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Distinct Functions of the Cap-Binding Complex in Stimulation of Nuclear mRNA Export.

Sen R, Barman P, Kaja A, Ferdoush J, Lahudkar S, Roy A, Bhaumik SR.

Mol Cell Biol. 2019 Apr 2;39(8). pii: e00540-18. doi: 10.1128/MCB.00540-18. Print 2019 Apr 15.


Mechanisms of Antisense Transcription Initiation with Implications in Gene Expression, Genomic Integrity and Disease Pathogenesis.

Barman P, Reddy D, Bhaumik SR.

Noncoding RNA. 2019 Jan 21;5(1). pii: E11. doi: 10.3390/ncrna5010011. Review.


TOR Facilitates the Targeting of the 19S Proteasome Subcomplex To Enhance Transcription Complex Assembly at the Promoters of the Ribosomal Protein Genes.

Uprety B, Kaja A, Bhaumik SR.

Mol Cell Biol. 2018 Jun 28;38(14). pii: e00469-17. doi: 10.1128/MCB.00469-17. Print 2018 Jul 15.


PD2/PAF1 at the Crossroads of the Cancer Network.

Karmakar S, Dey P, Vaz AP, Bhaumik SR, Ponnusamy MP, Batra SK.

Cancer Res. 2018 Jan 15;78(2):313-319. doi: 10.1158/0008-5472.CAN-17-2175. Epub 2018 Jan 8. Review.


Two Distinct Regulatory Mechanisms of Transcriptional Initiation in Response to Nutrient Signaling.

Ferdoush J, Sen R, Kaja A, Barman P, Bhaumik SR.

Genetics. 2018 Jan;208(1):191-205. doi: 10.1534/genetics.117.300518. Epub 2017 Nov 15.


Ubiquitin-Proteasome System Regulation of an Evolutionarily Conserved RNA Polymerase II-Associated Factor 1 Involved in Pancreatic Oncogenesis.

Ferdoush J, Karmakar S, Barman P, Kaja A, Uprety B, Batra SK, Bhaumik SR.

Biochemistry. 2017 Nov 21;56(46):6083-6086. doi: 10.1021/acs.biochem.7b00865. Epub 2017 Oct 19.


Correction for Sen et al., "Fine-Tuning of FACT by the Ubiquitin Proteasome System in Regulation of Transcriptional Elongation".

Sen R, Ferdoush J, Kaja A, Bhaumik SR.

Mol Cell Biol. 2017 Jun 29;37(14). pii: e00281-17. doi: 10.1128/MCB.00281-17. Print 2017 Jul 15. No abstract available.


An mRNA Capping Enzyme Targets FACT to the Active Gene To Enhance the Engagement of RNA Polymerase II into Transcriptional Elongation.

Sen R, Kaja A, Ferdoush J, Lahudkar S, Barman P, Bhaumik SR.

Mol Cell Biol. 2017 Jun 15;37(13). pii: e00029-17. doi: 10.1128/MCB.00029-17. Print 2017 Jul 1.


Fine-Tuning of FACT by the Ubiquitin Proteasome System in Regulation of Transcriptional Elongation.

Sen R, Ferdoush J, Kaja A, Bhaumik SR.

Mol Cell Biol. 2016 May 16;36(11):1691-703. doi: 10.1128/MCB.01112-15. Print 2016 Jun 1. Erratum in: Mol Cell Biol. 2017 Jun 29;37(14 ):.


Regulation of Antisense Transcription by NuA4 Histone Acetyltransferase and Other Chromatin Regulatory Factors.

Uprety B, Kaja A, Ferdoush J, Sen R, Bhaumik SR.

Mol Cell Biol. 2016 Jan 11;36(6):992-1006. doi: 10.1128/MCB.00808-15.


Eaf1p Is Required for Recruitment of NuA4 in Targeting TFIID to the Promoters of the Ribosomal Protein Genes for Transcriptional Initiation In Vivo.

Uprety B, Sen R, Bhaumik SR.

Mol Cell Biol. 2015 Sep 1;35(17):2947-64. doi: 10.1128/MCB.01524-14. Epub 2015 Jun 22.


Regulation of active genome integrity and expression by Rad26p.

Malik S, Bhaumik SR.

Nucleus. 2014;5(6):520-6. doi: 10.4161/nucl.36230. Epub 2014 Oct 31. Review.


Rrd1p, an RNA polymerase II-specific prolyl isomerase and activator of phosphoprotein phosphatase, promotes transcription independently of rapamycin response.

Sen R, Malik S, Frankland-Searby S, Uprety B, Lahudkar S, Bhaumik SR.

Nucleic Acids Res. 2014 Sep;42(15):9892-907. doi: 10.1093/nar/gku703. Epub 2014 Aug 11.


