bbabbd5d2566d47d923d51dbe350634783455999 mspeir Sun Oct 26 12:14:52 2025 -0700 change soe to gi, refs #35031 diff --git src/hg/htdocs/ENCODE/downloads.html src/hg/htdocs/ENCODE/downloads.html index 124b1e9fa7b..b8b78d7025a 100755 --- src/hg/htdocs/ENCODE/downloads.html +++ src/hg/htdocs/ENCODE/downloads.html @@ -18,128 +18,128 @@ <!--#include virtual="/inc/encodeProject.topbar.html"--> <div class="encodeHeader"> <a href="/ENCODE/index.html"><img src="/images/gbLogoOnly.png" style="height:70%;" alt="ENCODE at UCSC" title="ENCODE at UCSC"></a> <span class="txt">ENCODE Downloads</span> <span class="encodeHeaderDates">2007 - 2012</span> </div> <div class="wrapper"> <div class="bar"><h4 class="title">Overview</h4></div> <div class="content"> <P> This page contains links to directories containing raw and processed data released as part of the ENCODE production phase (September 2007 - December 2012). Formats are described on the <A HREF="/FAQ/FAQformat.html" TARGET=_blank>File Format FAQ</A>. For bulk download, retrieval by - <A HREF="ftp://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/" TARGET=_blank>FTP</A> + <A HREF="ftp://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/" TARGET=_blank>FTP</A> is recommended along with rsync. Using rsync, for example "rsync -a -P - rsync://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeDir/wgEncodeFile ./", + rsync://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeDir/wgEncodeFile ./", has the advantage of starting up where it left off after a failure, when ran again. Production data files are covered by the <A HREF="/ENCODE/terms.html" TARGET=_BLANK>ENCODE data release policy</A>. Links in the blue sections below show descriptions of the data as tracks in the UCSC Genome Browser. For further helpful information, such as links to a matrix to access files and answers to common user questions, please see the <a href="FAQ/index.html">ENCODE FAQ and Resources page</a>. </P> <P> The ENCODE Analysis Working Group (AWG) is a cross-consortium effort to perform integrated analysis of all ENCODE data types based on uniform processing. In September 2012 the results of AWG analysis of data produced from September 2007 through January 2011 were published in a series of coordinated <A HREF="/ENCODE/pubs.html" TARGET=_BLANK>publications</A>. Resulting files from the uniform processing reported in these publications are hosted on the ENCODE Analysis Data Hub for <A HREF="#analysisHub">download</A> and <A TARGET=_BLANK HREF="http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg19&hubUrl=http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/hub.txt">visualization in the UCSC Browser</A>. Visit the ENCODE <A HREF="/ENCODE/analysis.html" Target=_BLANK>Integrative Analysis</A> and <A HREF="/ENCODE/qualityMetrics.html" TARGET=_BLANK>Quality Metrics</A> pages for more information. </P> </div><!--end content--> </div><!--end wrapper--> <div class="wrapper"> <div class="bar"><h4 class="title"><a - href="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/" + href="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/" title="Click to see files directory for Human Genome Build 37 (hg19)">Human Genome Build 37 (hg19): ENCODE Analysis Data at UCSC</a> <input type='button' class='buttonLink right' value='File search' onclick="window.location='../cgi-bin/hgFileSearch?db=hg19';" title='Search for downloadable files ...'> </h4></div> <div class="content"> <p> <TABLE class="itemTbl" BORDER=1 CELLSPACING=0> <TR> <td class="ltGray hd2" colspan=2> <a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeReg" target=_blank>Integrated Regulation from UCSC</a></td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeRegDnaseClustered/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeRegDnaseClustered/" TARGET=_BLANK>DNase Clusters</A></TD> <TD>Digital DNaseI Hypersensitivity Clusters from ENCODE</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeRegTfbsClustered/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeRegTfbsClustered/" TARGET=_BLANK>Txn Factor ChIP</A></TD> <TD>Transcription Factor ChIP-seq from ENCODE</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Other</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHmm/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHmm/" TARGET=_BLANK>Broad ChromHMM</A></TD> <TD>Chromatin