Jennifer Lynne Jackson

    • 6440 Citations
    • 10 h-Index
    20062018
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    Research Output 2006 2018

    • 6440 Citations
    • 10 h-Index
    • 9 Article
    • 1 Letter
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    Article
    2018
    220 Citations (Scopus)

    The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update

    Afgan, E., Baker, D., Batut, B., Van Den Beek, M., Bouvier, D., Ech, M., Chilton, J., Clements, D., Coraor, N., Grüning, B. A., Guerler, A., Hillman-Jackson, J., Hiltemann, S., Jalili, V., Rasche, H., Soranzo, N., Goecks, J., Taylor, J., Nekrutenko, A. & Blankenberg, D., Jul 2 2018, In : Nucleic acids research. 46, W1, p. W537-W544

    Research output: Contribution to journalArticle

    Galaxies
    Metabolomics
    Genomics
    2016
    706 Citations (Scopus)

    The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update

    Afgan, E., Baker, D., van den Beek, M., Blankenberg, D., Bouvier, D., Čech, M., Chilton, J., Clements, D., Coraor, N., Eberhard, C., Grüning, B., Guerler, A., Hillman-Jackson, J., Von Kuster, G., Rasche, E., Soranzo, N., Turaga, N., Taylor, J., Nekrutenko, A. & Goecks, J., Jul 8 2016, In : Nucleic acids research. 44, W1, p. W3-W10

    Research output: Contribution to journalArticle

    Galaxies
    Technology
    Informatics
    Biological Science Disciplines
    DNA Sequence Analysis
    2014
    20 Citations (Scopus)

    Analysis of next-generation sequencing data using galaxy

    Blankenberg, D. & Jackson, J. L., 2014, In : Methods in Molecular Biology. 1150, p. 21-43 23 p.

    Research output: Contribution to journalArticle

    Galaxies
    Informatics
    Software
    Technology
    2012
    83 Citations (Scopus)

    Using galaxy to perform large-scale interactive data analyses

    Hillman-Jackson, J., Clements, D., Blankenberg, D., Taylor, J., Nekrutenko, A. & Team, G., Jun 1 2012, In : Current Protocols in Bioinformatics. SUPPL.38, 10.5.

    Research output: Contribution to journalArticle

    Galaxies
    Microbial Genome
    Research Personnel
    Biomedical Technology
    Informatics
    2011
    793 Citations (Scopus)

    The UCSC genome browser database: Update 2011

    Fujita, P. A., Rhead, B., Zweig, A. S., Hinrichs, A. S., Karolchik, D., Cline, M. S., Goldman, M., Barber, G. P., Clawson, H., Coelho, A., Diekhans, M., Dreszer, T. R., Giardine, B. M., Harte, R. A., Hillman-Jackson, J., Hsu, F., Kirkup, V., Kuhn, R. M., Learned, K., Li, C. H. & 7 others, Meyer, L. R., Pohl, A., Raney, B. J., Rosenbloom, K. R., Smith, K. E., Haussler, D. & Kent, W. J., Jan 1 2011, In : Nucleic acids research. 39, SUPPL. 1, p. D876-D882

    Research output: Contribution to journalArticle

    Genome
    Databases
    Neanderthals
    RNA Editing
    Data Display
    2009
    477 Citations (Scopus)

    The UCSC genome browser database: Update 2010

    Rhead, B., Karolchik, D., Kuhn, R. M., Hinrichs, A. S., Zweig, A. S., Fujita, P. A., Diekhans, M., Smith, K. E., Rosenbloom, K. R., Raney, B. J., Pohl, A., Pheasant, M., Meyer, L. R., Learned, K., Hsu, F., Hillman-Jackson, J., Harte, R. A., Giardine, B., Dreszer, T. R., Clawson, H. & 3 others, Barber, G. P., Haussler, D. & Kent, W. J., Nov 10 2009, In : Nucleic acids research. 38, SUPPL.1, p. D613-D619 gkp939.

