398507e945d474a1553f783d19d1c458ddbc064b lrnassar Thu Jun 10 16:10:39 2021 -0700 Announcing ensembl v104 annotations, refs #27616 diff --git src/hg/htdocs/goldenPath/newsarch.html src/hg/htdocs/goldenPath/newsarch.html index e53131f..8371bc3 100755 --- src/hg/htdocs/goldenPath/newsarch.html +++ src/hg/htdocs/goldenPath/newsarch.html @@ -40,30 +40,150 @@ <div class="col-sm-3"> <ul> <li><a href="#2005">2005 News</a></li> <li><a href="#2004">2004 News</a></li> <li><a href="#2003">2003 News</a></li> <li><a href="#2002">2002 News</a></li> <li><a href="#2001">2001 News</a></li> </ul> </div> </div> </div> <!-- ============= 2021 archived news ============= --> <a name="2021"></a> +<a name="061421"></a> +<h2>Jun. 14, 2021 Updated Ensembl gene tracks for 48 assemblies (v104)</h2> +<p> +We are pleased to announce updated +<a href="http://uswest.ensembl.org/info/genome/genebuild/index.html" target="_blank"> +Ensembl gene annotation</a> tracks corresponding to <strong>v104</strong> for the +following assemblies:</p><br> +<div class="container"> + <div class="row"> + <div class="col-sm-4"> + <ul> + <li>Armadillo <a href="../cgi-bin/hgTrackUi?db=dasNov3&g=ensGene&position=default" + target=_blank>(dasNov3)</a></li> + <li>Baboon <a href="../cgi-bin/hgTrackUi?db=papAnu4&g=ensGene&position=default" + target=_blank>(papAnu4)</a></li> + <li>Bison <a href="../cgi-bin/hgTrackUi?db=bisBis1&g=ensGene&position=default" + target=_blank>(bisBis1)</a></li> + <li>Bonobo <a href="../cgi-bin/hgTrackUi?db=panPan2&g=ensGene&position=default" + target=_blank>(panPan2)</a></li> + <li>Budgerigar <a href="../cgi-bin/hgTrackUi?db=melUnd1&g=ensGene&position=default" + target=_blank>(melUnd1)</a></li> + <li>Bushbaby <a href="../cgi-bin/hgTrackUi?db=otoGar3&g=ensGene&position=default" + target=_blank>(otoGar3)</a></li> + <li>C. elegans <a href="../cgi-bin/hgTrackUi?db=ce11&g=ensGene&position=default" + target=_blank>(ce11)</a></li> + <li>C. intestinalis <a href="../cgi-bin/hgTrackUi?db=ci3&g=ensGene&position=default" + target=_blank>(ci3)</a></li> + <li>Cat <a href="../cgi-bin/hgTrackUi?db=felCat9&g=ensGene&position=default" + target=_blank>(felCat9)</a></li> + <li>Chicken <a href="../cgi-bin/hgTrackUi?db=galGal6&g=ensGene&position=default" + target=_blank>(galGal6)</a></li> + <li>Chimp <a href="../cgi-bin/hgTrackUi?db=panTro5&g=ensGene&position=default" + target=_blank>(panTro5)</a></li> + <li>Chinese hamster <a href="../cgi-bin/hgTrackUi?db=criGriChoV1&g=ensGene&position=default" + target=_blank>(criGriChoV1)</a></li> + <li>Chinese hamster <a href="../cgi-bin/hgTrackUi?db=criGriChoV2&g=ensGene&position=default" + target=_blank>(criGriChoV2)</a></li> + <li>Coelacanth <a href="../cgi-bin/hgTrackUi?db=latCha1&g=ensGene&position=default" + target=_blank>(latCha1)</a></li> + <li>Cow <a href="../cgi-bin/hgTrackUi?db=bosTau9&g=ensGene&position=default" + target=_blank>(bosTau9)</a></li> + <li>D. melanogaster <a href="../cgi-bin/hgTrackUi?db=dm6&g=ensGene&position=default" + target=_blank>(dm6)</a></li> + </ul></div> + <div class="col-sm-4"> + <ul> + <li>Dog <a href="../cgi-bin/hgTrackUi?db=canFam3&g=ensGene&position=default" + target=_blank>(canFam3)</a></li> + <li>Dog <a href="../cgi-bin/hgTrackUi?db=canFam5&g=ensGene&position=default" + target=_blank>(canFam5)</a></li> + <li>Elephant <a href="../cgi-bin/hgTrackUi?db=loxAfr3&g=ensGene&position=default" + target=_blank>(loxAfr3)</a></li> + <li>Elephant shark <a href="../cgi-bin/hgTrackUi?db=calMil1&g=ensGene&position=default" + target=_blank>(calMil1)</a></li> + <li>Ferret <a href="../cgi-bin/hgTrackUi?db=musFur1&g=ensGene&position=default" + target=_blank>(musFur1)</a></li> + <li>Gibbon <a href="../cgi-bin/hgTrackUi?db=nomLeu3&g=ensGene&position=default" + target=_blank>(nomLeu3)</a></li> + <li>Golden snub-nosed monkey <a href="../cgi-bin/hgTrackUi?db=rhiRox1&g=ensGene&position=default" + target=_blank>(rhiRox1)</a></li> + <li>Gorilla <a href="../cgi-bin/hgTrackUi?db=gorGor4&g=ensGene&position=default" + target=_blank>(gorGor4)</a></li> + <li>Green monkey <a href="../cgi-bin/hgTrackUi?db=chlSab2&g=ensGene&position=default" + target=_blank>(chlSab2)</a></li> + <li>Guinea