Annotation of the Drosophila melanogaster euchromatic genome: a systematic review

Autor: Misra S, Ma, Crosby, Christopher Mungall, Bb, Matthews, Ks, Campbell, Hradecky P, Huang Y, Js, Kaminker, Gh, Millburn, Se, Prochnik, Cd, Smith, Jl, Tupy, Ej, Whitfied, Bayraktaroglu L, Bp, Berman, Br, Bettencourt, Se, Celniker, Ad, Grey, Ra, Drysdale, Nl, Harris, Richter J, Russo S, Aj, Schroeder, Sq, Shu, Stapleton M, Yamada C, Ashburner M, Wm, Gelbart, Gm, Rubin, Se, Lewis

Publikováno v: Scopus-Elsevier
Genome Biology
Europe PubMed Central

The recent completion of the Drosophila melanogaster genomic sequence to high quality, and the availability of a greatly expanded set of Drosophila cDNA sequences, afforded FlyBase the opportunity to significantly improve genomic annotations.
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Externí odkaz: https://explore.openaire.eu/search/publication?articleId=pmid_dedup__::c6fc9768d10fed6c4022757f6467813e
http://www.scopus.com/inward/record.url?eid=2-s2.0-0002636459&partnerID=MN8TOARS

Single-Cell Transcriptomic Analysis Links Nonmyelinating Schwann Cells to Proinflammatory Response in the Lung.

Autor: Heredia JE; Department of Discovery Immunology, Genentech, South San Francisco, CA., Jung M; Department of OMNI Bioinformatics, Genentech, South San Francisco, CA., Balestrini A; Department of Discovery Immunology, Genentech, South San Francisco, CA., Doerr J; Department of Pathology, Genentech, South San Francisco, CA., Paler-Martinez A; Department of Pathology, Genentech, South San Francisco, CA., Mozzarelli A; Department of Immunology and Inflammation, Humanitas University, Milan, Italy., Riol-Blanco L; Department of Discovery Immunology, Genentech, South San Francisco, CA., Kaminker JS; Department of OMNI Bioinformatics, Genentech, South San Francisco, CA., Ding N; Department of Discovery Immunology, Genentech, South San Francisco, CA.

Publikováno v: Journal of immunology (Baltimore, Md. : 1950) [J Immunol] 2023 Sep 01; Vol. 211 (5), pp. 844-852.

A systems biology approach uncovers novel disease mechanisms in age-related macular degeneration.

Autor: Orozco LD; Department of Bioinformatics and Computational Biology, Genentech, South San Francisco, CA 94080, USA., Owen LA; Department of Ophthalmology and Visual Sciences, University of Utah School of Medicine, The University of Utah, Salt Lake City, UT 84132, USA.; Department of Population Health Sciences, University of Utah School of Medicine, The University of Utah, Salt Lake City, UT 84132, USA.; Department of Obstetrics and Gynecology, University of Utah School of Medicine, The University of Utah, Salt Lake City, UT 84132, USA.; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA., Hofmann J; Department of Pathology, Genentech, South San Francisco, CA 94080, USA., Stockwell AD; Department of Human Genetics, Genentech, South San Francisco, CA 94080, USA., Tao J; Department of Pathology, Genentech, South San Francisco, CA 94080, USA., Haller S; Department of Pathology, Genentech, South San Francisco, CA 94080, USA., Mukundan VT; Department of Bioinformatics and Computational Biology, Genentech, South San Francisco, CA 94080, USA., Clarke C; Department of Bioinformatics and Computational Biology, Genentech, South San Francisco, CA 94080, USA., Lund J; Departments of Microchemistry, Proteomics and Lipidomics, Genentech, South San Francisco, CA 94080, USA., Sridhar A; Department of Human Pathobiology & OMNI Reverse Translation, Genentech, South San Francisco, CA 94080, USA., Mayba O; Department of Bioinformatics and Computational Biology, Genentech, South San Francisco, CA 94080, USA., Barr JL; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.; Neuroscience Graduate Program, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA., Zavala RA; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA., Graves EC; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA., Zhang C; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA., Husami N; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.; Department of Biochemistry, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA., Finley R; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA., Au E; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA., Lillvis JH; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.; Veterans Administration Western New York Healthcare System, Buffalo, NY 14212, USA., Farkas MH; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.; Neuroscience Graduate Program, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.; Department of Biochemistry, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.; Veterans Administration Western New York Healthcare System, Buffalo, NY 14212, USA., Shakoor A; Department of Ophthalmology and Visual Sciences, University of Utah School of Medicine, The University of Utah, Salt Lake City, UT 84132, USA., Sherva R; Department of Medicine, Biomedical Genetics, Boston University School of Medicine, Boston, MA 02118, USA., Kim IK; Retina Service, Massachusetts Eye & Ear, Department of Ophthalmology, Harvard Medical School, Boston, MA 02114, USA., Kaminker JS; Department of Bioinformatics and Computational Biology, Genentech, South San Francisco, CA 94080, USA., Townsend MJ; Department of Human Pathobiology & OMNI Reverse Translation, Genentech, South San Francisco, CA 94080, USA., Farrer LA; Department of Medicine, Biomedical Genetics, Boston University School of Medicine, Boston, MA 02118, USA., Yaspan BL; Department of Human Genetics, Genentech, South San Francisco, CA 94080, USA., Chen HH; Department of Human Pathobiology & OMNI Reverse Translation, Genentech, South San Francisco, CA 94080, USA., DeAngelis MM; Department of Ophthalmology and Visual Sciences, University of Utah School of Medicine, The University of Utah, Salt Lake City, UT 84132, USA.; Department of Population Health Sciences, University of Utah School of Medicine, The University of Utah, Salt Lake City, UT 84132, USA.; Department of Ophthalmology, Ross Eye Institute, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.; Neuroscience Graduate Program, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.; Genetics, Genomics and Bioinformatics Graduate Program, Jacobs School of Medicine and Biomedical Sciences, State University of New York, University at Buffalo, Buffalo, NY 14203, USA.