    Research output: Contribution to journalArticle

    Genome
    Databases
    Sequence Alignment
    Human Genome
    Invertebrates
    2007
    3521 Citations (Scopus)

    Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

    Birney, E., Stamatoyannopoulos, J. A., Dutta, A., Guigó, R., Gingeras, T. R., Margulies, E. H., Weng, Z., Snyder, M., Dermitzakis, E. T., Thurman, R. E., Kuehn, M. S., Taylor, C. M., Neph, S., Koch, C. M., Asthana, S., Malhotra, A., Adzhubei, I., Greenbaum, J. A., Andrews, R. M., Flicek, P. & 291 others, Boyle, P. J., Cao, H., Carter, N. P., Clelland, G. K., Davis, S., Day, N., Dhami, P., Dillon, S. C., Dorschner, M. O., Fiegler, H., Giresi, P. G., Goldy, J., Hawrylycz, M., Haydock, A., Humbert, R., James, K. D., Johnson, B. E., Johnson, E. M., Frum, T. T., Rosenzweig, E. R., Karnani, N., Lee, K., Lefebvre, G. C., Navas, P. A., Neri, F., Parker, S. C. J., Sabo, P. J., Sandstrom, R., Shafer, A., Vetrie, D., Weaver, M., Wilcox, S., Yu, M., Collins, F. S., Dekker, J., Lieb, J. D., Tullius, T. D., Crawford, G. E., Sunyaev, S., Noble, W. S., Dunham, I., Denoeud, F., Reymond, A., Kapranov, P., Rozowsky, J., Zheng, D., Castelo, R., Frankish, A., Harrow, J., Ghosh, S., Sandelin, A., Hofacker, I. L., Baertsch, R., Keefe, D., Dike, S., Cheng, J., Hirsch, H. A., Sekinger, E. A., Lagarde, J., Abril, J. F., Shahab, A., Flamm, C., Fried, C., Hackermüller, J., Hertel, J., Lindemeyer, M., Missal, K., Tanzer, A., Washietl, S., Korbel, J., Emanuelsson, O., Pedersen, J. S., Holroyd, N., Taylor, R., Swarbreck, D., Matthews, N., Dickson, M. C., Thomas, D. J., Weirauch, M. T., Gilbert, J., Drenkow, J., Bell, I., Zhao, X., Srinivasan, K. G., Sung, W. K., Ooi, H. S., Chiu, K. P., Foissac, S., Alioto, T., Brent, M., Pachter, L., Tress, M. L., Valencia, A., Choo, S. W., Choo, C. Y., Ucla, C., Manzano, C., Wyss, C., Cheung, E., Clark, T. G., Brown, J. B., Ganesh, M., Patel, S., Tammana, H., Chrast, J., Henrichsen, C. N., Kai, C., Kawai, J., Nagalakshmi, U., Wu, J., Lian, Z., Lian, J., Newburger, P., Zhang, X., Bickel, P., Mattick, J. S., Carninci, P., Hayashizaki, Y., Weissman, S., Hubbard, T., Myers, R. M., Rogers, J., Stadler, P. F., Lowe, T. M., Wei, C. L., Ruan, Y., Struhl, K., Gerstein, M., Antonarakis, S. E., Fu, Y., Green, E. D., Karaöz, U., Siepel, A., Taylor, J., Liefer, L. A., Wetterstrand, K. A., Good, P. J., Feingold, E. A., Guyer, M. S., Cooper, G. M., Asimenos, G., Dewey, C. N., Hou, M., Nikolaev, S., Montoya-Burgos, J. I., Löytynoja, A., Whelan, S., Pardi, F., Massingham, T., Huang, H., Zhang, N. R., Holmes, I., Mullikin, J. C., Ureta-Vidal, A., Paten, B., Seringhaus, M., Church, D., Rosenbloom, K., Kent, W. J., Stone, E. A., Batzoglou, S., Goldman, N., Hardison, R. C., Haussler, D., Miller, W., Sidow, A., Trinklein, N. D., Zhang, Z. D., Barrera, L., Stuart, R., King, D. C., Ameur, A., Enroth, S., Bieda, M. C., Kim, J., Bhinge, A. A., Jiang, N., Liu, J., Yao, F., Vega, V. B., Lee, C. W. H., Ng, P., Yang, A., Moqtaderi, Z., Zhu, Z., Xu, X., Squazzo, S., Oberley, M. J., Inman, D., Singer, M. A., Richmond, T. A., Munn, K. J., Rada-Iglesias, A., Wallerman, O., Komorowski, J., Fowler, J. C., Couttet, P., Bruce, A. W., Dovey, O. M., Ellis, P. D., Langford, C. F., Nix, D. A., Euskirchen, G., Hartman, S., Urban, A. E., Kraus, P., Van Calcar, S., Heintzman, N., Hoon Kim, T., Wang, K., Qu, C., Hon, G., Luna, R., Glass, C. K., Rosenfeld, M. G., Aldred, S. F., Cooper, S. J., Halees, A., Lin, J. M., Shulha, H. P., Zhang, X., Xu, M., Haidar, J. N. S., Yu, Y., Iyer, V. R., Green, R. D., Wadelius, C., Farnham, P. J., Ren, B., Harte, R. A., Hinrichs, A. S., Trumbower, H., Clawson, H., Hillman-Jackson, J., Zweig, A. S., Smith, K., Thakkapallayil, A., Barber, G., Kuhn, R. M., Karolchik, D., Armengol, L., Bird, C. P., De Bakker, P. I. W., Kern, A. D., Lopez-Bigas, N., Martin, J. D., Stranger, B. E., Woodroffe, A., Davydov, E., Dimas, A., Eyras, E., Hallgrímsdóttir, I. B., Huppert, J., Zody, M. C., Abecasis, G. R., Estivill, X., Bouffard, G. G., Guan, X., Hansen, N. F., Idol, J. R., Maduro, V. V. B., Maskeri, B., McDowell, J. C., Park, M., Thomas, P. J., Young, A. C., Blakesley, R. W., Muzny, D. M., Sodergren, E., Wheeler, D. A., Worley, K. C., Jiang, H., Weinstock, G. M., Gibbs, R. A., Graves, T., Fulton, R., Mardis, E. R., Wilson, R. K., Clamp, M., Cuff, J., Gnerre, S., Jaffe, D. B., Chang, J. L., Lindblad-Toh, K., Lander, E. S., Koriabine, M., Nefedov, M., Osoegawa, K., Yoshinaga, Y., Zhu, B. & De Jong, P. J., Jun 14 2007, In : Nature. 447, 7146, p. 799-816 18 p.

