What's New on the NAGRP Animal Genome Web Site

 

New or modified pages in the last 30 days

  1. May 23, 2013 (10:33): http://www.animalgenome.org/community/mail/view
  2. May 23, 2013 (10:16): http://www.animalgenome.org/blast
  3. May 23, 2013 (06:03): http://www.animalgenome.org/news (2)
  4. May 22, 2013 (14:04): http://www.animalgenome.org/QTLdb (7)
  5. May 22, 2013 (10:59): http://www.animalgenome.org/community
  6. May 20, 2013 (11:01): http://www.animalgenome.org/index (8)
  7. May 20, 2013 (11:00): http://www.animalgenome.org/share/misc/mtg_links
  8. May 18, 2013 (00:42): http://www.animalgenome.org/bioinfo/tools/expeditor (8)
  9. May 11, 2013 (21:47): http://www.animalgenome.org/VCmap/index (17)
  10. May 11, 2013 (14:48): http://www.animalgenome.org/VCmap/manual/v3/video
  11. May 10, 2013 (17:14): http://www.animalgenome.org/VCmap/manual/v3/index (2)
  12. May 07, 2013 (12:35): http://www.animalgenome.org/aquaculture/resources/index (18)
  13. May 07, 2013 (12:34): http://www.animalgenome.org/aquaculture/database/index
  14. May 07, 2013 (12:32): http://www.animalgenome.org/aquaculture/salmonids/index
  15. May 07, 2013 (12:25): http://www.animalgenome.org/cattle/index
  16. May 07, 2013 (12:23): http://www.animalgenome.org/pig/index
  17. May 07, 2013 (12:22): http://www.animalgenome.org/sheep/index
  18. May 06, 2013 (09:39): http://www.animalgenome.org/community/angenmap/index (3)
  19. May 02, 2013 (10:42): http://www.animalgenome.org/community/angenmap/guide (6)
  20. Apr 29, 2013 (12:20): http://www.animalgenome.org/QTLdb/faq (6)
  21. Apr 28, 2013 (17:24): http://www.animalgenome.org/QTLdb/notes (6)
  22. Apr 28, 2013 (10:41): http://www.animalgenome.org/../community/workshops/index (2)
  23. Apr 26, 2013 (16:25): http://www.animalgenome.org/bioinfo/index (2)
  24. Apr 26, 2013 (13:25): http://www.animalgenome.org/bioinfo/services/helpdesk (2)
  25. Apr 26, 2013 (09:49): http://www.animalgenome.org/cattle/community/links
  26. Apr 26, 2013 (09:39): http://www.animalgenome.org/bioinfo/community/links
  27. Apr 26, 2013 (09:39): http://www.animalgenome.org/bioinfo/community/link2
  28. Apr 26, 2013 (09:36): http://www.animalgenome.org/community/links
  29. Apr 25, 2013 (14:03): http://www.animalgenome.org/pig/projects/oligoAnnot/index (3)
  30. Apr 23, 2013 (17:37): http://www.animalgenome.org/gbrowse/index (4)
* Red number in parenthesis indicates multiple updates in the area represented by that URL [May 23, 2013-May-23 (12:03PM CDT)]
Major updates / permanent additions:
  • What's new on the NAGRP animal genome web site (#2, 2013)
    		•  New, Apr 24, 2013
  • Thanks to Paris Veltsos of the University of St Andrews, a copy of pre-compiled CRI-MAP for MacOSX platform is made available on the CRI-MAP Improvement web site.
    		•  New, Apr 21, 2013
  • Thanks to Bertrand Servin and coauthors of "High-resolution autosomal radiation hybrid maps of the pig genome and their contribution to the genome sequence assembly" (BMC Genomics 2012, 13:585) that provided 14,907 RH markers to serve as anchors between pig linkage/genome maps. This helps to improve the map resolution when transfer QTL to the latest pig genome build 10.2.
