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Rahul Satija

Assistant Professor

    20042020

    Research output per year

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    Research Output

    2013

    Comparative analysis of RNA sequencing methods for degraded or low-input samples

    Adiconis, X., Borges-Rivera, D., Satija, R., Deluca, D. S., Busby, M. A., Berlin, A. M., Sivachenko, A., Thompson, D. A., Wysoker, A., Fennell, T., Gnirke, A., Pochet, N., Regev, A. & Levin, J. Z., Jul 2013, In : Nature methods. 10, 7, p. 623-629 7 p.

    Research output: Contribution to journalArticle

    Dynamic regulatory network controlling TH17 cell differentiation

    Yosef, N., Shalek, A. K., Gaublomme, J. T., Jin, H., Lee, Y., Awasthi, A., Wu, C., Karwacz, K., Xiao, S., Jorgolli, M., Gennert, D., Satija, R., Shakya, A., Lu, D. Y., Trombetta, J. J., Pillai, M. R., Ratcliffe, P. J., Coleman, M. L., Bix, M., Tantin, D. & 3 others, Park, H., Kuchroo, V. K. & Regev, A., 2013, In : Nature. 496, 7446, p. 461-8

    Research output: Contribution to journalArticle

    Dynamic regulatory network controlling TH 17 cell differentiation

    Yosef, N., Shalek, A. K., Gaublomme, J. T., Jin, H., Lee, Y., Awasthi, A., Wu, C., Karwacz, K., Xiao, S., Jorgolli, M., Gennert, D., Satija, R., Shakya, A., Lu, D. Y., Trombetta, J. J., Pillai, M. R., Ratcliffe, P. J., Coleman, M. L., Bix, M., Tantin, D. & 3 others, Park, H., Kuchroo, V. K. & Regev, A., Apr 25 2013, In : Nature. 496, 7446, p. 461-468 8 p.

    Research output: Contribution to journalArticle

    High-Resolution mapping reveals a conserved, widespread, dynamic mRNA methylation program in yeast meiosis

    Schwartz, S., Agarwala, S. D., Mumbach, M. R., Jovanovic, M., Mertins, P., Shishkin, A., Tabach, Y., Mikkelsen, T. S., Satija, R., Ruvkun, G., Carr, S. A., Lander, E. S., Fink, G. R. & Regev, A., Dec 5 2013, In : Cell. 155, 6, p. 1409-1421 13 p.

    Research output: Contribution to journalArticle

    Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

    Shalek, A. K., Satija, R., Adiconis, X., Gertner, R. S., Gaublomme, J. T., Raychowdhury, R., Schwartz, S., Yosef, N., Malboeuf, C., Lu, D., Trombetta, J. J., Gennert, D., Gnirke, A., Goren, A., Hacohen, N., Levin, J. Z., Park, H. & Regev, A., 2013, In : Nature. 498, 7453, p. 236-240 5 p.

    Research output: Contribution to journalArticle

    2012

    The atypical calpains: Evolutionary analyses and roles in Caenorhabditis elegans cellular degeneration

    Joyce, P. I., Satija, R., Chen, M. & Kuwabara, P. E., Mar 2012, In : PLoS genetics. 8, 3, e1002602.

    Research output: Contribution to journalArticle

    The TAGteam motif facilitates binding of 21 sequence-specific transcription factors in the Drosophila embryo

    Satija, R. & Bradley, R. K., Apr 2012, In : Genome Research. 22, 4, p. 656-665 10 p.

    Research output: Contribution to journalArticle

    2010

    Genome-wide functional element detection using pairwise statistical alignment outperforms multiple genome footprinting techniques

    Satija, R., Hein, J. & Lunter, G. A., Jul 7 2010, In : Bioinformatics. 26, 17, p. 2116-2120 5 p., btq360.

    Research output: Contribution to journalArticle

    2009

    BigFoot: Bayesian alignment and phylogenetic footprinting with MCMC

    Satija, R., Novk, Á., Miklás, I., Lyngsø, R. & Hein, J., 2009, In : BMC Evolutionary Biology. 9, 1, 217.

    Research output: Contribution to journalArticle

    Stochastic models of sequence evolution including insertion-deletion events

    Miklós, I., Novák, Á., Satija, R., Lyngsø, R. & Hein, J., 2009, In : Statistical Methods in Medical Research. 18, 5, p. 453-485 33 p.

    Research output: Contribution to journalArticle

    2008

    Combining statistical alignment and phylogenetic footprinting to detect regulatory elements

    Satija, R., Pachter, L. & Hein, J., May 2008, In : Bioinformatics. 24, 10, p. 1236-1242 7 p.

    Research output: Contribution to journalArticle

    2007

    Erratum: The genome of the sea urchin Strongylocentrotus purpuratus (Science (2006) (941))

    Elsik, C. G., Hibino, T., Vacquier, V. D., Kitts, P., Landrum, M. J., Maglott, D., Pruitt, K., Souvorov, A., Fedrigo, O., Primus, A., Satija, R., Adams, N., Flytzanis, C., Galindo, B. E., Goldstone, J. V., Manning, G., Mellott, D., Song, J., Terwilliger, D. P. & Wikramanayake, A., Feb 9 2007, In : Science. 315, 5813, 1 p.