    Research output: Contribution to journalArticle

    Human Genome
    Chromatin
    Histone Code
    Transcription Initiation Site
    DNA Replication
    69 Citations (Scopus)

    The ENCODE project at UC Santa Cruz

    Thomas, D. J., Rosenbloom, K. R., Clawson, H., Hinrichs, A. S., Trumbower, H., Raney, B. J., Karolchik, D., Barber, G. P., Harte, R. A., Hillman-Jackson, J., Kuhn, R. M., Rhead, B. L., Smith, K. E., Thakkapallayil, A., Zweig, A. S., Haussler, D. & Kent, W. J., Jan 1 2007, In : Nucleic acids research. 35, SUPPL. 1, p. D663-D667

    Research output: Contribution to journalArticle

    Encyclopedias
    DNA
    Human Genome
    Untranslated RNA
    Pseudogenes
    2006
    473 Citations (Scopus)

    The UCSC Genome Browser Database: update 2006.

    Hinrichs, A. S., Karolchik, D., Baertsch, R., Barber, G. P., Bejerano, G., Clawson, H., Diekhans, M., Furey, T. S., Harte, R. A., Hsu, F., Jackson, J. L., Kuhn, R. M., Pedersen, J. S., Pohl, A., Raney, B. J., Rosenbloom, K. R., Siepel, A., Smith, K. E., Sugnet, C. W., Sultan-Qurraie, A. & 7 others, Thomas, D. J., Trumbower, H., Weber, R. J., Weirauch, M., Zweig, A. S., Haussler, D. & Kent, W. J., Jan 1 2006, In : Nucleic acids research. 34, Database issue

    Research output: Contribution to journalArticle

    Genome
    Databases
    Genes
    Data Mining
    Information Storage and Retrieval