9fa317264c94a28d9e803669c0547d494bca93f4 gperez2 Wed Feb 4 09:51:06 2026 -0800 Adding a sentence about the tracks available for hg38 and mm10, refs #34886 diff --git src/hg/makeDb/trackDb/recount3.html src/hg/makeDb/trackDb/recount3.html index acf9f49271c..85c3d486988 100644 --- src/hg/makeDb/trackDb/recount3.html +++ src/hg/makeDb/trackDb/recount3.html @@ -3,31 +3,33 @@ Recount3 is a comprehensive resource for re-analyzing RNA-seq data. It provides uniformly processed RNA-seq data and associated metadata from a wide range of studies, enabling researchers to access and analyze gene expression data in a consistent manner. Recount3 aggregates data from multiple sources, including the <a href="https://www.ncbi.nlm.nih.gov/sra/docs/" target=_blank>Sequence Read Archive (SRA)</a> and the <a href="https://commonfund.nih.gov/GTEx" target=_blank>Genotype-Tissue Expression (GTEx) project</a>, and reprocesses it using a standardized pipeline. This allows for cross-study comparisons and meta-analyses, facilitating discoveries in genomics and transcriptomics. Processed recount3 data were integrated into the <a href="https://snaptron.cs.jhu.edu/data.html" target=_blank>Snaptron system</a> for indexing and querying data summaries. Recount3 is available at: <a href="http://rna.recount.bio">http://rna.recount.bio</a>. </p> <p> -These tracks display the recount3 intron data, including split read counts and splice junction motifs. +These tracks display the recount3 intron data, including split read counts and splice junction +motifs. For hg38, tracks are available for GTEx, TCGA, SRA, and CCLE data sources, while mm10 +includes the SRA track only. </p> <h2>Display Conventions</h2> <p> Intron items are colored based on splice junction motifs and read support. Darker colors indicate higher read coverage. Split read counts and splice motifs are shown on mouseover. By default, only introns with a minimum read count of 10,000 are shown. This threshold can be changed on the track configuration page. </p> <p> The intron items are color-coded (darker colors indicate higher coverage): </p> <ul> <li><b><font color="#00bfff">Sky blue</font></b>: GT donors and AG acceptors (CT and AC on the minus strand)</li>