: 10.1186/s12864-016-2428-5. PubMed PMID: 26872827; PubMed Central PMCID: PMC4752761.

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Gajan A, Barnes VL, Liu M, Saha N, Pile LA. The histone demethylase dKDM5/LID interacts with the SIN3 histone deacetylase complex and shares functional similarities with SIN3. Epigenetics Chromatin. 2016;9:4. doi: 10.1186/s13072-016-0053-9. eCollection 2016. PubMed PMID: 26848313; PubMed Central PMCID: PMC4740996.

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Holowatyj A, Yang ZQ, Pile LA. Histone lysine demethylases in Drosophila melanogaster. Fly (Austin). 2015;9(1):36-44. doi: 10.1080/19336934.2015.1074787. Review. PubMed PMID: 26207949; PubMed Central PMCID: PMC4594552.

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Liu M, Barnes VL, Pile LA. Disruption of Methionine Metabolism in Drosophila melanogaster Impacts Histone Methylation and Results in Loss of Viability. G3 (Bethesda). 2015 Nov 6;6(1):121-32. doi: 10.1534/g3.115.024273. PubMed PMID: 26546310; PubMed Central PMCID: PMC4704710.

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Barnes VL, Bhat A, Unnikrishnan A, Heydari AR, Arking R, Pile LA. SIN3 is critical for stress resistance and modulates adult lifespan. Aging (Albany NY). 2014 Aug;6(8):645-60. doi: 10.18632/aging.100684. PubMed PMID: 25133314; PubMed Central PMCID: PMC4169859.

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Swaminathan A, Barnes VL, Fox S, Gammouh S, Pile LA. Identification of genetic suppressors of the Sin3A knockdown wing phenotype. PLoS One. 2012;7(11):e49563. doi: 10.1371/journal.pone.0049563. Epub 2012 Nov 15. PubMed PMID: 23166712; PubMed Central PMCID: PMC3499482.

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Swaminathan A, Gajan A, Pile LA. Epigenetic regulation of transcription in Drosophila. Front Biosci (Landmark Ed). 2012 Jan 1;17(3):909-37. doi: 10.2741/3964. Review. PubMed PMID: 22201781.

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Barnes VL, Strunk BS, Lee I, Hüttemann M, Pile LA. Loss of the SIN3 transcriptional corepressor results in aberrant mitochondrial function. BMC Biochem. 2010 Jul 9;11:26. doi: 10.1186/1471-2091-11-26. PubMed PMID: 20618965; PubMed Central PMCID: PMC2909972.

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Spain MM, Caruso JA, Swaminathan A, Pile LA. Drosophila SIN3 isoforms interact with distinct proteins and have unique biological functions. J Biol Chem. 2010 Aug 27;285(35):27457-27467. doi: 10.1074/jbc.M110.130245. Epub 2010 Jun 21. PubMed PMID: 20566628; PubMed Central PMCID: PMC2930744.

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Swaminathan A, Pile LA. Regulation of cell proliferation and wing development by Drosophila SIN3 and String. Mech Dev. 2010 Jan-Feb;127(1-2):96-106. doi: 10.1016/j.mod.2009.10.003. Epub 2009 Oct 13. PubMed PMID: 19825413.

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Sharma V, Swaminathan A, Bao R, Pile LA. Drosophila SIN3 is required at multiple stages of development. Dev Dyn. 2008 Oct;237(10):3040-50. doi: 10.1002/dvdy.21706. PubMed PMID: 18816856.

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Pile LA, Spellman PT, Katzenberger RJ, Wassarman DA. The SIN3 deacetylase complex represses genes encoding mitochondrial proteins: implications for the regulation of energy metabolism. J Biol Chem. 2003 Sep 26;278(39):37840-8. doi: 10.1074/jbc.M305996200. Epub 2003 Jul 15. PubMed PMID: 12865422.

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Pile LA, Schlag EM, Wassarman DA. The SIN3/RPD3 deacetylase complex is essential for G(2) phase cell cycle progression and regulation of SMRTER corepressor levels. Mol Cell Biol. 2002 Jul;22(14):4965-76. doi: 10.1128/MCB.22.14.4965-4976.2002. PubMed PMID: 12077326; PubMed Central PMCID: PMC139766.

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Pile LA, Wassarman DA. Localizing transcription factors on chromatin by immunofluorescence. Methods. 2002 Jan;26(1):3-9. doi: 10.1016/S1046-2023(02)00002-6. PubMed PMID: 12054899.

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Pile LA, Lee FW, Wassarman DA. The histone deacetylase inhibitor trichostatin A influences the development of Drosophila melanogaster. Cell Mol Life Sci. 2001 Oct;58(11):1715-8. doi: 10.1007/PL00000809. PubMed PMID: 11706997; PubMed Central PMCID: PMC11337290.

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Ballestar E, Pile LA, Wassarman DA, Wolffe AP, Wade PA. A Drosophila MBD family member is a transcriptional corepressor associated with specific genes. Eur J Biochem. 2001 Oct;268(20):5397-406. doi: 10.1046/j.0014-2956.2001.02480.x. PubMed PMID: 11606202.

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Pile LA, Wassarman DA. Chromosomal localization links the SIN3-RPD3 complex to the regulation of chromatin condensation, histone acetylation and gene expression. EMBO J. 2000 Nov 15;19(22):6131-40. doi: 10.1093/emboj/19.22.6131. PubMed PMID: 11080159; PubMed Central PMCID: PMC305822.

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Wassarman DA, Aoyagi N, Pile LA, Schlag EM. TAF250 is required for multiple developmental events in Drosophila. Proc Natl Acad Sci U S A. 2000 Feb 1;97(3):1154-9. doi: 10.1073/pnas.97.3.1154. PubMed PMID: 10655500; PubMed Central PMCID: PMC15553.

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Pile LA, Cartwright IL. GAGA factor-dependent transcription and establishment of DNase hypersensitivity are independent and unrelated events in vivo. J Biol Chem. 2000 Jan 14;275(2):1398-404. doi: 10.1074/jbc.275.2.1398. PubMed PMID: 10625691.

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Cartwright IL, Cryderman DE, Gilmour DS, Pile LA, Wallrath LL, Weber JA, Elgin SC. Analysis of Drosophila chromatin structure in vivo. Methods Enzymol. 1999;304:462-96. doi: 10.1016/s0076-6879(99)04028-8. PubMed PMID: 10372377.