Swati Kaushik, PhD

TitlePostdoctoral Scholar
InstitutionUniversity of California San Francisco
Address1450 Third St
San Francisco CA 94158
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    Collapse Biography 
    Collapse Education and Training
    National Center For Biological SciencesPhD2014Computational biology
    University of PuneMS2008Bioinformatics
    Collapse Awards and Honors
    DBT, India2008  - 2013Department of Biotechnology, PhD fellowship
    NCBS-TIFR2013  - 2014Bridging fellowship

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Kaushik S , Jang Gwendolyn , Hu Gwendolyn , Shah Khyati , Zhao Xin, Jascur John , Von Dollen John , Verschueren Erik , Johnson Jeffrey , Krogan Nevan, Bandyopadhyay Sourav.A tyrosine kinase interactome reveals network states that guide the use of targeted therapies in cancer. A tyrosine kinase interactome reveals network states that guide the use of targeted therapies in cancer. 2018; 78(13).
    2. Hu HM, Zhao X, Kaushik S, Robillard L, Barthelet A, Lin KK, Shah KN, Simmons AD, Raponi M, Harding TC, Bandyopadhyay S. A Quantitative Chemotherapy Genetic Interaction Map Reveals Factors Associated with PARP Inhibitor Resistance. Cell Rep. 2018 Apr 17; 23(3):918-929. PMID: 29669295.
      View in: PubMed
    3. Kaushik S, Nair AG, Mutt E, Subramanian HP, Sowdhamini R. Rapid and enhanced remote homology detection by cascading hidden Markov model searches in sequence space. Bioinformatics. 2016 Feb 01; 32(3):338-44. PMID: 26454276.
      View in: PubMed
    4. Upadhyay AK, Chacko AR, Gandhimathi A, Ghosh P, Harini K, Joseph AP, Joshi AG, Karpe SD, Kaushik S, Kuravadi N, Lingu CS, Mahita J, Malarini R, Malhotra S, Malini M, Mathew OK, Mutt E, Naika M, Nitish S, Pasha SN, Raghavender US, Rajamani A, Shilpa S, Shingate PN, Singh HR, Sukhwal A, Sunitha MS, Sumathi M, Ramaswamy S, Gowda M, Sowdhamini R. Genome sequencing of herb Tulsi (Ocimum tenuiflorum) unravels key genes behind its strong medicinal properties. BMC Plant Biol. 2015 Aug 28; 15:212. PMID: 26315624; PMCID: PMC4552454.
    5. Patil P, Skariyachan S, Mutt E, Kaushik S. Computational Analysis of the Domain Architecture and Substrate-Gating Mechanism of Prolyl Oligopeptidases from Shewanella woodyi and Identification of Probable Lead Molecules. Interdiscip Sci. 2016 Sep; 8(3):284-93. PMID: 26298583.
      View in: PubMed
    6. Patil P, Skariyachan S, Mutt E, Kaushik S. Computational analysis of the domain architecture and substrate-gating mechanism of prolyl oligopeptidases from Shewanella woodyi and identification probable lead molecules. Interdiscip Sci. 2015 Feb 06. PMID: 25663117.
      View in: PubMed
    7. Kaushik S, Sowdhamini R. Distribution, classification, domain architectures and evolution of prolyl oligopeptidases in prokaryotic lineages. BMC Genomics. 2014 Nov 18; 15:985. PMID: 25407321; PMCID: PMC4522959.
    8. Kaushik S, Etchebest C, Sowdhamini R. Decoding the structural events in substrate-gating mechanism of eukaryotic prolyl oligopeptidase using normal mode analysis and molecular dynamics simulations. Proteins. 2014 Jul; 82(7):1428-43. PMID: 24500901.
      View in: PubMed
    9. Kaushik S, Mutt E, Chellappan A, Sankaran S, Srinivasan N, Sowdhamini R. Improved detection of remote homologues using cascade PSI-BLAST: influence of neighbouring protein families on sequence coverage. PLoS One. 2013; 8(2):e56449. PMID: 23437136; PMCID: PMC3577913.
    10. Kaushik S, Sowdhamini R. Structural analysis of prolyl oligopeptidases using molecular docking and dynamics: insights into conformational changes and ligand binding. PLoS One. 2011; 6(11):e26251. PMID: 22132071.
      View in: PubMed
    11. Hsien-Ming Hu, Xin Zhao, Swati Kaushik, Lilliane Robillard, Antoine Barthelet, Kevin K Lin, Andy Simmons, Mitch Raponi, Thomas C Harding, Sourav Bandyopadhyay.A quantitative chemotherapy genetic interaction map reveals new factors associated with PARP inhibitor resistance. bioRxiv, 171918.
    12. Connecting tumor genomics with therapeutics through multi-dimensional network modules. bioRxiv, 083410.
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