Publikováno v: Cell genomics [Cell Genom] 2023 Apr 18; Vol. 3 (6), pp. 100302. Date of Electronic Publication: 2023 Apr 18 (Print Publication: 2023).

Disease-associated oligodendrocyte responses across neurodegenerative diseases.

Autor: Pandey S; Department of OMNI Bioinformatics, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA. Electronic address: pandey.shristi@gene.com., Shen K; Department of Neuroscience, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Lee SH; Department of Neuroscience, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Shen YA; Department of Neuroscience, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Wang Y; Department of Neuroscience, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Otero-García M; Rebus Biosystems, Inc., Santa Clara, CA, USA., Kotova N; Rebus Biosystems, Inc., Santa Clara, CA, USA., Vito ST; Department of Neuroscience, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Laufer BI; Department of OMNI Bioinformatics, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Newton DF; Department of OMNI Bioinformatics, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA; Roche Global IT Solution Centre, Hoffman-La Roche Canada, 7070 Mississauga Road, Mississauga, ON, Canada., Rezzonico MG; Department of OMNI Bioinformatics, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Hanson JE; Department of Neuroscience, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Kaminker JS; Department of OMNI Bioinformatics, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Bohlen CJ; Department of Neuroscience, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA., Yuen TJ; Department of Neuroscience, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA. Electronic address: tjyuen@gmail.com., Friedman BA; Department of OMNI Bioinformatics, Genentech, Inc., 1 DNA Way, South San Francisco, CA 94080, USA. Electronic address: friedman.brad@gene.com.

Publikováno v: Cell reports [Cell Rep] 2022 Aug 23; Vol. 40 (8), pp. 111189.

MicrobiomeExplorer: an R package for the analysis and visualization of microbial communities.

Autor: Reeder J; Department of OMNI Bioinformatics, Genentech, Inc, South San Francisco, CA 94080, USA., Huang M; Department of Statistics, The Wharton School, University of Pennsylvania, Philadelphia, PA 19104, USA.; Department of Biostatistics, Genentech, Inc, South San Francisco, CA 94080, USA., Kaminker JS; Department of OMNI Bioinformatics, Genentech, Inc, South San Francisco, CA 94080, USA., Paulson JN; Department of Biostatistics, Genentech, Inc, South San Francisco, CA 94080, USA.

Publikováno v: Bioinformatics (Oxford, England) [Bioinformatics] 2021 Jun 09; Vol. 37 (9), pp. 1317-1318.