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    Vikas Bansal

    TitleAssistant Professor In Residence
    SchoolUniversity of California, San Diego
    Address9500 Gilman Drive #0831
    CA La Jolla 92093
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      University of CaliforniaPh.D.2008Computer Science

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      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. Cui H, Bansal V, Grunert M, Malecova B, Dall'Agnese A, Latella L, Gatto S, Ryan T, Schulz K, Chen W, Dorn C, Puri PL, Sperling SR. Muscle-relevant genes marked by stable H3K4me2/3 profiles and enriched MyoD binding during myogenic differentiation. PLoS One. 2017; 12(6):e0179464. PMID: 28609469.
        View in: PubMed
      2. Tiwari SK, Dang J, Qin Y, Lichinchi G, Bansal V, Rana TM. Zika virus infection reprograms global transcription of host cells to allow sustained infection. Emerg Microbes Infect. 2017 Apr 26; 6(4):e24. PMID: 28442752.
        View in: PubMed
      3. Bansal V. A computational method for estimating the PCR duplication rate in DNA and RNA-seq experiments. BMC Bioinformatics. 2017 Mar 14; 18(Suppl 3):43. PMID: 28361665.
        View in: PubMed
      4. Edge P, Bafna V, Bansal V. HapCUT2: robust and accurate haplotype assembly for diverse sequencing technologies. Genome Res. 2017 May; 27(5):801-812. PMID: 27940952.
        View in: PubMed
      5. Bansal V, Bansal V, Libiger O. A statistical method for the detection of variants from next-generation resequencing of DNA pools. Bioinformatics. 2016 Oct 15; 32(20):3213. PMID: 27578802.
        View in: PubMed
      6. Patel A, Edge P, Selvaraj S, Bansal V, Bafna V. InPhaDel: integrative shotgun and proximity-ligation sequencing to phase deletions with single nucleotide polymorphisms. Nucleic Acids Res. 2016 Jul 08; 44(12):e111. PMID: 27105843; PMCID: PMC4937317.
      7. Lichinchi G, Gao S, Saletore Y, Gonzalez GM, Bansal V, Wang Y, Mason CE, Rana TM. Dynamics of the human and viral m(6)A RNA methylomes during HIV-1 infection of T cells. Nat Microbiol. 2016 Feb 22; 1:16011. PMID: 27572442.
        View in: PubMed
      8. Bansal V, Libiger O. Fast individual ancestry inference from DNA sequence data leveraging allele frequencies for multiple populations. BMC Bioinformatics. 2015 Jan 16; 16:4. PMID: 25592880; PMCID: PMC4301802.
      9. Selvaraj S, R Dixon J, Bansal V, Ren B. Whole-genome haplotype reconstruction using proximity-ligation and shotgun sequencing. Nat Biotechnol. 2013 Dec; 31(12):1111-8. PMID: 24185094; PMCID: PMC4180835.
      10. Scott-Van Zeeland AA, Bloss CS, Tewhey R, Bansal V, Torkamani A, Libiger O, Duvvuri V, Wineinger N, Galvez L, Darst BF, Smith EN, Carson A, Pham P, Phillips T, Villarasa N, Tisch R, Zhang G, Levy S, Murray S, Chen W, Srinivasan S, Berenson G, Brandt H, Crawford S, Crow S, Fichter MM, Halmi KA, Johnson C, Kaplan AS, La Via M, Mitchell JE, Strober M, Rotondo A, Treasure J, Woodside DB, Bulik CM, Keel P, Klump KL, Lilenfeld L, Plotnicov K, Topol EJ, Shih PB, Magistretti P, Bergen AW, Berrettini W, Kaye W, Schork NJ. Evidence for the role of EPHX2 gene variants in anorexia nervosa. Mol Psychiatry. 2014 Jun; 19(6):724-32. PMID: 23999524; PMCID: PMC3852189.
      11. Torkamani A, Pham P, Libiger O, Bansal V, Zhang G, Scott-Van Zeeland AA, Tewhey R, Topol EJ, Schork NJ. Clinical implications of human population differences in genome-wide rates of functional genotypes. Front Genet. 2012; 3:211. PMID: 23125845; PMCID: PMC3485509.
      12. Tewhey R, Cannavino CR, Leake JA, Bansal V, Topol EJ, Torkamani A, Bradley JS, Schork NJ. Genetic structure of community acquired methicillin-resistant Staphylococcus aureus USA300. BMC Genomics. 2012 Sep 25; 13:508. PMID: 23009684; PMCID: PMC3598774.
      13. Bansal V, Libiger O. A probabilistic method for the detection and genotyping of small indels from population-scale sequence data. Bioinformatics. 2011 Aug 01; 27(15):2047-53. PMID: 21653520; PMCID: PMC3137221.
      14. Bansal V, Tewhey R, Leproust EM, Schork NJ. Efficient and cost effective population resequencing by pooling and in-solution hybridization. PLoS One. 2011 Mar 30; 6(3):e18353. PMID: 21479135; PMCID: PMC3068187.
      15. Lo C, Bashir A, Bansal V, Bafna V. Strobe sequence design for haplotype assembly. BMC Bioinformatics. 2011 Feb 15; 12 Suppl 1:S24. PMID: 21342554; PMCID: PMC3044279.
