2dbde83fa13ececaabf3f5c811e595bc22f402af
dschmelt
  Tue Feb 23 12:19:33 2021 -0800
Code review changes, minor detail added refs #27042

diff --git src/hg/makeDb/trackDb/human/encRegTfbsClustered.html src/hg/makeDb/trackDb/human/encRegTfbsClustered.html
index 1790455..a015aaf 100644
--- src/hg/makeDb/trackDb/human/encRegTfbsClustered.html
+++ src/hg/makeDb/trackDb/human/encRegTfbsClustered.html
@@ -46,40 +46,41 @@
 </p>
 
 <h2>Methods</h2>
 <p>
 Peaks of transcription factor occupancy ("optimal peak set") from ENCODE ChIP-seq datasets
 were clustered using the UCSC hgBedsToBedExps tool.  
 Scores were assigned to peaks by multiplying the input signal values by a normalization
 factor calculated as the ratio of the maximum score value (1000) to the signal value at one
 standard deviation from the mean, with values exceeding 1000 capped at 1000. This has the
 effect of distributing scores up to mean plus one 1 standard deviation across the score range,
 but assigning all above to the maximum score.
 The cluster score is the highest score for any peak contributing to the cluster.</p>  
 
 <h2>Data Access</h2>
 <p>
-The raw data for the ENCODE3 TF Clusters track can be accessed from
+The raw data for the ENCODE3 TF Clusters track can be accessed from the
 <a href="hgTables?db=hg38">
-Table Browser</a> or combined with other data-sets through <a href="hgIntegrator">
-Data Integrator</a>. This data is stored internally as a BED5+1 MySQL table with additional 
-metadata tables. For automated analysis and download, the track data file can be downloaded
-from our 
-<a href="http://hgdownload.soe.ucsc.edu/goldenPath/hg38/encRegTfbsClustered/">
-downloads server</a>. It can also be queried using the 
+Table Browser</a> or combined with other datasets through the <a href="hgIntegrator">
+Data Integrator</a>. This data is stored internally as a BED5+3 MySQL table with additional 
+metadata tables. For automated analysis and download, the 
+<strong>encRegTfbsClusteredWithCells.hg38.bed.gz</strong> track data file can be downloaded from 
+our <a href="http://hgdownload.soe.ucsc.edu/goldenPath/hg38/encRegTfbsClustered/">
+downloads server</a>, which has 5 fields of BED data followed by a comma-separated list of cell types. 
+The data can also be queried using the 
 <a href="../../goldenPath/help/api.html">JSON API</a> or the
-<a href="../../goldenPath/help/mysql.html">Public SQL</a> commands.</p>
+<a href="../../goldenPath/help/mysql.html">Public SQL</a> server.</p>
 
 <H2>Credits</H2>
 <p>
 Thanks to the ENCODE Consortium, the ENCODE ChIP-seq production laboratories, and the
 ENCODE Data Coordination Center for generating and processing the TF ChIP-seq datasets used here.
 The ENCODE accession numbers of the constituent datasets are available from the peak details page.
 Special thanks to Henry Pratt, Jill Moore, Michael Purcaro, and Zhiping Weng, PI, at the 
 <a target="_blank" href="https://www.umassmed.edu/zlab/">ENCODE Data Analysis Center (ZLab at UMass Medical Center)</a> for providing the peak datasets, metadata, and guidance
 developing this track.</p>
 <P>
 The integrative view presented here was developed by Jim Kent at UCSC.</P>
 
 <h2>References</h2>
 
 <p>ENCODE Project Consortium.