State Segmentation by HMM from ENCODE/Broad</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAwgSegmentation/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAwgSegmentation/" TARGET=_BLANK>Genome Segmentations</A></TD> <TD>Genome Segmentations from DNase, FAIRE, Histone and TFBS Signals</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAwgDnaseUniform/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAwgDnaseUniform/" TARGET=_BLANK>Uniform DNaseI HS</A></TD> <TD>DNaseI Hypersensitivity Uniform Peaks from ENCODE/Analysis</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAwgTfbsUniform/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAwgTfbsUniform/" TARGET="_BLANK">Uniform TFBS</A></TD> <TD>Transcription Factor ChIP-seq Uniform Peaks from ENCODE/Analysis</TD> </TR> </TABLE> </p> </div><!--end content--> </div><!--end wrapper--> <div class="wrapper"> <div class="bar"><h4 class="title"><a name="analysisHub"><a href="http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/" title="Click to see files directory for Analysis Hub">Human Genome Build 37 (hg19): ENCODE Analysis Hub at the European Bioinformatics Institute</a></h4></div> <div class="content"> <p> <TABLE class="itemTbl" BORDER=1 CELLSPACING=0> <TR> <td class="ltGray hd2" colspan=2> Metadata </td> </TR> <TR> <TD><A TARGET=_BLANK HREF="http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/files.txt">files.txt</A></TD> <TD>Metadata terms for all Analysis Hub files</TD> </TR> <TR> - <TD><A TARGET=_BLANK HREF="http://hgdownload.soe.ucsc.edu/goldenPath/encodeDCC/cv.ra">cv.ra</A></TD> + <TD><A TARGET=_BLANK HREF="http://hgdownload.gi.ucsc.edu/goldenPath/encodeDCC/cv.ra">cv.ra</A></TD> <TD>Controlled vocabulary used in ENCODE metadata</TD> </TR> <TR> <td class="ltGray hd2" colspan=2> Uniform Peaks for <A class="euro" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=hub_4607_uniformDnase&hubUrl=http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/hub.txt" target=_blank>DNase</A>, <A class="euro" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=hub_4607_uniformFaire&hubUrl=http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/hub.txt" target=_blank>FAIRE</A>, <A class="euro" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=hub_4607_uniformHistone&hubUrl=http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/hub.txt" target=_blank>Histone</A>, and <A class="euro" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=hub_4607_uniformTfbs&hubUrl=http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/hub.txt" target=_blank>TFBS</A> </TR> <TR> <TD><A HREF="http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/byDataType/openchrom/jan2011/fdrPeaks" @@ -207,544 +207,544 @@ </TR> <TR> <TD><A HREF="http://ftp.ebi.ac.uk/pub/databases/ensembl/encode/integration_data_jan2011/byDataType/segmentations/jan2011/hub" TARGET=_BLANK>Genome Segmentations</A></TD> <TD>Genome Segmentations from DNase, FAIRE, Histone and TFBS Signals</TD> </TR> </TABLE> </p> </div><!--end content--> </div><!--end wrapper--> <div class="wrapper"> <div class="bar"><h4 class="title"><a - href="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/" + href="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/" title="Click to see files directory for Human Genome Build 37 (hg19)">Human Genome Build 37 (hg19): ENCODE Production Data</a> <input type='button' class='buttonLink right' value='File search' onclick="window.location='../cgi-bin/hgFileSearch?db=hg19';" title='Search for downloadable files ...'></h4> </div> <div class="content"> <p> <TABLE class="itemTbl" BORDER=1 CELLSPACING=0> <TR> <td class="ltGray hd2" colspan=2><a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeExonArraySuper" target=_blank>All-Exon Arrays</a></TR> <TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeDukeAffyExon" TARGET=_blank> + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeDukeAffyExon" TARGET=_blank> Duke Affy Exon</A></TD> <TD>Affymetrix Exon Array from ENCODE/Duke</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwAffyExonArray" TARGET=_blank> + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwAffyExonArray" TARGET=_blank> UW Affy Exon</A></TD> <TD>Affymetrix Exon Array from ENCODE/University of Washington</TD> </TR> <TR> <td class="ltGray