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Uttiya Basu, PhD - Publications

Affiliations: 
Columbia University, New York, NY 
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47 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Leeman-Neill RJ, Song D, Bizarro J, Wacheul L, Rothschild G, Singh S, Yang Y, Sarode AY, Gollapalli K, Wu L, Zhang W, Chen Y, Lauring MC, Whisenant DE, Bhavsar S, ... ... Basu U, et al. Noncoding mutations cause super-enhancer retargeting resulting in protein synthesis dysregulation during B cell lymphoma progression. Nature Genetics. PMID 38049665 DOI: 10.1038/s41588-023-01561-1  0.359
2023 Torre D, Fstkchyan YS, Ho JSY, Cheon Y, Patel RS, Degrace EJ, Mzoughi S, Schwarz M, Mohammed K, Seo JS, Romero-Bueno R, Demircioglu D, Hasson D, Tang W, Mahajani SU, ... ... Basu U, et al. Nuclear RNA catabolism controls endogenous retroviruses, gene expression asymmetry, and dedifferentiation. Molecular Cell. PMID 37995687 DOI: 10.1016/j.molcel.2023.10.036  0.422
2023 Zhang Y, Zhang W, Zhao J, Ito T, Jin J, Aparicio AO, Zhou J, Guichard V, Fang Y, Que J, Urban JF, Hanna JH, Ghosh S, Wu X, Ding L, ... Basu U, et al. mA RNA modification regulates innate lymphoid cell responses in a lineage-specific manner. Nature Immunology. PMID 37400674 DOI: 10.1038/s41590-023-01548-4  0.612
2022 Fraga de Andrade I, Johnson KD, Mehta C, Dewey C, Basu U, Bresnick EH. RNA-Regulatory Exosome Complex Suppresses an Apoptotic Program to Confer Erythroid Progenitor Cell Survival In Vivo. Blood Advances. PMID 36161469 DOI: 10.1182/bloodadvances.2022008481  0.412
2022 Lim J, Laffleur B, Basu U, Yu K. Identification of RNA-DNA Hybrids Associated with R-Loops at the IgH Switch Sequence in Activated B Cells. Methods in Molecular Biology (Clifton, N.J.). 2528: 55-66. PMID 35704185 DOI: 10.1007/978-1-0716-2477-7_5  0.473
2022 Laffleur B, Batista CR, Zhang W, Lim J, Yang B, Rossille D, Wu L, Estrella J, Rothschild G, Pefanis E, Basu U. RNA exosome drives early B cell development via noncoding RNA processing mechanisms. Science Immunology. 7: eabn2738. PMID 35658015 DOI: 10.1126/sciimmunol.abn2738  0.813
2021 Nair L, Zhang W, Laffleur B, Jha MK, Lim J, Lee H, Wu L, Alvarez NS, Liu ZP, Munteanu EL, Swayne T, Hanna JH, Ding L, Rothschild G, Basu U. Mechanism of noncoding RNA-associated N-methyladenosine recognition by an RNA processing complex during IgH DNA recombination. Molecular Cell. PMID 34450044 DOI: 10.1016/j.molcel.2021.07.037  0.533
2021 Laffleur B, Lim J, Zhang W, Chen Y, Pefanis E, Bizarro J, Batista CR, Wu L, Economides AN, Wang J, Basu U. Noncoding RNA processing by DIS3 regulates chromosomal architecture and somatic hypermutation in B cells. Nature Genetics. PMID 33526923 DOI: 10.1038/s41588-020-00772-0  0.825
2021 Sun J, Basu U. Purification of Murine IL-10 B Cells for Analyses of Biological Functions and Transcriptomics. Methods in Molecular Biology (Clifton, N.J.). 2270: 307-321. PMID 33479906 DOI: 10.1007/978-1-0716-1237-8_17  0.305
2021 Ulmke PA, Xie Y, Sokpor G, Pham L, Shomroni O, Berulava T, Rosenbusch J, Basu U, Fischer A, Nguyen HP, Staiger JF, Tuoc T. Post-transcription regulation by the exosome complex is required for cell survival and forebrain development by repressing P53 signaling. Development (Cambridge, England). PMID 33462115 DOI: 10.1242/dev.188276  0.4