    		•  New, Apr 01, 2013
  • New usage on the NAGRP file-share platform: Upload your sequence file to request batch blast
    		•  New, Mar 08, 2013
  • New catfish RNA-Seq assembly data shared from John Liu group at Auburn University
    		•  New, Mar 07, 2013
  • A new function on AnGenMap - Mail Digest - is available
    		•  New, Mar 01, 2013
  • New addition to the Animal QTLdb data alliances is Data Citation Index (DCI) on the Web of Knowledge platform from Thomson Reuters. DCI provides a single point of access to quality research data from repositories across disciplines around the world
    		•  New, Feb 26, 2013
  • An Epigenetics Discussion Group mailing listserv and web site is set up
    		•  New, Feb 21, 2013
  • GBrowse is setup for CDS/mRNA predictions on 1670+ Oyster sequences
    		•  New, Feb 12, 2013
  • A new site for NRSP-8 community documents, reports and reach out
    		•  New, Jan 29, 2013
  • A mailing listserv and web site is set up for the OMIA Support Group
    		•  New, Jan 30, 2013
  • Annual reports, Newsletters, and NRSP-8 2014-2018 Rewrites are updated on Aquaculture, Cattle, Pig, Sheep, and Bioinformatics Coordination web sites
    		•  New, Jan 18, 2013
  • Updated chicken 60K SNP mapping data is available from Hans Cheng of ARS, USDA
    		•  New, Jan 16, 2013
  • What's new on the NAGRP animal genome web site (#1, 2013)
    		•  New, Jan 2, 2013
  • dbSNP "rs" and "ss" numbers for Pig 60K SNPs are available on the NAGRP Data Repository
    		•  New, Dec. 31, 2012
  • More data fields are added to the Animal QTLdb data download files (e.g. "test models", "significant levels", and "map types") so that users can sort them out on their own.
    		•  New, Nov 13, 2012
  • Made available is supplementary data for "Genome-Wide Association Study Implicates Testis-Sperm Specific FKBP6 as a Susceptibility Locus for Impaired Acrosome Reaction in Stallions" by Terje Raudsepp, Molly E. McCue, Pranab J. Das, et al. published on PLOS Genetics (PGENETICS-D-12-01716R1)
    		•  New, Nov 5, 2012
  • A GBrowse instance is set up to display sheep BACs and 50k SNPs genome alignments
    		•  New, Oct 26, 2012
  • VCMap Video Tutorials are online
    		•  New, Oct 14, 2012
  • The sheep genome assembly 3.1 data is made available in fasta and gff formats
    		•  New, Oct 09, 2012
  • The sheep genome assembly 3.1 is added to the NAGRP blast server for blast
    		•  New, Oct 09, 2012
  • A new version of the improved CRI-MAP software is available from Jill Maddox.
    		•  Update, Sep 13, 2012
  • Available OMIA gene alignments are added as new GBrowse tracks for cattle, chicken, horse, and pigs (Thanks to Dr. Frank Nicholas of The University of Sydney for providing the data)
    		•  New, Sep 12, 2012
  • What's new on the NAGRP animal genome web site (#3, 2012)
    		•  New, Aug 24, 2012
  • Several new information are posted on the Aquaculture Genome Projects web site
    		•  Update, Aug. 10, 2012
  • The 2013 PAG meeting hotel room share database is avilable to accept input now
    		•  Update, Aug. 7, 2012
  • QTLdb: Search for animal breeds associated QTLs is possible (experimenting)
    		•  New, Jul 9, 2012
  • VCmap (version 3.0) User's Manual is online
    		•  New, Jul 3, 2012
  • New pig build 10.2 annotations are ported to Biomart for downloads
    		•  Update, Jun 8, 2012
  • 4,730 human refseq sequences were blast mapped to pig build 10.2.
    		•  New, Jun 4, 2012
  • QTLdb: A QTLdb Curators Listserv List is set up to facilitate curators activities
    		•  New, June 1, 2012
  • QTLdb: Automated PubMed search now sents weekly notifications to all curators when new QTL publications are found
    		•  New, May 25, 2012
  • QTLdb: A new trait hierarchy navigator is available for users to browse for QTL
    		•  New, May 25, 2012
  • The developmental Pig Genome Database is open to public for trial use
    		•  New, May 16, 2012
  • Pig OligoArray elements are blast mapped to pig genome build 10.2
    		•  New, Apr 30, 2012
  • What's new on the NAGRP animal genome web site (#2, 2012)
    		•  New, Apr 23, 2012
  • New cattle 770k HD SNP and 64k SNP chip annotations are shared by James Koltes.
    		•  New, Mar 25, 2012
  • QTLdb: The QTL map locations conversion (cM to bp) algorithms is improved
    		•  Update, Mar 15, 2012
  • QTLdb: Users can now search multiple QTL for targeted alignments and meta-plots
    		•  New, Feb 28, 2012
  • The CRI-MAP Improvement Consortium web site "downloads" area is upgraded for users to upload and share their contributions.
    		•  New, Feb 21, 2012
  • A "SheepModels" listserv mailing list is set up
    		•  New, Feb 08, 2012
  • Affy array elements are blast mapped to pig genome build 10.2
    		•  New, Feb 02, 2012
  • Qinghua Nie (nqinghua@iastate.edu) posted a data file to share with the chicken genome community: Multisites_contigs_unigenes.xlsx
    		•  New, Feb 01, 2012
  • More defined search phrase can now be used for better targeted literature search within QTLdb
    		•  New, Feb 1, 2012
  • NRSP-8 Aquagenomics, Pig genomics, and Bioinformatics Coordination annual reports are posted. Check respective web pages for details.