hd2" colspan=2> <a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeDNAseSuper" target=_blank>Chromatin Accessibility</a></td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromDnase/" TARGET=_BLANK>Duke DNaseI HS</A></TD> <TD>Open Chromatin by DNaseI HS from ENCODE/OpenChrom(Duke University)</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromSynth/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromSynth/" TARGET=_BLANK>Open Chrom Synth</A></TD> <TD>DNaseI/FAIRE/ChIP Synthesis from ENCODE/OpenChrom(Duke/UNC/UTA)</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromFaire/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromFaire/" TARGET=_BLANK>UNC FAIRE</A></TD> <TD>Open Chromatin by FAIRE from ENCODE/OpenChrom(UNC Chapel Hill) </TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwDgf/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwDgf/" TARGET=_BLANK>UW DNaseI DGF</A></TD> <TD>DNaseI Digital Genomic Footprinting from ENCODE/University of Washington</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwDnase/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwDnase/" TARGET=_BLANK>UW DNaseI HS</A></TD> <TD>DNaseI Hypersensitivity by Digital DNaseI from ENCODE/University of Washington</TD> </TR> <TR> <td class="ltGray hd2" colspan=2><A class="euro undecoratedLink" HREF="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeChromSuper" TARGET=_blank>Chromatin Interactions</a></td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGisChiaPet/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGisChiaPet/" TARGET=_BLANK>GIS ChIA-PET</A></TD> <TD>Chromatin Interaction Analysis Paired-End Tags (ChIA-PET) from ENCODE/GIS-Ruan</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUmassDekker5C/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUmassDekker5C/" TARGET=_BLANK>UMass 5C</A></TD> <TD>Chromatin Interactions by 5C from ENCODE/Dekker Univ. Mass.</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUw5C/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUw5C/" TARGET=_BLANK>UW 5C</A></TD> <TD>Chromatin Interactions by 5C from ENCODE/University of Washington </TD> </TR> <TR> <td class="ltGray hd2" colspan=2> <a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeDnaMethylSuper" target=_blank>DNA Methylation</a></td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibMethylRrbs/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibMethylRrbs/" TARGET=_BLANK>HAIB Methyl RRBS</A></TD> <TD>DNA Methylation by Reduced Representation Bisulfite Seq from ENCODE/HudsonAlpha</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibMethyl450/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibMethyl450/" TARGET=_BLANK>HAIB Methyl450</A></TD> <TD>CpG Methylation by Methyl 450K Bead Arrays from ENCODE/HAIB</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Genes</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV4/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV4/" TARGET=_BLANK>GENCODE Genes V4</A></TD> <TD>GENCODE V4 Gene Annotations</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV7/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV7/" TARGET=_BLANK>GENCODE Genes V7</A></TD> <TD>Gene Annotations from ENCODE/GENCODE Version 7</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV10/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV10/" TARGET=_BLANK>GENCODE Genes V10</A></TD> <TD>Gene Annotations from ENCODE/GENCODE Version 10</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV11/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV11/" TARGET=_BLANK>GENCODE Genes V11</A></TD> <TD>Gene Annotations from ENCODE/GENCODE Version 11</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV12/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGencodeV12/" TARGET=_BLANK>GENCODE Genes V12</A></TD> <TD>Gene Annotations from ENCODE/GENCODE Version 12</TD> </TR> <TR> <td class="ltGray hd2" colspan=2> <a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHistoneSuper" target=_blank>Histone Modification</a></td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHmm/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHmm/" TARGET=_BLANK>Broad ChromHMM</A></TD> <TD>Chromatin State Segmentation by HMM from ENCODE/Broad</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHistone/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBroadHistone/" TARGET=_BLANK>Broad