pig <a href="../cgi-bin/hgTrackUi?db=cavPor3&g=ensGene&position=default" + target=_blank>(cavPor3)</a></li> + <li>Horse <a href="../cgi-bin/hgTrackUi?db=equCab3&g=ensGene&position=default" + target=_blank>(equCab3)</a></li> + <li>Lamprey <a href="../cgi-bin/hgTrackUi?db=petMar2&g=ensGene&position=default" + target=_blank>(petMar2)</a></li> + <li>Lizard <a href="../cgi-bin/hgTrackUi?db=anoCar2&g=ensGene&position=default" + target=_blank>(anoCar2)</a></li> + <li>Medium ground finch <a href="../cgi-bin/hgTrackUi?db=geoFor1&g=ensGene&position=default" + target=_blank>(geoFor1)</a></li> + <li>Microbat <a href="../cgi-bin/hgTrackUi?db=myoLuc2&g=ensGene&position=default" + target=_blank>(myoLuc2)</a></li> + <li>Mouse <a href="../cgi-bin/hgTrackUi?db=mm39&g=ensGene&position=default" + target=_blank>(mm39)</a></li> + </ul></div> + <div class="col-sm-4"> + <ul> + <li>Naked mole-rat <a href="../cgi-bin/hgTrackUi?db=hetGla1&g=ensGene&position=default" + target=_blank>(hetGla1)</a></li> + <li>Naked mole-rat <a href="../cgi-bin/hgTrackUi?db=hetGla2&g=ensGene&position=default" + target=_blank>(hetGla2)</a></li> + <li>Orangutan <a href="../cgi-bin/hgTrackUi?db=ponAbe2&g=ensGene&position=default" + target=_blank>(ponAbe2)</a></li> + <li>Panda <a href="../cgi-bin/hgTrackUi?db=ailMel1&g=ensGene&position=default" + target=_blank>(ailMel1)</a></li> + <li>Pig <a href="../cgi-bin/hgTrackUi?db=susScr11&g=ensGene&position=default" + target=_blank>(susScr11)</a></li> + <li>Rabbit <a href="../cgi-bin/hgTrackUi?db=oryCun2&g=ensGene&position=default" + target=_blank>(oryCun2)</a></li> + <li>Rat <a href="../cgi-bin/hgTrackUi?db=rn6&g=ensGene&position=default" + target=_blank>(rn6)</a></li> + <li>Rhesus <a href="../cgi-bin/hgTrackUi?db=rheMac10&g=ensGene&position=default" + target=_blank>(rheMac10)</a></li> + <li>S. cerevisiae <a href="../cgi-bin/hgTrackUi?db=sacCer3&g=ensGene&position=default" + target=_blank>(sacCer3)</a></li> + <li>Sheep <a href="../cgi-bin/hgTrackUi?db=oviAri3&g=ensGene&position=default" + target=_blank>(oviAri3)</a></li> + <li>Squirrel <a href="../cgi-bin/hgTrackUi?db=speTri2&g=ensGene&position=default" + target=_blank>(speTri2)</a></li> + <li>Squirrel monkey <a href="../cgi-bin/hgTrackUi?db=saiBol1&g=ensGene&position=default" + target=_blank>(saiBol1)</a></li> + <li>Tarsier <a href="../cgi-bin/hgTrackUi?db=tarSyr2&g=ensGene&position=default" + target=_blank>(tarSyr2)</a></li> + <li>Tetraodon <a href="../cgi-bin/hgTrackUi?db=tetNig2&g=ensGene&position=default" + target=_blank>(tetNig2)</a></li> + <li>Turkey <a href="../cgi-bin/hgTrackUi?db=melGal5&g=ensGene&position=default" + target=_blank>(melGal5)</a></li> + <li>X. tropicalis <a href="../cgi-bin/hgTrackUi?db=xenTro9&g=ensGene&position=default" + target=_blank>(xenTro9)</a></li> + </ul></div> +</div></div> +<p> +Thanks to Ensembl for providing these annotations, as well as +Hiram Clawson and Lou Nassar of the UCSC Genome Browser group for their +work in creating and releasing these tracks.</p> + <a name="061021"></a> <h2>Jun. 10, 2021 Updated data for NCBI RefSeq tracks for human assembly hg19</h2> <p> We are pleased to announce the updated <a href="https://www.ncbi.nlm.nih.gov/genome/annotation_euk/ Homo_sapiens/109.20190905/#:~:text=NCBI%20Homo%20sapiens%20Updated%20Annotation%20Release% 20105.20201022&text=Updated%20Annotation%20Release%20105.20201022%20is,to%20update%20the%20annotated%20features" target="_blank">NCBI RefSeq Annotation Release 105.20201022</a> tracks for the <a href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=refSeqComposite&position=default">hg19/GRCh37</a> assembly. For all of these tracks, the alignments and coordinates are provided by RefSeq. These tracks are organized in a composite track that includes:</p> <ul> <li><b>RefSeq All</b> – all annotations from the curated and predicted sets <li><b>RefSeq Curated</b> – curated annotations beginning with NM, NR, or NP <li><b>RefSeq Other</b> – all other RefSeq annotations not included in RefSeq All <li><b>RefSeq Alignments</b> – alignments of transcripts to the genome provided by RefSeq