    		•  New, Jan 16, 2012
  • Web site modified to reflect the change of NAGRP "Sheep" to "Sheep/Goat" Genome Coordination Program
    		•  New, Jan 15, 2012
  • QTLdb: QTL trait hierarchy browse are improved to allow better QTL data and reference overview by trait types as well as by traits
    		•  New, Jan 14, 2012
  • What's new on the NAGRP animal genome web site (#1, 2012)
    		•  New, Jan 05, 2012
  • New function added: easy reference list for all QTL within a chromosomal view window
    		•  New, Dec 18, 2011
  • Three more items in AnGenMap FAQ: How to write effective emails on AnGenMap, etc.
    		•  New, Dec 6, 2011
  • 770K ILumina HD SNPs structural genomics analysis data posted by James Reecy
    		•  New, Dec 2, 2011
  • AUGUSTUS pig gene predictions by Henrik Hornshoj et al are placed on GBrowse
    		•  New, Dec 1, 2011
  • Genome maps can be ported to QTLdb for Mbp map based QTL/eQTL/association (GWAS) data
    		•  New, Nov 28, 2011
  • ATO/QTL traits are now linked to VT/PT/CMO to stadardize the trait nomenclature
    		•  New, Nov 14, 2011
  • The cattle 770K High Density SNPs "rs/ss" dbSNP IDs are posted by Robert Schnabel.
    		•  New, Nov 6, 2011
  • Annotated cattle genes on UMD 3.1 is available on NAGRP site Biomart
    		•  New, Oct 30, 2011
  • New GBrowse tracks are added for 8.4M cattle SNPs and 3M chicken SNPs from dbSNP.
    		•  New, Oct 25, 2011
  • What's new on the NAGRP animal genome web site (#3, 2011)
    		•  New, Sep 23, 2011
  • New item in AnGenMap FAQ: platform to share non-plain-text files for AnGenMap emails.
    		•  New, Aug 31, 2011
  • SNPlotz: Horse 54k SNP chip data is added to the SNPlotz
    		•  Update, Aug 16, 2011
  • Horse GBrowse tracks are updated with 54k/74k SNPs, 3k RH and 10k STS markers data.
    		•  New, Jul 11, 2011
  • A developmental pig genome database is created; On-going progress are being made.
    		•  New, Jun 6, 2011
  • Experimental Biomart is setup on AnimalGenome.ORG to serve multiple species
    		•  New, May 19, 2011
  • The BEAP program is modified to assist users for easy setup. See its manual for details.
    		•  Update, May 11, 2011
  • The NAGRP data repository is expanded to host supplementary data for publications.
    		•  New, May 8, 2011
  • Updated pig genome assembly 10 is available for blast on NAGRP server
    		•  Update, Apr 28, 2011
  • What's new on the NAGRP animal genome web site (#2, 2011)
    		•  New, Apr 23, 2011
  • Cattle QTL alignment for UMD 3.1 build are available for download and visulization in GBrowse
    		•  New, Apr 21, 2011
  • New GBrowse track is added for the Chicken 60K SNP chip aligning with genes/QTL/etc
    		•  New, Apr 20, 2011
  • SNPlotz: Improved to allow user keep own upload files for customized plot/re-analysis
    		•  New, Apr 6, 2010
  • QTLdb chromosomal viewer is improved to include a list of traits for browsing
    		•  New, Mar 8, 2011
  • Expeditor tools are updated to meet the new Ensembl gene structure view
    		•  Update, Mar 2, 2011
  • Rainbow trout 2nd generation genetic map is updated with 1465 markers
    		•  Update, Feb 24, 2011
  • Aquaculture genome database links are updated
    		•  New, Feb 1, 2011
  • Catfish pseudo-chromosomes are on GBrowse
    		•  New, Jan 12, 2011
  • What's new on the NAGRP animal genome web site (#1, 2011)
    		•  New, Jan 10, 2011
  • A web form is set up to serve as a window to the Site Helpdesk
    		•  New, Jan 9, 2010
  • A platform for NAGRP members to share files individually or with the community
    		•  New, Jan 7, 2010
  • New SNP datatypes are added to the GFF Data Formattor tool
    		•  Updated, Dec 21, 2010
  • Pig genome preliminary assembly 9.2 is in the GBrowse to align with QTL and SNPs
    		•  New, Dec 15, 2010
  • Cattle UMD 3.1 assembly is included in the GBrowse
    		•  New, Dec 10, 2010
  • Cytogenetic G-banded chromosome ideogram are added to QTLdb maps for all species
    		•  New, Nov 16, 2010
  • QTL data are now exported also in BED format for download
    		•  New, Nov 4, 2010
  • Two QTL meta-plot tools are added to help users for their QTL meta-analysis.