Histone</A></TD> <TD>Histone Modifications by ChIP-seq from ENCODE/Broad Institute</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSydhHistone/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSydhHistone/" TARGET=_BLANK>SYDH Histone</A></TD> <TD>Histone Modifications by ChIP-seq from ENCODE/Stanford/Yale/Davis/Harvard</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwHistone/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwHistone/" TARGET=_BLANK>UW Histone</A></TD> <TD>Histone Modifications by ChIP-seq from ENCODE/University of Washington</TD> </TR> <TR> <td class="ltGray hd2" colspan=2> <a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeProtGenoSuper" target=_blank>Proteogenomics</a></td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUncBsuProt/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUncBsuProt/" TARGET=_BLANK>UNC/BSU ProtGeno</A></TD> <TD>Proteogenomics from ENCODE/Univ. North Carolina/Boise State Univ.</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUncBsuProtGenc/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUncBsuProtGenc/" TARGET=_BLANK>UNC/BSU ProtGenc</A></TD> <TD>Proteogenomics and GENCODE Mapping from ENCODE/Univ. North Carolina/Boise State Univ.</TD> </TR> <TR> <td class="ltGray hd2" colspan=2> <a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeRbpSuper" target=_blank>RNA Binding Proteins</a></td> </TR> <TR> - <td><a href="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSunyAlbanyGeneSt/" + <td><a href="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSunyAlbanyGeneSt/" target=_blank>SUNY RIP GeneST</a></td> <td>RNA Binding Protein Associated RNA by RIP-chip GeneST from ENCODE/SUNY Albany</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSunyRipSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSunyRipSeq/" TARGET=_BLANK>SUNY RIP-seq</A></TD> <TD>RIP-seq from ENCODE/SUNY Albany</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSunyAlbanyTiling/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSunyAlbanyTiling/" TARGET=_BLANK>SUNY Tiling</A></TD> <TD>RBP Associated RNA by Tiling Array from ENCODE/SUNY Albany</TD> </TR> <TR> <td class="ltGray hd2" colspan=2> <a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeRnaSeqSuper" target=_blank>RNA-seq</a></td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCaltechRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCaltechRnaSeq/" TARGET=_BLANK>Caltech RNA-seq </A></TD> <TD>RNA-seq from ENCODE/Caltech</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlLongRnaSeq/" TARGET=_BLANK>CSHL Long RNA-seq</A></TD> <TD>Long RNA-seq from ENCODE/Cold Spring Harbor Lab</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlShortRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeCshlShortRnaSeq/" TARGET=_BLANK>CSHL Sm RNA-seq</A></TD> <TD>Small RNA-seq from ENCODE/Cold Spring Harbor Lab</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGisRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGisRnaSeq/" TARGET=_BLANK>GIS RNA-seq</A></TD> <TD>RNA-seq from ENCODE/Genome Institute of Singapore</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibRnaSeq/" TARGET=_BLANK>HAIB RNA-seq</A></TD> <TD>RNA-seq from ENCODE/HAIB</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSydhRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSydhRnaSeq/" TARGET=_BLANK>SYDH RNA-seq</A></TD> <TD>RNA-seq from ENCODE/Stanford/Yale/USC/Harvard</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Subcellular RNA Localization</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAffyRnaChip/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeAffyRnaChip/" TARGET=_BLANK>Affy RNA Loc</A></TD> <TD>RNA Subcellular Localization by Tiling Microarray from ENCODE Affymetrix/CSHL</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeRikenCage/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeRikenCage/" TARGET=_BLANK>RIKEN CAGE Loc</A></TD> <TD>RNA CAGE Subcellular Localization from ENCODE/RIKEN</TD> </TR> <TR> <td class="ltGray hd2" colspan=2> <a class="euro undecoratedLink" href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeTfBindingSuper" target=_blank>Transcription Factor Binding Sites</a></td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibTfbs/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibTfbs/" TARGET=_BLANK>HAIB