2020 Kazadi D, Lim J, Rothschild G, Grinstein V, Laffleur B, Becherel O, Lavin MJ, Basu U. Effects of senataxin and RNA exosome on B-cell chromosomal integrity. Heliyon. 6: e03442. PMID 32195383 DOI: 10.1016/J.Heliyon.2020.E03442  0.602
2020 Rothschild G, Zhang W, Lim J, Giri PK, Laffleur B, Chen Y, Fang M, Chen Y, Nair L, Liu ZP, Deng H, Hammarström L, Wang J, Basu U. Noncoding RNA transcription alters chromosomal topology to promote isotype-specific class switch recombination. Science Immunology. 5. PMID 32034089 DOI: 10.1126/Sciimmunol.Aay5864  0.597
2020 Nair L, Chung H, Basu U. Regulation of long non-coding RNAs and genome dynamics by the RNA surveillance machinery. Nature Reviews. Molecular Cell Biology. PMID 32020081 DOI: 10.1038/S41580-019-0209-0  0.524
2019 Laffleur B, Basu U. Biology of RNA Surveillance in Development and Disease. Trends in Cell Biology. PMID 30755352 DOI: 10.1016/J.Tcb.2019.01.004  0.489
2018 Leeman-Neill RJ, Lim J, Basu U. The Common Key to Class-Switch Recombination and Somatic Hypermutation: Discovery of AID and Its Role in Antibody Gene Diversification. Journal of Immunology (Baltimore, Md. : 1950). 201: 2527-2529. PMID 30348657 DOI: 10.4049/Jimmunol.1801246  0.341
2018 Zou F, Wang X, Han X, Rothschild G, Zheng SG, Basu U, Sun J. Expression and Function of Tetraspanins and Their Interacting Partners in B Cells. Frontiers in Immunology. 9: 1606. PMID 30072987 DOI: 10.3389/Fimmu.2018.01606  0.386
2017 Skamagki M, Zhang C, Ross CA, Ananthanarayanan A, Liu Z, Mu Q, Basu U, Wang J, Zhao R, Li H, Kim K. RNA Exosome Complex-Mediated Control of Redox Status in Pluripotent Stem Cells. Stem Cell Reports. 9: 1053-1061. PMID 29020613 DOI: 10.1016/J.Stemcr.2017.08.024  0.527
2017 Rialdi A, Hultquist J, Jimenez-Morales D, Peralta Z, Campisi L, Fenouil R, Moshkina N, Wang ZZ, Laffleur B, Kaake RM, McGregor MJ, Haas K, Pefanis E, Albrecht RA, Pache L, ... ... Basu U, et al. The RNA Exosome Syncs IAV-RNAPII Transcription to Promote Viral Ribogenesis and Infectivity. Cell. 169: 679-692.e14. PMID 28475896 DOI: 10.1016/J.Cell.2017.04.021  0.797
2017 Lim J, Giri PK, Kazadi D, Laffleur B, Zhang W, Grinstein V, Pefanis E, Brown LM, Ladewig E, Martin O, Chen Y, Rabadan R, Boyer F, Rothschild G, Cogné M, ... ... Basu U, et al. Nuclear Proximity of Mtr4 to RNA Exosome Restricts DNA Mutational Asymmetry. Cell. 169: 523-537.e15. PMID 28431250 DOI: 10.1016/J.Cell.2017.03.043  0.814
2017 Rothschild G, Basu U. Lingering Questions about Enhancer RNA and Enhancer Transcription-Coupled Genomic Instability. Trends in Genetics : Tig. PMID 28087167 DOI: 10.1016/J.Tig.2016.12.002  0.536
2017 Laffleur B, Basu U, Lim J. RNA Exosome and Non-coding RNA-Coupled Mechanisms in AID-Mediated Genomic Alterations. Journal of Molecular Biology. PMID 28069372 DOI: 10.1016/J.Jmb.2016.12.021  0.62
2016 Casellas R, Basu U, Yewdell WT, Chaudhuri J, Robbiani DF, Di Noia JM. Mutations, kataegis and translocations in B cells: understanding AID promiscuous activity. Nature Reviews. Immunology. PMID 26898111 DOI: 10.1038/Nri.2016.2  0.703