    Research output: Contribution to journalComment/debate

    2006

    The genome of the sea urchin Strongylocentrotus purpuratus

    Sodergren, E., Weinstock, G. M., Davidson, E. H., Cameron, R. A., Gibbs, R. A., Angerer, R. C., Angerer, L. M., Arnone, M. I., Burgess, D. R., Burke, R. D., Coffman, J. A., Dean, M., Elphick, M. R., Ettensohn, C. A., Foltz, K. R., Hamdoun, A., Hynes, R. O., Klein, W. H., Marzluff, W., McClay, D. R. & 211 others, Morris, R. L., Mushegian, A., Rast, J. P., Smith, L. C., Thorndyke, M. C., Vacquier, V. D., Wessel, G. M., Wray, G., Zhang, L., Elsik, C. G., Ermolaeva, O., Hlavina, W., Hofmann, G., Kitts, P., Landrum, M. J., Mackey, A. J., Maglott, D., Panopoulou, G., Poustka, A. J., Pruitt, K., Sapojnikov, V., Song, X., Souvorov, A., Solovyev, V., Wei, Z., Whittaker, C. A., Worley, K., Durbin, K. J., Shen, Y., Fedrigo, O., Garfield, D., Haygood, R., Primus, A., Satija, R., Severson, T., Gonzalez-Garay, M. L., Jackson, A. R., Milosavljevic, A., Tong, M., Killian, C. E., Livingston, B. T., Wilt, F. H., Adams, N., Bellé, R., Carbonneau, S., Cheung, R., Cormier, P., Cosson, B., Croce, J., Fernandez-Guerra, A., Genevière, A. M., Goel, M., Kelkar, H., Morales, J., Mulner-Lorillon, O., Robertson, A. J., Goldstone, J. V., Cole, B., Epel, D., Gold, B., Hahn, M. E., Howard-Ashby, M., Scally, M., Stegeman, J. J., Allgood, E. L., Cool, J., Judkins, K. M., McCafferty, S. S., Musante, A. M., Obar, R. A., Rawson, A. P., Rossetti, B. J., Gibbons, I. R., Hoffman, M. P., Leone, A., Istrail, S., Materna, S. C., Samanta, M. P., Stolc, V., Tongprasit, W., Tu, Q., Bergeron, K. F., Brandhorst, B. P., Whittle, J., Berney, K., Bottjer, D. J., Calestani, C., Peterson, K., Chow, E., Yuan, Q. A., Elhaik, E., Graur, D., Reese, J. T., Bosdet, I., Heesun, S., Marra, M. A., Schein, J., Anderson, M. K., Brockton, V., Buckley, K. M., Cohen, A. H., Fugmann, S. D., Hibino, T., Loza-Coll, M., Majeske, A. J., Messier, C., Nair, S. V., Pancer, Z., Terwilliger, D. P., Agca, C., Arboleda, E., Chen, N., Churcher, A. M., Hallböök, F., Humphrey, G. W., Idris, M. M., Kiyama, T., Liang, S., Mellott, D., Mu, X., Murray, G., Olinski, R. P., Raible, F., Rowe, M., Taylor, J. S., Tessmar-Raible, K., Wang, D., Wilson, K. H., Yaguchi, S., Gaasterland, T., Galindo, B. E., Gunaratne, H. J., Juliano, C., Kinukawa, M., Moy, G. W., Neill, A. T., Nomura, M., Raisch, M., Reade, A., Roux, M. M., Song, J. L., Su, Y. H., Townley, I. K., Voronina, E., Wong, J. L., Amore, G., Branno, M., Brown, E. R., Cavalieri, V., Duboc, V., Duloquin, L., Flytzanis, C., Gache, C., Lapraz, F., Lepage, T., Locascio, A., Martinez, P., Matassi, G., Matranga, V., Range, R., Rizzo, F., Röttinger, E., Wilson, K., Beane, W., Bradham, C., Byrum, C., Glenn, T., Hussain, S., Loza, M., Manning, G., Miranda, E., Thomason, R., Walton, K., Wikramanayke, A., Whittaker, C., Wu, S. Y., Xu, R., Brown, C. T., Chen, L., Gray, R. F., Lee, P. Y., Nam, J., Oliveri, P., Smith, J., Muzny, D., Bell, S., Chacko, J., Cree, A., Curry, S., Davis, C., Dinh, H., Dugan-Rocha, S., Fowler, J., Gill, R., Hamilton, C., Hernandez, J., Hines, S., Hume, J., Jackson, L. R., Jolivet, A., Kovar, C., Lee, S., Lewis, L., Miner, G., Morgan, M., Nazareth, L. V., Okwuonu, G., Parker, D., Pu, L. L., Thorn, R. & Wright, R., Nov 10 2006, In : Science. 314, 5801, p. 941-952 12 p.

    Research output: Contribution to journalArticle

    2004

    In situ neutron imaging technique for evaluation of water management systems in operating PEM fuel cells

    Satija, R., Jacobson, D. L., Arif, M. & Werner, S. A., Apr 22 2004, In : Journal of Power Sources. 129, 2, p. 238-245 8 p.

    Research output: Contribution to journalArticle