TFBS</A></TD> <TD>Transcription Factor Binding Sites by ChIP-seq from ENCODE/HAIB</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSydhTfbs/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSydhTfbs/" TARGET=_BLANK>SYDH TFBS</A></TD> <TD>Transcription Factor Binding Sites by ChIP-seq from ENCODE/Stanford/Yale/USC/Harvard</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUchicagoTfbs/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUchicagoTfbs/" TARGET=_BLANK>UChicago TFBS</A></TD> <TD>Transcription Factor Binding Sites by Epitope-Tag ChIP-seq from ENCODE/University of Chicago</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromChip/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeOpenChromChip/" TARGET=_BLANK>UTA TFBS</A></TD> <TD>Open Chromatin TFBS by ChIP-seq from ENCODE/Open Chrom(UT Austin)</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwTfbs/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwTfbs/" TARGET=_BLANK>UW CTCF Binding</A></TD> <TD>CTCF Binding Sites by ChIP-seq from ENCODE/University of Washington</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Other</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBuOrchid/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeBuOrchid/" TARGET=_BLANK>BU ORChID</A></TD> <TD>ORChID Predicted DNA Cleavage Sites from ENCODE/Boston Univ (Tullius lab)</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeFsuRepliChip/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeFsuRepliChip/" TARGET=_BLANK>FSU Repli-chip</A></TD> <TD>Replication Timing by Repli-chip from ENCODE/FSU</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGisDnaPet/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGisDnaPet/" TARGET=_BLANK>GIS DNA PET</A></TD> <TD>Genome Institute of Singapore DNA Paired-End Ditags</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGisRnaPet/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeGisRnaPet/" TARGET=_BLANK>GIS RNA PET</A></TD> <TD>RNA Subcellular Localization by Paired End diTag Sequencing from ENCODE/GIS</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibGenotype/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeHaibGenotype/" TARGET=_BLANK>HAIB Genotype</A></TD> <TD>Genotype (CNV and SNP) by Illumina 1MDuo and CBS from ENCODE/HudsonAlpha</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeMapability/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeMapability/" TARGET=_BLANK>Mappability</A></TD> <TD>Mappability or Uniqueness of Reference Genome</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSydhNsome/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSydhNsome/" TARGET=_BLANK>Stanf Nucleosome</A></TD> <TD>Nucleosome Position by MNase-seq from ENCODE/Stanford/BYU</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSunySwitchgear/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeSunySwitchgear/" TARGET=_BLANK>SUNY SwitchGear</A></TD> <TD>RNA Binding Protein Associated RNA by SwitchGear from ENCODE/SUNY Albany</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwRepliSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg19/encodeDCC/wgEncodeUwRepliSeq/" TARGET=_BLANK>UW Repli-seq</A></TD> <TD>Replication Timing by Repli-seq from ENCODE/University of Washington</TD> </TR> </TABLE> </p> </div><!--end content--> </div><!--end wrapper--> <div class="wrapper"> <div class="bar"><h4 class="title"><a - href="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/" + href="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/" title="Click to see files directory for Human Genome Build 36 (hg18)">Human Genome Build 36 (hg18): All ENCODE Data</a> <input type='button' class='buttonLink right' value='File search' onclick="window.location='../cgi-bin/hgFileSearch?db=hg18';" title='Search for downloadable files ...'