Open letter
An encyclopedia of mouse DNA elements (Mouse ENCODE)
1 Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington, USA
2 Department of Genetics, Stanford University School of Medicine, Stanford, California, USA
3 Center for Comparative Genomics and Bioinformatics, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania, USA
4 Department of Cellular and Molecular Medicine, Institute of Genomic Medicine, University of California San Diego, La Jolla, California, USA
5 Dept. of Functional Genomics, Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA
6 Department of Biological Science, Florida State University, Tallahassee, Florida, USA
7 Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, Washington, USA
8 Department of Genetics, Yale University, New Haven, Connecticut, USA
9 Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut, USA
10 Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, USA
11 Div. of Biology, California Institute of Technology, Pasadena, California, USA
12 Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, Massachussetts, USA
13 Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina, USA
14 Department of Pediatrics, Duke University, Durham, North Carolina, USA
15 Department of Mathematics and Computer Science, Emory University, Atlanta, Georgia, USA
16 Div. of Hematology, Children's Hospital of Philadelphia, Abramson Research Center, Philadelphia, Pennsylvania, USA
17 Dept. of Developmental and Cell Biology, University of California Irvine, Irvine California, USA
18 Division of Bioinformatics and Genomics, Center for Genomic Regulation, Barcelona, Catalunya, Spain
19 Center for Biomolecular Science and Engineering, School of Engineering, University of California Santa Cruz (UCSC), Santa Cruz, California, USA
20 National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland, USA
Genome Biology 2012, 13:418 doi:10.1186/gb-2012-13-8-418
Published: 13 August 2012Additional files
Additional file 1:
Table S1 - overview of Mouse ENCODE data. Snapshot of data generated by the Mouse ENCODE Consortium and released through University of California Santa Cruz (UCSC) browser. Vertical axis: cell lines and ex vivo cells and tissues. The originating cell type is shown in parentheses next to each line. For mouse embryonic or fetal tissues, the developmental day of harvest is shown in parentheses. Unless otherwise noted, all other tissues are from adult animals. Horizontal axis: experimental assays, including DNaseI hypersensitivity sites (DNaseI), DNaseI footprints by digital genomic footprinting (DGF); mRNA-seq; DNA replication type by Repli-chIP; modifications to histone H3, including bulk acetylation (H3ac) or modification to specific lysine positions on the H3 tail; ChIP-seq for polymerase (Pol2, Pol2-4H8), histone acetyltransferase p300, and diverse transcrition factors; and ChIP input control (far right lane). Filled cells indicate that an assay has been performed by the indicated production center(s) and data released to UCSC.
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