d253d039a1a4157faaaae030b254bf4fcbb1fd07 jnavarr5 Thu Apr 24 14:51:40 2025 -0700 Adding a link at the top of the page to the new FAQ, refs #24243 diff --git src/hg/htdocs/FAQ/FAQgenes.html src/hg/htdocs/FAQ/FAQgenes.html index c9ba8302d5b..e43effd5f95 100755 --- src/hg/htdocs/FAQ/FAQgenes.html +++ src/hg/htdocs/FAQ/FAQgenes.html @@ -18,30 +18,31 @@ <li><a href="#duplicates">Why does the UCSC RefSeq track ("refGene") include duplicates, and some transcripts map to two loci?</a></li> <li><a href="#duplicatesEns">Why does the Gencode/Ensembl tracks ("knownGene", "ensGene" or "wgEncodeGencodeVXX") include a few duplicates, and some transcripts map to two loci?</a></li> <li><a href="#ens">What are Ensembl and GENCODE and is there a difference?</a></li> <li><a href="#ensRefseq">What are the differences among GENCODE, Ensembl and RefSeq?</a></li> <li><a href="#hg19">For the human assembly hg19/GRCh37: What is the difference between "UCSC Genes" track, the "GENCODE" track and the "Ensembl Genes" track?</a></li> <li><a href="#hg38">For the human assembly hg38/GRCh38: What are the differences between the "GENCODE" and "All GENCODE" tracks?</a></li> <li><a href="#gencode">What is the difference between GENCODE comprehensive and basic?</a></li> <li><a href="#ncbiRefseq">What is the difference between "NCBI RefSeq" and "UCSC RefSeq"?</a></li> <li><a href="#mito">What is the best gene track for mitochondrial gene annotations?</a></li> <li><a href="#report">How shall I report a gene transcript in a manuscript?</a></li> <li><a href="#ccds">What is CCDS?</a></li> <li><a href="#justsingle">How can I show a single transcript per gene?</a></li> <li><a href="#singledownload">How can I download a file with a single transcript per gene?</a></li> +<li><a href="#bioTypeFilter">How can I filter by bioType from GENCODE/RefSeq/Ensembl?</a></li> <li><a href="#whatdo">This is rather complicated. Can you tell me which gene transcript track I should use?</a></li> <li><a href="#gtfDownload">Does UCSC provide GTF/GFF files for gene models?</a></li> <li><a href="#coding">What is the best way to get only coding genes (or only non-coding genes) out of GENCODE (or other gene) tables?</a></li> </ul> <hr> <p> <a href="index.html">Return to FAQ Table of Contents</a></p> <a name="gene"></a> <h2>The basics</h2> The genome browser contains many gene annotation tracks. Our users often wonder what these contain and where the information that we present comes