      16. Tewhey R, Bansal V, Torkamani A, Topol EJ, Schork NJ. The importance of phase information for human genomics. Nat Rev Genet. 2011 03; 12(3):215-23. PMID: 21301473; PMCID: PMC3753045.
      17. Bansal V, Libiger O, Torkamani A, Schork NJ. An application and empirical comparison of statistical analysis methods for associating rare variants to a complex phenotype. Pac Symp Biocomput. 2011; 76-87. PMID: 21121035; PMCID: PMC5017238.
      18. Bansal V, Tewhey R, Topol EJ, Schork NJ. The next phase in human genetics. Nat Biotechnol. 2011 Jan; 29(1):38-9. PMID: 21221098.
        View in: PubMed
      19. Harismendy O, Bansal V, Bhatia G, Nakano M, Scott M, Wang X, Dib C, Turlotte E, Sipe JC, Murray SS, Deleuze JF, Bafna V, Topol EJ, Frazer KA. Population sequencing of two endocannabinoid metabolic genes identifies rare and common regulatory variants associated with extreme obesity and metabolite level. Genome Biol. 2010; 11(11):R118. PMID: 21118518; PMCID: PMC3156957.
      20. Bhatia G, Bansal V, Harismendy O, Schork NJ, Topol EJ, Frazer K, Bafna V. A covering method for detecting genetic associations between rare variants and common phenotypes. PLoS Comput Biol. 2010 Oct 14; 6(10):e1000954. PMID: 20976246; PMCID: PMC2954823.
      21. Bansal V, Libiger O, Torkamani A, Schork NJ. Statistical analysis strategies for association studies involving rare variants. Nat Rev Genet. 2010 Nov; 11(11):773-85. PMID: 20940738; PMCID: PMC3743540.
      22. Bashir A, Bansal V, Bafna V. Designing deep sequencing experiments: detecting structural variation and estimating transcript abundance. BMC Genomics. 2010 Jun 18; 11:385. PMID: 20565853; PMCID: PMC3091630.
      23. Bansal V. A statistical method for the detection of variants from next-generation resequencing of DNA pools. Bioinformatics. 2010 Jun 15; 26(12):i318-24. PMID: 20529923; PMCID: PMC2881398.
      24. Kumar G, Kalita J, Kumar B, Bansal V, Jain SK, Misra U. Magnetic resonance angiography findings in patients with ischemic stroke from North India. J Stroke Cerebrovasc Dis. 2010 Mar; 19(2):146-52. PMID: 20189091.
        View in: PubMed
      25. Bansal V, Harismendy O, Tewhey R, Murray SS, Schork NJ, Topol EJ, Frazer KA. Accurate detection and genotyping of SNPs utilizing population sequencing data. Genome Res. 2010 Apr; 20(4):537-45. PMID: 20150320; PMCID: PMC2847757.
      26. Schork NJ, Bansal V. Not so lost in the genetic crowd. Nat Genet. 2009 Nov; 41(11):1163-4. PMID: 19862007.
        View in: PubMed
      27. Bansal V, Bafna V. HapCUT: an efficient and accurate algorithm for the haplotype assembly problem. Bioinformatics. 2008 Aug 15; 24(16):i153-9. PMID: 18689818.
        View in: PubMed
      28. Bansal V, Halpern AL, Axelrod N, Bafna V. An MCMC algorithm for haplotype assembly from whole-genome sequence data. Genome Res. 2008 Aug; 18(8):1336-46. PMID: 18676820; PMCID: PMC2493424.
      29. Gusfield D, Bansal V, Bafna V, Song YS. A decomposition theory for phylogenetic networks and incompatible characters. J Comput Biol. 2007 Dec; 14(10):1247-72. PMID: 18047426; PMCID: PMC2581772.
      30. Levy S, Sutton G, Ng PC, Feuk L, Halpern AL, Walenz BP, Axelrod N, Huang J, Kirkness EF, Denisov G, Lin Y, MacDonald JR, Pang AW, Shago M, Stockwell TB, Tsiamouri A, Bafna V, Bansal V, Kravitz SA, Busam DA, Beeson KY, McIntosh TC, Remington KA, Abril JF, Gill J, Borman J, Rogers YH, Frazier ME, Scherer SW, Strausberg RL, Venter JC. The diploid genome sequence of an individual human. PLoS Biol. 2007 Sep 04; 5(10):e254. PMID: 17803354; PMCID: PMC1964779.
      31. Bansal V, Bashir A, Bafna V. Evidence for large inversion polymorphisms in the human genome from HapMap data. Genome Res. 2007 Feb; 17(2):219-30. PMID: 17185644; PMCID: PMC1781354.
      32. Bafna V, Bansal V. Inference about recombination from haplotype data: lower bounds and recombination hotspots. J Comput Biol. 2006 Mar; 13(2):501-21. PMID: 16597254.
        View in: PubMed
      33. Bafna V, Bansal V. The number of recombination events in a sample history: conflict graph and lower bounds. IEEE/ACM Trans Comput Biol Bioinform. 2004 Apr-Jun; 1(2):78-90. PMID: 17048383.
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