2015 Sun J, Wang J, Pefanis E, Chao J, Rothschild G, Tachibana I, Chen JK, Ivanov II, Rabadan R, Takeda Y, Basu U. Transcriptomics Identify CD9 as a Marker of Murine IL-10-Competent Regulatory B Cells. Cell Reports. PMID 26527007 DOI: 10.1016/J.Celrep.2015.09.070  0.76
2015 Rothschild G, Nikolai von Krusenstiern A, Basu U. Malaria-Induced B Cell Genomic Instability. Cell. 162: 697-8. PMID 26276622 DOI: 10.1016/J.Cell.2015.07.051  0.318
2015 Pefanis E, Basu U. RNA Exosome Regulates AID DNA Mutator Activity in the B Cell Genome. Advances in Immunology. 127: 257-308. PMID 26073986 DOI: 10.1016/Bs.Ai.2015.04.002  0.824
2015 Pefanis E, Wang J, Rothschild G, Lim J, Kazadi D, Sun J, Federation A, Chao J, Elliott O, Liu ZP, Economides AN, Bradner JE, Rabadan R, Basu U. RNA exosome-regulated long non-coding RNA transcription controls super-enhancer activity. Cell. 161: 774-89. PMID 25957685 DOI: 10.1016/J.Cell.2015.04.034  0.814
2015 Ghosh U, Bose S, Ghosh T, Bandyopadhyay TK, Basu U. A monophasic solution for isolation of RNA devoid of polymerase chain reaction-detectable genomic DNA contamination. Analytical Biochemistry. 477: 50-2. PMID 25731759 DOI: 10.1016/j.ab.2015.02.018  0.354
2014 Pefanis E, Wang J, Rothschild G, Lim J, Chao J, Rabadan R, Economides AN, Basu U. Noncoding RNA transcription targets AID to divergently transcribed loci in B cells. Nature. 514: 389-93. PMID 25119026 DOI: 10.1038/Nature13580  0.838
2014 Chao J, Rothschild G, Basu U. Ubiquitination events that regulate recombination of immunoglobulin Loci gene segments. Frontiers in Immunology. 5: 100. PMID 24653725 DOI: 10.3389/Fimmu.2014.00100  0.419
2013 Sun J, Keim CD, Wang J, Kazadi D, Oliver PM, Rabadan R, Basu U. E3-ubiquitin ligase Nedd4 determines the fate of AID-associated RNA polymerase II in B cells. Genes & Development. 27: 1821-33. PMID 23964096 DOI: 10.1101/Gad.210211.112  0.757
2013 Sun J, Rothschild G, Pefanis E, Basu U. Transcriptional stalling in B-lymphocytes: a mechanism for antibody diversification and maintenance of genomic integrity. Transcription. 4: 127-35. PMID 23584095 DOI: 10.4161/trns.24556  0.804
2013 Keim C, Kazadi D, Rothschild G, Basu U. Regulation of AID, the B-cell genome mutator. Genes & Development. 27: 1-17. PMID 23307864 DOI: 10.1101/Gad.200014.112  0.699
2011 Ise W, Kohyama M, Schraml BU, Zhang T, Schwer B, Basu U, Alt FW, Tang J, Oltz EM, Murphy TL, Murphy KM. The transcription factor BATF controls the global regulators of class-switch recombination in both B cells and T cells. Nature Immunology. 12: 536-43. PMID 21572431 DOI: 10.1038/Ni.2037  0.671
2011 Keim C, Grinstein V, Basu U. Recombinant retroviral production and infection of B cells. Journal of Visualized Experiments : Jove. PMID 21372789 DOI: 10.3791/2371  0.675
2011 Basu U, Meng FL, Keim C, Grinstein V, Pefanis E, Eccleston J, Zhang T, Myers D, Wasserman CR, Wesemann DR, Januszyk K, Gregory RI, Deng H, Lima CD, Alt FW. The RNA exosome targets the AID cytidine deaminase to both strands of transcribed duplex DNA substrates. Cell. 144: 353-63. PMID 21255825 DOI: 10.1016/J.Cell.2011.01.001  0.807
