Sourav Bandyopadhyay, Ph.D. - Publications

Bioinformatics University of California, San Diego, La Jolla, CA 
computational biology

27 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
2018 Brand TM, Hartmann S, Bhola NE, Li H, Zang Y, O'Keefe RA, Ranall MV, Bandyopadhyay S, Soucheray M, Krogan NJ, Kemp C, Duvvuri U, LaVallee T, Johnson DE, Ozbun MA, et al. Crosstalk signaling between HER3 and HPV16 E6 and E7 mediates resistance to PI3K inhibitors in head and neck cancer. Cancer Research. PMID 29440171 DOI: 10.1158/0008-5472.CAN-17-1672  0.4
2016 Hofree M, Carter H, Kreisberg JF, Bandyopadhyay S, Mischel PS, Friend S, Ideker T. Challenges in identifying cancer genes by analysis of exome sequencing data. Nature Communications. 7: 12096. PMID 27417679 DOI: 10.1038/ncomms12096  0.96
2016 Kohnz RA, Roberts LS, DeTomaso D, Bideyan L, Yan P, Bandyopadhyay S, Goga A, Yosef N, Nomura DK. Protein Sialylation Regulates a Gene Expression Signature that Promotes Breast Cancer Cell Pathogenicity. Acs Chemical Biology. PMID 27380425 DOI: 10.1021/acschembio.6b00433  0.96
2015 Fujita-Sato S, Galeas J, Truitt M, Pitt C, Urisman A, Bandyopadhyay S, Ruggero D, McCormick F. Enhanced MET Translation and Signaling Sustains K-Ras-Driven Proliferation under Anchorage-Independent Growth Conditions. Cancer Research. 75: 2851-62. PMID 25977330 DOI: 10.1158/0008-5472.CAN-14-1623  0.96
2015 Kohnz RA, Mulvihill MM, Chang JW, Hsu KL, Sorrentino A, Cravatt BF, Bandyopadhyay S, Goga A, Nomura DK. Activity-Based Protein Profiling of Oncogene-Driven Changes in Metabolism Reveals Broad Dysregulation of PAFAH1B2 and 1B3 in Cancer. Acs Chemical Biology. 10: 1624-30. PMID 25945974 DOI: 10.1021/acschembio.5b00053  0.96
2015 Blakely CM, Pazarentzos E, Olivas V, Asthana S, Yan JJ, Tan I, Hrustanovic G, Chan E, Lin L, Neel DS, Newton W, Bobb KL, Fouts TR, Meshulam J, Gubens MA, ... ... Bandyopadhyay S, et al. NF-κB-activating complex engaged in response to EGFR oncogene inhibition drives tumor cell survival and residual disease in lung cancer. Cell Reports. 11: 98-110. PMID 25843712 DOI: 10.1016/j.celrep.2015.03.012  0.96
2015 Martins MM, Zhou AY, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji AF, ... ... Bandyopadhyay S, et al. Linking tumor mutations to drug responses via a quantitative chemical-genetic interaction map. Cancer Discovery. 5: 154-67. PMID 25501949 DOI: 10.1158/2159-8290.CD-14-0552  0.4
2014 Benjamin DI, Louie SM, Mulvihill MM, Kohnz RA, Li DS, Chan LG, Sorrentino A, Bandyopadhyay S, Cozzo A, Ohiri A, Goga A, Ng SW, Nomura DK. Inositol phosphate recycling regulates glycolytic and lipid metabolism that drives cancer aggressiveness. Acs Chemical Biology. 9: 1340-50. PMID 24738946 DOI: 10.1021/cb5001907  0.96
2014 Lin L, Asthana S, Chan E, Bandyopadhyay S, Martins MM, Olivas V, Yan JJ, Pham L, Wang MM, Bollag G, Solit DB, Collisson EA, Rudin CM, Taylor BS, Bivona TG. Mapping the molecular determinants of BRAF oncogene dependence in human lung cancer. Proceedings of the National Academy of Sciences of the United States of America. 111: E748-57. PMID 24550319 DOI: 10.1073/pnas.1320956111  0.96
2014 Salt MB, Bandyopadhyay S, McCormick F. Epithelial-to-mesenchymal transition rewires the molecular path to PI3K-dependent proliferation. Cancer Discovery. 4: 186-99. PMID 24302555 DOI: 10.1158/2159-8290.CD-13-0520  0.96
2013 Bushman FD, Barton S, Bailey A, Greig C, Malani N, Bandyopadhyay S, Young J, Chanda S, Krogan N. Bringing it all together: big data and HIV research. Aids (London, England). 27: 835-8. PMID 23719353 DOI: 10.1097/QAD.0b013e32835cb785  0.96
2013 Roguev A, Talbot D, Negri GL, Shales M, Cagney G, Bandyopadhyay S, Panning B, Krogan NJ. Quantitative genetic-interaction mapping in mammalian cells. Nature Methods. 10: 432-7. PMID 23407553 DOI: 10.1038/nmeth.2398  0.96
2010 Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller B, Licon K, Copeland W, Shales M, Fiedler D, Dutkowski J, Guénolé A, van Attikum H, Shokat KM, et al. Rewiring of genetic networks in response to DNA damage. Science (New York, N.Y.). 330: 1385-9. PMID 21127252 DOI: 10.1126/science.1195618  0.96