Sus1p facilitates pre-initiation complex formation at the SAGA-regulated genes independently of histone H2B de-ubiquitylation.

Durairaj G, Sen R, Uprety B, Shukla A, Bhaumik SR.

J Mol Biol. 2014 Aug 12;426(16):2928-2941. doi: 10.1016/j.jmb.2014.05.028. Epub 2014 Jun 6.


A new regulatory pathway of mRNA export by an F-box protein, Mdm30.

Durairaj G, Lahudkar S, Bhaumik SR.

RNA. 2014 Feb;20(2):133-42. doi: 10.1261/rna.042325.113. Epub 2013 Dec 10.


A novel role for Cet1p mRNA 5'-triphosphatase in promoter proximal accumulation of RNA polymerase II in Saccharomyces cerevisiase.

Lahudkar S, Durairaj G, Uprety B, Bhaumik SR.

Genetics. 2014 Jan;196(1):161-76. doi: 10.1534/genetics.113.158535. Epub 2013 Oct 30.


Transcriptional stimulatory and repressive functions of histone H2B ubiquitin ligase.

Sen R, Bhaumik SR.

Transcription. 2013 Sep-Dec;4(5):221-6. No abstract available.


Mechanisms of antisense transcription initiation from the 3' end of the GAL10 coding sequence in vivo.

Malik S, Durairaj G, Bhaumik SR.

Mol Cell Biol. 2013 Sep;33(18):3549-67. doi: 10.1128/MCB.01715-12. Epub 2013 Jul 8.


Functional analysis of Bre1p, an E3 ligase for histone H2B ubiquitylation, in regulation of RNA polymerase II association with active genes and transcription in vivo.

Sen R, Lahudkar S, Durairaj G, Bhaumik SR.

J Biol Chem. 2013 Apr 5;288(14):9619-33. doi: 10.1074/jbc.M113.450403. Epub 2013 Feb 15.


Functional analysis of Rad14p, a DNA damage recognition factor in nucleotide excision repair, in regulation of transcription in vivo.

Chaurasia P, Sen R, Bhaumik SR.

J Biol Chem. 2013 Jan 11;288(2):793-806. doi: 10.1074/jbc.M112.413716. Epub 2012 Nov 27.


Preferential repair of DNA double-strand break at the active gene in vivo.

Chaurasia P, Sen R, Pandita TK, Bhaumik SR.

J Biol Chem. 2012 Oct 19;287(43):36414-22. doi: 10.1074/jbc.M112.364661. Epub 2012 Aug 21.


Sgf29p facilitates the recruitment of TATA box binding protein but does not alter SAGA's global structural integrity in vivo.

Shukla A, Lahudkar S, Durairaj G, Bhaumik SR.

Biochemistry. 2012 Jan 17;51(2):706-14. doi: 10.1021/bi201708z. Epub 2012 Jan 6.


Rad26p regulates the occupancy of histone H2A-H2B dimer at the active genes in vivo.

Malik S, Chaurasia P, Lahudkar S, Uprety B, Bhaumik SR.

Nucleic Acids Res. 2012 Apr;40(8):3348-63. doi: 10.1093/nar/gkr1244. Epub 2011 Dec 22.


The 26S proteasome complex: an attractive target for cancer therapy.

Frankland-Searby S, Bhaumik SR.

Biochim Biophys Acta. 2012 Jan;1825(1):64-76. doi: 10.1016/j.bbcan.2011.10.003. Epub 2011 Oct 18. Review.


The mRNA cap-binding complex stimulates the formation of pre-initiation complex at the promoter via its interaction with Mot1p in vivo.

Lahudkar S, Shukla A, Bajwa P, Durairaj G, Stanojevic N, Bhaumik SR.

Nucleic Acids Res. 2011 Mar;39(6):2188-209. doi: 10.1093/nar/gkq1029. Epub 2010 Nov 12.


Distinct regulatory mechanisms of eukaryotic transcriptional activation by SAGA and TFIID.

Bhaumik SR.

Biochim Biophys Acta. 2011 Feb;1809(2):97-108. doi: 10.1016/j.bbagrm.2010.08.009. Epub 2010 Aug 26. Review.


Regulation of chromatin assembly/disassembly by Rtt109p, a histone H3 Lys56-specific acetyltransferase, in vivo.

Durairaj G, Chaurasia P, Lahudkar S, Malik S, Shukla A, Bhaumik SR.

J Biol Chem. 2010 Oct 1;285(40):30472-9. doi: 10.1074/jbc.M110.113225. Epub 2010 Jul 28.


Mixed lineage leukemia: histone H3 lysine 4 methyltransferases from yeast to human.

Malik S, Bhaumik SR.