2009 Basu U, Franklin A, Schwer B, Cheng HL, Chaudhuri J, Alt FW. Regulation of activation-induced cytidine deaminase DNA deamination activity in B-cells by Ser38 phosphorylation. Biochemical Society Transactions. 37: 561-8. PMID 19442251 DOI: 10.1042/Bst0370561  0.798
2009 Cheng HL, Vuong BQ, Basu U, Franklin A, Schwer B, Astarita J, Phan RT, Datta A, Manis J, Alt FW, Chaudhuri J. Integrity of the AID serine-38 phosphorylation site is critical for class switch recombination and somatic hypermutation in mice. Proceedings of the National Academy of Sciences of the United States of America. 106: 2717-22. PMID 19196992 DOI: 10.1073/Pnas.0812304106  0.771
2009 Basu U, Franklin A, Alt FW. Post-translational regulation of activation-induced cytidine deaminase. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 364: 667-73. PMID 19010772 DOI: 10.1098/Rstb.2008.0194  0.603
2008 Basu U, Wang Y, Alt FW. Evolution of phosphorylation-dependent regulation of activation-induced cytidine deaminase. Molecular Cell. 32: 285-91. PMID 18951095 DOI: 10.1016/J.Molcel.2008.08.019  0.57
2008 Ray P, Basu U, Ray A, Majumdar R, Deng H, Maitra U. The Saccharomyces cerevisiae 60 S ribosome biogenesis factor Tif6p is regulated by Hrr25p-mediated phosphorylation. The Journal of Biological Chemistry. 283: 9681-91. PMID 18256024 DOI: 10.1074/Jbc.M710294200  0.748
2007 Chaudhuri J, Basu U, Zarrin A, Yan C, Franco S, Perlot T, Vuong B, Wang J, Phan RT, Datta A, Manis J, Alt FW. Evolution of the immunoglobulin heavy chain class switch recombination mechanism. Advances in Immunology. 94: 157-214. PMID 17560275 DOI: 10.1016/S0065-2776(06)94006-1  0.729
2007 Basu U, Chaudhuri J, Phan RT, Datta A, Alt FW. Regulation of activation induced deaminase via phosphorylation. Advances in Experimental Medicine and Biology. 596: 129-37. PMID 17338181 DOI: 10.1007/0-387-46530-8_11  0.747
2006 Longerich S, Basu U, Alt F, Storb U. AID in somatic hypermutation and class switch recombination. Current Opinion in Immunology. 18: 164-74. PMID 16464563 DOI: 10.1016/J.Coi.2006.01.008  0.563
2006 Longerich S, Basu U, Alt F, Storb U. AID in somatic hypermutation and class switch recombination [Current Opinion in Immunology 2006, 18:164-174] (DOI:10.1016/j.coi.2006.01.008) Current Opinion in Immunology. 18: 769. DOI: 10.1016/J.Coi.2006.09.017  0.463
2005 Basu U, Chaudhuri J, Alpert C, Dutt S, Ranganath S, Li G, Schrum JP, Manis JP, Alt FW. The AID antibody diversification enzyme is regulated by protein kinase A phosphorylation. Nature. 438: 508-11. PMID 16251902 DOI: 10.1038/Nature04255  0.756
2003 Basu U, Si K, Deng H, Maitra U. Phosphorylation of mammalian eukaryotic translation initiation factor 6 and its Saccharomyces cerevisiae homologue Tif6p: evidence that phosphorylation of Tif6p regulates its nucleocytoplasmic distribution and is required for yeast cell growth. Molecular and Cellular Biology. 23: 6187-99. PMID 12917340 DOI: 10.1128/Mcb.23.17.6187-6199.2003  0.519
2001 Basu U, Si K, Warner JR, Maitra U. The Saccharomyces cerevisiae TIF6 gene encoding translation initiation factor 6 is required for 60S ribosomal subunit biogenesis. Molecular and Cellular Biology. 21: 1453-62. PMID 11238882 DOI: 10.1128/Mcb.21.5.1453-1462.2001  0.545
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