Shilpa Garg

Shilpa Garg

Assistant professor, tenure track

Introductory remarks on publicationslist

You find my updated publicationlist here.


Publication year:
  1. 2021
  2. Published

    Computational methods for chromosome-scale haplotype reconstruction

    Garg, Shilpa, 2021, In: Genome Biology. 22, 24 p., 101.

    Research output: Contribution to journalReviewResearchpeer-review

  3. 2020
  4. Chromosome-scale, haplotype-resolved assembly of human genomes

    Garg, Shilpa, Fungtammasan, A., Carroll, A., Chou, M., Schmitt, A., Zhou, X., Mac, S., Peluso, P., Hatas, E., Ghurye, J., Maguire, J., Mahmoud, M., Cheng, H., Heller, D., Zook, J. M., Moemke, T., Marschall, T., Sedlazeck, F. J., Aach, J., Chin, C., Church, G. M. & Li, H., 7 Dec 2020, (E-pub ahead of print) In: Nature Biotechnology. 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  5. A robust benchmark for detection of germline large deletions and insertions

    Zook, J. M., Hansen, N. F., Olson, N. D., Chapman, L., Mullikin, J. C., Xiao, C., Sherry, S., Koren, S., Phillippy, A. M., Boutros, P. C., Sahraeian, S. M. E., Huang, V., Rouette, A., Alexander, N., Mason, C. E., Hajirasouliha, I., Ricketts, C., Lee, J., Tearle, R., Fiddes, I. T., Barrio, A. M., Wala, J., Carroll, A., Ghaffari, N., Rodriguez, O. L., Bashir, A., Jackman, S., Farrell, J. J., Wenger, A. M., Alkan, C., Soylev, A., Schatz, M. C., Garg, Shilpa, Church, G., Marschall, T., Chen, K., Fan, X., English, A. C., Rosenfeld, J. A., Zhou, W., Mills, R. E., Sage, J. M., Davis, J. R., Kaiser, M. D., Oliver, J. S., Catalano, A. P., Chaisson, M. J. P., Spies, N., Sedlazeck, F. J. & Salit, M., Nov 2020, In: Nature Biotechnology. 38, 11, p. 1347-+ 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  6. Pangenome Graphs

    Eizenga, J. M., Novak, A. M., Sibbesen, J. A., Heumos, S., Ghaffaari, A., Hickey, G., Chang, X., Seaman, J. D., Rounthwaite, R., Ebler, J., Rautiainen, M., Garg, Shilpa, Paten, B., Marschall, T., Sirén, J. & Garrison, E., 31 Aug 2020, In: Annual Review of Genomics and Human Genetics. 21, p. 139-162 24 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  7. Enabling large-scale genome editing at repetitive elements by reducing DNA nicking

    Smith, C. J., Castanon, O., Said, K., Volf, V., Khoshakhlagh, P., Hornick, A., Ferreira, R., Wu, C., Guell, M., Garg, Shilpa, Ng, A. H. M., Myllykallio, H. & Church, G. M., 21 May 2020, In: Nucleic Acids Research. 48, 9, p. 5183-5195 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  8. A diploid assembly-based benchmark for variants in the major histocompatibility complex

    Chin, C., Wagner, J., Zeng, Q., Garrison, E., Garg, Shilpa, Fungtammasan, A., Rautiainen, M., Aganezov, S., Kirsche, M., Zarate, S., Schatz, M. C., Xiao, C., Rowell, W. J., Markello, C., Farek, J., Sedlazeck, F. J., Bansal, V., Yoo, B., Miller, N., Zhou, X., Carroll, A., Barrio, A. M., Salit, M., Marschall, T., Dilthey, A. T. & Zook, J. M., 2020, In: Nature Communications. 11, 9 p., 4794.

    Research output: Contribution to journalJournal articleResearchpeer-review

  9. A haplotype-aware de novo assembly of related individuals using pedigree sequence graph

    Garg, Shilpa, Aach, J., Li, H., Sebenius, I., Durbin, R. & Church, G., 2020, In: Bioinformatics. 36, 8, p. 2385-2392 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  10. 2018
  11. A graph-based approach to diploid genome assembly

    Garg, Shilpa, Rautiainen, M., Novak, A. M., Garrison, E., Durbin, R. & Marschall, T., 2018, In: Bioinformatics. 34, 13, p. i105-i114

    Research output: Contribution to journalJournal articleResearchpeer-review

  12. Variation graph toolkit improves read mapping by representing genetic variation in the reference

    Garrison, E., Sirén, J., Novak, A. M., Hickey, G., Eizenga, J. M., Dawson, E. T., Jones, W., Garg, Shilpa, Markello, C., Lin, M. F., Paten, B. & Durbin, R., 2018, In: Nature Biotechnology. 36, 9, p. 875-879 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  13. 2017
  14. Dense and accurate whole-chromosome haplotyping of individual genomes

    Porubsky, D., Garg, Shilpa, Sanders, A. D., Korbel, J. O., Guryev, V., Lansdorp, P. M. & Marschall, T., 2017, In: Nature Communications. 8, 10 p., 1293.

    Research output: Contribution to journalJournal articleResearchpeer-review

ID: 253769957