    		•  New, Oct 31, 2010
  • NAGRP Data Repository for Community Members to Share Their Genome Analysis Data
    		•  New, Oct 23, 2010
  • Sheep QTLdb is set up, joining the the Animal QTLdb family with three more other species
    		•  New, Oct 01, 2010
  • What's new on NAGRP animal genome web site (#3, 2010)
    		•  New, Sep 27, 2010
  • Pig genome assembly 10 is released and available on the NAGRP bioinformatics blast server
    		•  New, Sep 22, 2010
  • Release 12 of the Animal QTLdb has been made public, with addition of 1,065 new QTL
    		•  Updated, Sep 13, 2010
  • Rainbow trout transcriptome characterized and put on NAGRP Blast Server
    		•  New, Jul 15, 2010
  • Blast Evaluate Pig Assembly 9b
    		•  New, May 30, 2010
  • The Animal QTLdb FAQ are updated to explain that the QTL_ID is stable
    		•  Updated, May 16, 2010
  • An improvement is made to the CateGOrizer to show the child GO:ids on each class
    		•  Update, May 6, 2010
  • What's new on NAGRP animal genome web site (#2, 2010)
    		•  New, Apr 27, 2010
  • Release 11 of the Animal QTLdb has been made public, with addition of 1,643 new QTL
    		•  Updated, Apr 23, 2010
  • The CateGOrizer is improved to better process very large data set
    		•  Update, Apr 7, 2010
  • Animal QTLdb frequently asked questions is updated with new items
    		•  Updated, Mar 23, 2010
  • QTL data are now exported also in SAM format for free download
    		•  New, Mar 5, 2010
  • GFF3 File formatter: A generic web tool to convert own mapping data into GFF3 format
    		•  New, Feb 20, 2010
  • QTL data link to NCBI Entrez Gene Database is automatically synchronized
    		•  New, Jan 30, 2010
  • What's new on NAGRP animal genome web site (#1, 2010)
    		•  New, Jan 04, 2009
  • Release 10 of the Animal QTLdb has been made public, with addition of 1,281 new QTL
    		•  Updated, Dec 30, 2009
  • Pig genome assembly v.9 on GBrowse: Sequenced BACs, Predicted genes, QTL, etc.
    		•  New, Dec 28, 2009
  • The current (developing) vertebrate trait ontology can now be viewed via AmiGO
    		•  New, Dec 11, 2009
  • SNPlotz: Improved for users to use Gensel or Illumina SNP IDs in their data set
    		•  Update, Nov 24, 2009
  • The CateGOrizer is improved to allow users to add their annotations to a data set
    		•  Update, Nov 2, 2009
  • Animal QTLdb: Mechanism is established to port data to NCBI Gene Database
    		•  New, Oct 22, 2009
  • Striped Bass Ovarian Transcriptome Sequence Contigs Database is set up
    		•  New, Oct 13, 2009
  • What's new on NAGRP animal genome web site (#3, 2009)
    		•  New, Sep 22, 2009
  • Animal QTLdb: Release 9 with significant more data added
    		•  Update, Sep 15, 2009
  • NEW: Virtual Comparative Map (VCMap): release #1
    		•  New, Aug 23, 2009
  • SNPlotz: A genome plot tool for SNP association studies
    		•  New, Jun 14, 2009
  • The rainbow trout 2nd generation genetic map is put on-line
    		•  New, May 30, 2009
  • The Cow Hits the News
    		•  New, Apr 24, 2009
  • What's new on NAGRP animal genome web site (#2, 2009)
    		•  New, Apr 20, 2009
  • NCBI horse genome information are ported to GBrowse for alignment display
    		•  New, Mar 31, 2009
  • Partial pig genome information from Sanger are updated into GBrowse
    		•  New, Mar 28, 2009
  • Bovine 50K SNP chip elements are aligned with cattle genome with GBrowse
    		•  New, Feb 27, 2009
  • Animal QTLdb data may be downloaded in .gff format for external analysis such as UCSC
    		•  New, Jan 31, 2009
  • What's new on NAGRP animal genome web site (#1, 2009)
    		•  New, Jan 06, 2009
  • QTLdb species main pages and FAQ page are updated to reflect recently added functions
    		•  New, Jan 06, 2009
  • Data download is made possible on Animal QTLdb
    		•  New, Dec 15, 2008
  • AmiGO is setup for Animal Trait Ontology browse and search
    		•  New, Nov 18, 2008
    "What's New" Items on Archive: [ (1998-2003) | (2003-2008) ]
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