FEBS J. 2010 Apr;277(8):1805-21. doi: 10.1111/j.1742-4658.2010.07607.x. Epub 2010 Mar 4. Review.


Rad26p, a transcription-coupled repair factor, is recruited to the site of DNA lesion in an elongating RNA polymerase II-dependent manner in vivo.

Malik S, Chaurasia P, Lahudkar S, Durairaj G, Shukla A, Bhaumik SR.

Nucleic Acids Res. 2010 Mar;38(5):1461-77. doi: 10.1093/nar/gkp1147. Epub 2009 Dec 9.


Molecular parameters of hyperthermia for radiosensitization.

Pandita TK, Pandita S, Bhaumik SR.

Crit Rev Eukaryot Gene Expr. 2009;19(3):235-51. Review.


The 19 s proteasome subcomplex establishes a specific protein interaction network at the promoter for stimulated transcriptional initiation in vivo.

Malik S, Shukla A, Sen P, Bhaumik SR.

J Biol Chem. 2009 Dec 18;284(51):35714-24. doi: 10.1074/jbc.M109.035709.


Nuclear export of mRNA and its regulation by ubiquitylation.

Durairaj G, Garg P, Bhaumik SR.

RNA Biol. 2009 Nov-Dec;6(5):531-5. Epub 2009 Nov 14. Review.


Stimulation of mRNA export by an F-box protein, Mdm30p, in vivo.

Shukla A, Durairaj G, Schneider J, Duan Z, Shadle T, Bhaumik SR.

J Mol Biol. 2009 Jun 5;389(2):238-47. doi: 10.1016/j.jmb.2009.04.018. Epub 2009 Apr 16.


Histone methylation and ubiquitination with their cross-talk and roles in gene expression and stability.

Shukla A, Chaurasia P, Bhaumik SR.

Cell Mol Life Sci. 2009 Apr;66(8):1419-33. doi: 10.1007/s00018-008-8605-1. Review.


Sem1p and Ubp6p orchestrate telomeric silencing by modulating histone H2B ubiquitination and H3 acetylation.

Qin S, Wang Q, Ray A, Wani G, Zhao Q, Bhaumik SR, Wani AA.

Nucleic Acids Res. 2009 Apr;37(6):1843-53. doi: 10.1093/nar/gkn1049. Epub 2009 Feb 2.


Diverse regulatory mechanisms of eukaryotic transcriptional activation by the proteasome complex.

Bhaumik SR, Malik S.

Crit Rev Biochem Mol Biol. 2008 Nov-Dec;43(6):419-33. doi: 10.1080/10409230802605914 . Review.


Elongating RNA polymerase II is disassembled through specific degradation of its largest but not other subunits in response to DNA damage in vivo.

Malik S, Bagla S, Chaurasia P, Duan Z, Bhaumik SR.

J Biol Chem. 2008 Mar 14;283(11):6897-905. doi: 10.1074/jbc.M707649200. Epub 2008 Jan 14.


Histone crosstalk between H2B monoubiquitination and H3 methylation mediated by COMPASS.

Lee JS, Shukla A, Schneider J, Swanson SK, Washburn MP, Florens L, Bhaumik SR, Shilatifard A.

Cell. 2007 Dec 14;131(6):1084-96.


Covalent modifications of histones during development and disease pathogenesis.

Bhaumik SR, Smith E, Shilatifard A.

Nat Struct Mol Biol. 2007 Nov;14(11):1008-16. Epub 2007 Nov 5. Review.


H2B-K123 ubiquitination stimulates RNAPII elongation independent of H3-K4 methylation.

Shukla A, Bhaumik SR.

Biochem Biophys Res Commun. 2007 Jul 27;359(2):214-20. Epub 2007 May 24.


Ctk complex-mediated regulation of histone methylation by COMPASS.

Wood A, Shukla A, Schneider J, Lee JS, Stanton JD, Dzuiba T, Swanson SK, Florens L, Washburn MP, Wyrick J, Bhaumik SR, Shilatifard A.

Mol Cell Biol. 2007 Jan;27(2):709-20. Epub 2006 Nov 6.


Rtt109 is required for proper H3K56 acetylation: a chromatin mark associated with the elongating RNA polymerase II.

Schneider J, Bajwa P, Johnson FC, Bhaumik SR, Shilatifard A.

J Biol Chem. 2006 Dec 8;281(49):37270-4. Epub 2006 Oct 17.


In vivo target of a transcriptional activator revealed by fluorescence resonance energy transfer.

Bhaumik SR, Raha T, Aiello DP, Green MR.

Genes Dev. 2004 Feb 1;18(3):333-43.


Interaction of Gal4p with components of transcription machinery in vivo.

Bhaumik SR, Green MR.

Methods Enzymol. 2003;370:445-54. No abstract available.


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