Date: Fri, 29 Mar 2024 09:51:47 +0000 (UTC) Message-ID: <1493974727.75.1711705907165@ip-172-31-34-217.us-west-2.compute.internal> Subject: Exported From Confluence MIME-Version: 1.0 Content-Type: multipart/related; boundary="----=_Part_74_1081145994.1711705907160" ------=_Part_74_1081145994.1711705907160 Content-Type: text/html; charset=UTF-8 Content-Transfer-Encoding: quoted-printable Content-Location: file:///C:/exported.html
May 11, 2022. We are pleased to announce the PhyloGenes version 4.0 release. The gene families= and gene trees are from the PANTHER 17.0= release. In PhyloGenes only genes from plan= t genomes and selected non-plant model organisms were incl= uded. Genes from other genomes in the PANTHER build have been removed (prun= ed). More stats
Updated GO annotations: Experimental gene functio=
n annotations were extracted from the Gene Ontology Consortium (files creat=
ed on 2022-01-13). Phylogenetic inferred gene function annotations were ext=
racted from the
Improved user interface and user experience: We h= ave split out functionality for Downloads from Tools into two separate menu= s to make these actions clearer and more easily accessible. We have also in= troduced wording to suggest pruning a tree to a subset of species when acce= ssing trees that contain more than 500 sequences. The pruned view will give= each user a customized view of their gene family and a faster page load ti= me.
September 21, 2021. We are pleased to=
announce the PhyloGenes version 3.2
Updated GO annotations: Experimental = gene function data was extracted from the Gene Ontology Consortium (files c= reated on 2021-07-19). Phylogenetically-inferred gene function data was ext= racted from the PAINT project (files created on = 2021-07-19).
Improved user interface and user experience: = ;This release features enhanced technology behind our gene family pa= ges. Page loading and scrolling are now faster and smoother for large gene = trees that also have extensive number of GO annotations to the family membe= rs. For an even better site experience, we recommend that users use the on-the-fly tree pruning and= gene table customization options. Customization not only speeds up the= page loading time but also allows you to focus on the species of interest = and the GO functional aspects most relevant to your study.
New! Publications now available!: Ext= ensive publication lists for individual family members can now be accessed = via hyperlinks from the gene information table. The publication counts are = retrieved from UniProt&nb= sp;via their API and will be updated on a quarterly basis.
May 18, 2021. We are pleased to announce the PhyloGenes ver= sion 3.1 release. The gene families and gene trees are from t= he PANTHER 16.0 relea= se. In PhyloGenes only genes from plant genomes and selected non-plant model organisms = were included. Genes from other genomes in the PANTHER build have been remo= ved (pruned). More stats
Experimental gene function annotations were extracted from the Gene Onto= logy Consortium (files created on 2021-04-01). Phylogenetic inferred gene f= unction annotations were extracted from the = GO PAINT project (files created on = 2021-04-01).
External gene links were added:
- maizeGDB (for maize genes)
- SoyBase (for soybean genes)
- SGN (for tomato genes)
- GrainGenes (for wheat and barley genes)
- TAIR (for Arabidopsis genes)
More external links will be added over time.
February 11, 2021. We are pleased to announce the
Experimental gene function data was extracted from the Gene Ontology Con= sortium (files created on 2020-12-07). Phylogenetic inferred gene function = data was extracted from the GO PAINT project= (files created on 2021-01-04).
December 4, 2020. We are pleased to announce the PhyloGenes version 2.2 = release. The gene families and gene trees are from the PANTHER 15.0 release.&nb= sp;In PhyloGenes only genes from plant genomes and selected non-plant model organisms were inclu= ded. Genes from other genomes in the PANTHER build have been removed (prune= d). More stats
Experimental gene function data was extracted from the Gene Ontology Con= sortium (files created on 2020-04-28). Phylogenetic inferred gene function = data was extracted from the PAINT project (files created on 2020-05-21).
What=E2=80=99s new:
August 14, 2020. We are pleased to announce the PhyloGenes version 2.1 r= elease. The gene families and gene trees are from the PANTHER 15.0 release.&nb= sp;In PhyloGenes only genes from plant genomes and selected non-plant model organisms were inclu= ded. Genes from other genomes in the PANTHER build have been removed (prune= d). More stats
Experimental gene function data was extracted from the Gene Ontology Con= sortium (files created on 2020-04-28). Phylogenetic inferred gene function = data was extracted from the PAINT project (files created on 2020-05-21).
What=E2=80=99s new:
March 4, 2020. We are pleased to announce the PhyloGenes version 2.0.&nb= sp; A total of 8512 gene families are included in this release. T= he gene families and gene trees are pruned versions of PANTHER 15.0 release. They = contain only genes from plant genome= s and selected non-plant model organisms. Genes from other genomes in t= he PANTHER build have been removed (pruned). Experimental gene functio= n data are extracted from the files available from the Gene Ontology Annotations (GOA) pr= oject at the EBI (file generated on 2020-02-07). More stats= a>
What=E2=80=99s new:
We are pleased to announce the PhyloGenes version 1.2 release (released = on November 8, 2019). The gene family build has not changed in this r= elease. The gene families and gene trees are pruned versions of = PANTHER 14.1 r= elease. They contain only genes from= selected plant genomes= and 10 non-plant model organisms. Genes from other genomes in the PANTHER build have been removed (prun= ed). More stats
What's new
We enhanced the alignment between trees and their adjacent gene informat= ion tables. Leaf nodes in a tree now stay aligned with their corresponding = gene rows in the gene table when resizing to a narrow browser window. We al= so fixed a rare data bug where some members were missing from the DUF641 ge= ne family tree. If you notice anything else wrong please let us know!
We are pleased to announce the PhyloGenes version 1.1 release (released =
on August 1, 2019). A total of 8171 gene families are included =
in this release. The gene families and gene trees are pruned versions of
Highlights of new features of PhyloGenes gene tree display:
We are pleased to announce the initial launch of Phylogenes.org and = the PhyloGenes version 1.0 release (released on April 2, 2019). A tot= al of 8173 gene families are i= ncluded in this release. The gene families and gene trees are pruned versio= ns of PANTHER 14.0 release. They contain only genes from selected plant genomes and 10 non= -plant model organisms. Genes from other genomes in the PANTHER build h= ave been removed (pruned). Experimental gene function data are extra= cted from the files available from the Gene Ontology Annotati= ons (GOA) project at the EBI (file generated on 2018-12-03). More stats