></h4> </div> <div class="content"> <p> <TABLE class="itemTbl" BORDER=1 CELLSPACING=0> <TR> <td class="ltGray hd2" colspan=2>All-Exon Arrays</td></TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeDukeAffyExonArray/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeDukeAffyExonArray/" TARGET=_BLANK>Duke Affy Exon</A></TD> <TD>Duke Affy All-Exon Arrays</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeUwAffyExonArray/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeUwAffyExonArray/" TARGET=_BLANK>UW Affy Exon</A></TD> <TD>UW Affy All-Exon Arrays</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Chromatin Accessibility</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeChromatinMap/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeChromatinMap/" TARGET=_BLANK>Open Chromatin</A></TD> <TD>Open Chromatin, Duke/UNC/UT</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeUwDGF/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeUwDGF/" TARGET=_BLANK>UW DNase DGF</A></TD> <TD>Univ. Washington Digital DNase Genomic Footprinting</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeUwDnaseSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeUwDnaseSeq/" TARGET=_BLANK>UW DNaseI HS</A></TD> <TD>Univ. Washington DNaseI Hypersensitivity by Digital DNaseI</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>DNA Methylation</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHudsonalphaMethylSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHudsonalphaMethylSeq/" TARGET=_BLANK>HAIB Methyl-seq</A></TD> <TD>HudsonAlpha Methyl-seq</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHudsonalphaMethyl27/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHudsonalphaMethyl27/" TARGET=_BLANK>HAIB Methyl27</A></TD> <TD>HudsonAlpha CpG Methylation by Illumina Methyl27</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Genes</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeSangerGencode/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeSangerGencode/" TARGET=_BLANK>Gencode Genes</A></TD> <TD>Gencode Gene Annotations</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Histone Modification</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeBroadHmm/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeBroadHmm/" TARGET=_BLANK>Broad ChromHMM</A></TD> <TD>Chromatin State Segmentation by HMM from Broad Institute, MIT and MGH</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeBroadChipSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeBroadChipSeq/" TARGET=_BLANK>Broad Histone</A></TD> <TD>Histone Modifications by Broad Institute ChIP-seq</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeUwChIPSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeUwChIPSeq/" TARGET=_BLANK>UW Histone</A></TD> <TD>Histone Modifications by Univ. Washington ChIP-seq</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Regulation Super-track</td> </TR> <TR> - <td><a target=_blank href="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegDnaseClustered/">DNase Clusters</a></td> + <td><a target=_blank href="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegDnaseClustered/">DNase Clusters</a></td> <td>Digital DNaseI Hypersensitivity Clusters</td> </TR> <TR> - <td><a target=_blank href="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegMarkEnhH3k27ac/">Enhancer H3K27Ac</a></td> + <td><a target=_blank href="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegMarkEnhH3k27ac/">Enhancer H3K27Ac</a></td> <td>Enhancer and Promoter Histone Mark (H3K27Ac) on 8 Cell Lines</td> </TR> <TR> - <td><a target=_blank href="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegMarkEnhH3k4me1/">Enhancer H3K4Me1</a></td> + <td><a target=_blank href="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegMarkEnhH3k4me1/">Enhancer H3K4Me1</a></td> <td>Enhancer and Promoter Histone Mark (H3K4Me1) on 8 Cell Lines</td> </TR> <TR> - <td><a target=_blank href="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegMarkPromoter/">Promoter H3K4Me3 </a></td> + <td><a target=_blank href="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegMarkPromoter/">Promoter H3K4Me3 </a></td> <td>Promoter Histone Mark (H3K4Me3) on 9 Cell Lines</td> </TR> <TR> - <td><a target=_blank href="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegTxn/">Transcription</a></td> + <td><a target=_blank href="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegTxn/">Transcription</a></td> <td>Transcription Levels Assayed by RNA-seq on 6 Cell Lines</td> </TR> <TR> - <td><a target=_blank href="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegTfbsClustered/">Txn Factor ChIP</a></td> + <td><a target=_blank href="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegTfbsClustered/">Txn Factor ChIP</a></td> <td>Transcription Factor ChIP-seq</td> </TR> <TR> <td class="ltGray