2010 Kuo D, Licon K, Bandyopadhyay S, Chuang R, Luo C, Catalana J, Ravasi T, Tan K, Ideker T. Coevolution within a transcriptional network by compensatory trans and cis mutations. Genome Research. 20: 1672-8. PMID 20978140 DOI: 10.1101/gr.111765.110  0.96
2010 Bandyopadhyay S, Chiang CY, Srivastava J, Gersten M, White S, Bell R, Kurschner C, Martin C, Smoot M, Sahasrabudhe S, Barber DL, Chanda SK, Ideker T. A human MAP kinase interactome. Nature Methods. 7: 801-5. PMID 20936779 DOI: 10.1038/nmeth.1506  0.96
2010 König R, Stertz S, Zhou Y, Inoue A, Hoffmann HH, Bhattacharyya S, Alamares JG, Tscherne DM, Ortigoza MB, Liang Y, Gao Q, Andrews SE, Bandyopadhyay S, De Jesus P, Tu BP, et al. Human host factors required for influenza virus replication. Nature. 463: 813-7. PMID 20027183 DOI: 10.1038/nature08699  0.96
2009 Fossum E, Friedel CC, Rajagopala SV, Titz B, Baiker A, Schmidt T, Kraus T, Stellberger T, Rutenberg C, Suthram S, Bandyopadhyay S, Rose D, von Brunn A, Uhlmann M, Zeretzke C, et al. Evolutionarily conserved herpesviral protein interaction networks. Plos Pathogens. 5: e1000570. PMID 19730696 DOI: 10.1371/journal.ppat.1000570  0.96
2009 Bushman FD, Malani N, Fernandes J, D'Orso I, Cagney G, Diamond TL, Zhou H, Hazuda DJ, Espeseth AS, König R, Bandyopadhyay S, Ideker T, Goff SP, Krogan NJ, Frankel AD, et al. Host cell factors in HIV replication: meta-analysis of genome-wide studies. Plos Pathogens. 5: e1000437. PMID 19478882 DOI: 10.1371/journal.ppat.1000437  0.96
2008 Wilmes GM, Bergkessel M, Bandyopadhyay S, Shales M, Braberg H, Cagney G, Collins SR, Whitworth GB, Kress TL, Weissman JS, Ideker T, Guthrie C, Krogan NJ. A genetic interaction map of RNA-processing factors reveals links between Sem1/Dss1-containing complexes and mRNA export and splicing. Molecular Cell. 32: 735-46. PMID 19061648 DOI: 10.1016/j.molcel.2008.11.012  0.96
2008 König R, Zhou Y, Elleder D, Diamond TL, Bonamy GM, Irelan JT, Chiang CY, Tu BP, De Jesus PD, Lilley CE, Seidel S, Opaluch AM, Caldwell JS, Weitzman MD, Kuhen KL, ... Bandyopadhyay S, et al. Global analysis of host-pathogen interactions that regulate early-stage HIV-1 replication. Cell. 135: 49-60. PMID 18854154 DOI: 10.1016/j.cell.2008.07.032  0.96
2008 Roguev A, Bandyopadhyay S, Zofall M, Zhang K, Fischer T, Collins SR, Qu H, Shales M, Park HO, Hayles J, Hoe KL, Kim DU, Ideker T, Grewal SI, Weissman JS, et al. Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast. Science (New York, N.Y.). 322: 405-10. PMID 18818364 DOI: 10.1126/science.1162609  0.96
2008 Bandyopadhyay S, Kelley R, Krogan NJ, Ideker T. Functional maps of protein complexes from quantitative genetic interaction data. Plos Computational Biology. 4: e1000065. PMID 18421374 DOI: 10.1371/journal.pcbi.1000065  0.96
2007 Beyer A, Bandyopadhyay S, Ideker T. Integrating physical and genetic maps: from genomes to interaction networks. Nature Reviews. Genetics. 8: 699-710. PMID 17703239 DOI: 10.1038/nrg2144  0.96
2006 Bandyopadhyay S, Kelley R, Ideker T. Discovering regulated networks during HIV-1 latency and reactivation. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 354-66. PMID 17094252  0.96
2006 Bandyopadhyay S, Sharan R, Ideker T. Systematic identification of functional orthologs based on protein network comparison. Genome Research. 16: 428-35. PMID 16510899 DOI: 10.1101/gr.4526006  0.96
2004 Canet-Avilés RM, Wilson MA, Miller DW, Ahmad R, McLendon C, Bandyopadhyay S, Baptista MJ, Ringe D, Petsko GA, Cookson MR. The Parkinson's disease protein DJ-1 is neuroprotective due to cysteine-sulfinic acid-driven mitochondrial localization. Proceedings of the National Academy of Sciences of the United States of America. 101: 9103-8. PMID 15181200 DOI: 10.1073/pnas.0402959101  0.96
2004 Bandyopadhyay S, Cookson MR. Evolutionary and functional relationships within the DJ1 superfamily. Bmc Evolutionary Biology. 4: 6. PMID 15070401 DOI: 10.1186/1471-2148-4-6  0.96
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