2bde85a34b8accbea0c60266f90af25d911cee12 gperez2 Fri Mar 1 15:23:12 2024 -0800 Small edit to human/jaspar.html and major edits to mouse/jaspar.html diff --git src/hg/makeDb/trackDb/human/jaspar.html src/hg/makeDb/trackDb/human/jaspar.html index 46a5faf..c430c75 100644 --- src/hg/makeDb/trackDb/human/jaspar.html +++ src/hg/makeDb/trackDb/human/jaspar.html @@ -119,31 +119,31 @@ confidence between different profiles.</p> <p> JASPAR 2018 used the TFBS Perl module (Lenhard and Wasserman 2002) and FIMO (Grant, Bailey, and Noble 2011), as distributed within the MEME suite (version 4.11.2) (Bailey <em>et al.</em> 2009). For scanning genomes with the BioPerl TFBS module, profiles were converted to PWMs and matches were kept with a relative score ≥ 0.8. For the FIMO scan, profiles were reformatted to MEME motifs and matches with a p-value < 0.05 were kept. TFBS predictions that were not consistent between the two methods (TFBS Perl module and FIMO) were removed. The remaining TFBS predictions were colored according to their FIMO p-value to allow for comparison of prediction confidence between different profiles.</p> <p> -Please refer to the JASPAR 2022, 2020, and 2018 publications for more +Please refer to the JASPAR 2024, 2022, 2020, and 2018 publications for more details (citation below).</p> <h2>Data Access</h2> <p> JASPAR Transcription Factor Binding data includes billions of items. Limited regions can be explored interactively with the <a href="../cgi-bin/hgTables">Table Browser</a> and cross-referenced with <a href="../cgi-bin/hgIntegrator">Data Integrator</a>, although positional queries that are too big can lead to timing out. This results in a black page or truncated output. In this case, you may try reducing the chromosomal query to a smaller window.</p> <p> For programmatic access, the track can be accessed using the Genome Browser's <a href="../../goldenPath/help/api.html">REST API</a>.