Shweta Ramdas

Areas of Interest & Expertise

  • Genetic Variation in Human Populations
  • Epigenetics
  • Genetics of Complex Traits
  • Gene Regulation
  • Bioinformatics
  • Genomics

Biography

Shweta has earned her Ph.D in Bioinformatics and an M.A. in applied statistics from the University of Michigan and her B.S. in Computational Biology from the National University of Singapore. She did her postdoctoral work in the department of genetics at the University of Pennsylvania.

Her research explores genetic variation in human populations and its role in regulating gene expression and a host of complex traits. She primarily uses bioinformatic and statistical approaches to answer these questions. She is also interested in mining publicly-available data to ask novel biological questions. She is always looking for students interested in applying quantitative methods to biology. 

Courses

Publications

  • Ramdas, S., Judd, J., Graham, S. E., Kanoni, S., Wang, Y., Surakka, I., Wenz, B., Clarke, S. L., Chesi, A., Wells, A., & others. (2021). A multi-layer functional genomic analysis to understand noncoding genetic variation in lipids. bioRxiv. Click Here
  • Kanoni, S.*, Graham, S. E.*, Wang, Y.*, Surakka, I.*, Ramdas, S.*, Zhu, X.*, Clarke, S. L., Bhatti, K. F., Vedantam, S., Winkler, T. W., & others. (2021). Implicating genes, pleiotropy and sexual dimorphism at blood lipid loci through multi-ancestry meta-analysis. medRxiv. Click Here. (co-first author)
  • Graham, S. E., Clarke, S. L., Wu, K.-H. H., Kanoni, S., Zajac, G. J. M., Ramdas, S., Surakka, I., Ntalla, I., Vedantam, S., Winkler, T. W., & others. (2021). The power of genetic diversity in genome-wide association studies of lipids. Nature, 1 – 11. Click Here
  • Pluta, J., Pyle, L. C., Nead, K. T., Wilf, R., Li, M., Mitra, N., Weathers, B., D’Andrea, K., Almstrup, K., Anson-Cartwright, L., & others. (2021). Identification of 22 susceptibility loci associated with testicular germ cell tumors. Nature Communications, 12(1), 1 – 13. Click Here
  • Finke, K., Kourakos, M., Brown, G., Dang, H. T., Tan, S. J. S., Simons, Y. B., Ramdas, S., Schäffer, A. A., Kember, R. L., Bućan, M., & others. (2021). Ancestral haplotype reconstruction in endogamous populations using identity-by-descent. PLoS Computational Biology, 17(2), e1008638. Click Here
  • Vujkovic*, M., Ramdas, S.*, Lorenz, K. M., Schneider, C. V, Park, J., Lee, K. M., Serper, M., Carr, R. M., Kaplan, D. E., Haas, M. E., & others. (2021). A genome-wide association study for nonalcoholic fatty liver disease identifies novel genetic loci and trait-relevant candidate genes in the Million Veteran Program. medRxiv, 2012 – 2020. Click Here. (Co-first author)
  • Ferraro, N. M., Strober, B. J., Einson, J., Abell, N. S., Aguet, F., Barbeira, A. N., Brandt, M., Bucan, M., Castel, S. E., Davis, J. R., & others. (2020). Transcriptomic signatures across human tissues identify functional rare genetic variation. Science, 369(6509), eaaz5900. Click Here
  • Muthu, V., Rohacek, A. M., Yao, Y., Rakowiecki, S. M., Brown, A. S., Zhao, Y.-T., Meyers, J., Won, K.-J., Ramdas, S., Brown, C. D., & others. (2019). Genomic architecture of Shh-dependent cochlear morphogenesis. Development, 146(18), dev181339. Click Here
  • Khoriaty, R., Ozel, A. B., Ramdas, S., Ross, C., Desch, K., Shavit, J. A., Everett, L., Siemieniak, D., Li, J. Z., & Ginsburg, D. (2019). Genome-wide linkage analysis and whole-exome sequencing identifies an ITGA 2B mutation in a family with thrombocytopenia. British Journal of Haematology, 186(4), 574 – 579. Click Here
  • Ramdas, S., Pan, Y., & Li, J. Z. (2018). Coverage-based detection of copy number alterations in mixed samples using DNA sequencing data: a theoretical framework for evaluating statistical power. bioRxiv, 413690. Click Here
  • Ramdas, S., Ozel, A. B., Treutelaar, M. K., Holl, K., Mandel, M., Woods, L. C. S., & Li, J. Z. (2019). Extended regions of suspected mis-assembly in the rat reference genome. Scientific Data, 6(1), 1 – 7. Click Here
  • Yuan, W., Liu, Z., Lei, W., Sun, L., Yang, H., Wang, Y., Ramdas, S., Dong, X., Xu, R., Cai, H., & others. (2017). Mutation landscape and intra-tumor heterogeneity of two MANECs of the esophagus revealed by multi-region sequencing. Oncotarget, 8(41), 69610. Click Here
  • Saxena, V., Ramdas, S., Ochoa, C. R., Wallace, D., Bhide, P., & Kohane, I. (2012). Structural, genetic, and functional signatures of disordered neuro-immunological development in autism spectrum disorder. PloS One, 7(12), e48835. Click Here
  • Koo, Q. Y., Khan, A. M., Jung, K.-O., Ramdas, S., Miotto, O., Tan, T. W., Brusic, V., Salmon, J., & August, J. T. (2009). Conservation and variability of West Nile virus proteins. PLoS One, 4(4), e5352. Click Here
  • Ma, Q., Ozel, A. B., Ramdas, S., McGee, B., Khoriaty, R., Siemieniak, D., Li, H.-D., Guan, Y., Brody, L. C., Mills, J. L., & others. (2014). Genetic variants in PLG, LPA, and SIGLEC 14 as well as smoking contribute to plasma plasminogen levels. Blood, The Journal of the American Society of Hematology, 124(20), 3155 – 3164. Click Here
  • Tomar, P., Bhatia, A., Ramdas, S., Diao, L., Bhanot, G., & Sinha, H. (2013). Sporulation genes associated with sporulation efficiency in natural isolates of yeast. PLoS One, 8(7), e69765. Click Here

Book Chapter

Ramdas, S., & Li, J. Z. (2018). Next-Generation Sequencing in Genetic Studies of Psychiatric Disorders. Psychiatric Genetics: A Primer for Clinical and Basic Scientists, 12. dx​.doi​.org/​10​.​1093​/​m​e​d​/​9780190221973​.​003​.0015