hd2" colspan=2>RNA-seq</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeCaltechRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeCaltechRnaSeq/" TARGET=_BLANK>Caltech RNA-seq</A></TD> <TD>Caltech RNA-seq Map Algorithm</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeCshlLongRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeCshlLongRnaSeq/" TARGET=_BLANK>CSHL Long RNA-seq</A></TD> <TD>Cold Spring Harbor Labs Long RNA-seq</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeCshlShortRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeCshlShortRnaSeq/" TARGET=_BLANK>CSHL Sm RNA-seq</A></TD> <TD>Cold Spring Harbor Labs Small RNA-seq</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeGisRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeGisRnaSeq/" TARGET=_BLANK>GIS RNA-seq</A></TD> <TD>Genome Institute of Singapore RNA-seq</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHelicosRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHelicosRnaSeq/" TARGET=_BLANK>Helicos RNA-seq</A></TD> <TD>Helicos RNA-seq</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHudsonalphaRnaSeq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHudsonalphaRnaSeq/" TARGET=_BLANK>HudsonAlpha RNA-seq</A></TD> <TD>HudsonAlpha RNA-seq</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeYaleRNAseq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeYaleRNAseq/" TARGET=_BLANK>Yale RNA-seq</A></TD> <TD>Yale RNA-seq</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Subcellular RNA Localization</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeAffyRnaChip/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeAffyRnaChip/" TARGET=_BLANK>Affy RNA Loc</A></TD> <TD>Affymetrix/CSHL Subcellular RNA Localization by Tiling Array</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeGisPet/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeGisPet/" TARGET=_BLANK>GIS PET Loc</A></TD> <TD>Genome Institute of Singapore Subcellular RNA Localization by Paired End diTag Sequencing</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRikenCage/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRikenCage/" TARGET=_BLANK>RIKEN CAGE Loc</A></TD> <TD>RIKEN RNA Subcellular Localization by CAGE Tags</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Transcription Factor Binding Sites</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeYaleChIPseq/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeYaleChIPseq/" TARGET=_BLANK>Yale TFBS</A></TD> <TD>Transcription Factor Binding Sites by ChIP-seq from Yale/UC-Davis/Harvard</TD> </TR> <TR> <td class="ltGray hd2" colspan=2>Other</td> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeBuOrchid/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeBuOrchid/" TARGET=_BLANK>BU ORChID</A></TD> <TD>Boston Univ (Tullius Lab) ORChID Predicted DNA Cleavage Sites</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHudsonalphaCnv/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeHudsonalphaCnv/" TARGET=_BLANK>Common Cell CNV</A></TD> <TD>Common Cell Type Copy Number Variation, by Illumina 1M and CBS</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeGisDnaPet/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeGisDnaPet/" TARGET=_BLANK>GIS DNA PET</A></TD> <TD>Genome Institute of Singapore DNA Paired-End Ditags</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeMapability/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeMapability/" TARGET=_BLANK>Mappability</A></TD> <TD>Mappability or Uniqueness of Reference Genome</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeNhgriBip/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeNhgriBip/" TARGET=_BLANK>NHGRI Bi-Pro</A></TD> <TD>NHGRI Elnitski Bidirectional Promoters</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeNhgriNre/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeNhgriNre/" TARGET=_BLANK>NHGRI NRE</A></TD> <TD>NHGRI Elnitski Negative Regulatory Elements</TD> </TR> <TR> - <TD><A HREF="http://hgdownload.soe.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeSunyalbanyRnaGeneChip/" + <TD><A HREF="http://hgdownload.gi.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeSunyalbanyRnaGeneChip/" TARGET=_BLANK>SUNY RBP</A></TD> <TD>SUNY Albany RNA Binding Proteins by RIP-chip</TD> </TR> </TABLE> </p> </div><!--end content--> </div><!--end wrapper--> </BODY> </HTML>