VISTA news archive

April 2007

New alignments for the March 2006 Human assembly are available.

Recently released UCSC Genes annotation is added to the comparative tracks.

December 2006

Added whole-genome multiple alignment of Human May 2004 -- Dog May 2005 -- Mouse Aug. 2005 -- Rat June 2003 -- Chicken Feb. 2004

November 2006

VISTA training session at the American Heart Association Meeting, November 12

October 2006

Lawrence Berkeley National Laboratory and OpenHelix announce comprehensive training programs for VISTA. Details.

August 2006

New tool added:

You can now submit two microbial genomes up to 10Mb each for alignment and comparative analysis.

VISTA Browser Updates:

SNPs from dbSNP build 123, are now shown above a conservation curve. Details.

PolyPhen predictions for SNPs in coding exons are added to SNP info displayed in a base-pair alignment window. Details.

April 2006

VISTA portal is linked to VISTA Enhancer Browser, a central resource for experimentally tested extremely conserved human noncoding fragments for gene enhancer activity in transgenic mice.

New features of VISTA Browser: a browsable base-pair alignment window and display of SNPs. Details.

Added whole genome alignments of:

• Human May 2004 -- Mouse Aug. 2005, Dog May 2005

December 2005

Added whole genome alignments of:

• Human May 2004 -- Zebrafish June 2004

• C. intestinalis Mar. 2005 -- C. savignyi Sep. 2005

October 2005

rVISTA is now using the TRANSFAC Professional 9.2 (June 30, 2005) library.

September 2005

Added whole genome alignments of:

• Human May 2004 -- Fugu v.4

• Fugu v. 4 -- Frog August 2005, Zebrafish June 2004, Tetraodon Feb. 2004

August 2005

Added whole genome alignments of:

• Poplar v. 1.1 -- Ara. March 2004, Rice v. 3, Poplar duplicates

• Human May 2004 -- Frog August 2005, Opossum Oct. 2004

July 2005

Added whole genome alignment of:

• Human May 2004 -- Cow Sep. 2004

• D. melanogaster Apr. 2004 -- D. simulans Apr. 2005

June 2005

Added whole genome alignment of:

• Human May 2004 -- Dog July 2004

May 2005

Added whole genome alignment of Human May 2004 vs. Chicken February 2004, Rat June 2003.

April 2005

RankVISTA regions are now automatically computed for all user requests.

March 2005

New Tool: Whole Genome rVISTA^Beta

Added whole genome alignments of Drosophila Melanogaster Apr. 2004 vs D. pseudoobscura, D. yakuba, D. ananassae, D. mojavensis, D. virilis, and D. erecta. Genscan and RefSeq annotations from UCSC are provided where available.

February 2005

mVista and rVista servers have been upgraded to provide dynamic visualization, faster processing times, and a choice of alignment programs -- you can now choose from AVID, LAGAN, or Shuffle-LAGAN. Also note the new URL for our server, http://genome.lbl.gov/vista

Added whole genome alignments:

• Arabidopsis March 2004 - Rice v. 1.0

November 2004

Added whole genome alignments:

• Arabidopsis March 2004 -- Poplar

• Frog Oct 2004 - Human May 2004

October 2004

We no longer support the first version of the Vista Browser. Please use the current browser to see whole genome alignments of multiple organisms.

September 2004

Added whole genome alignments:

• Human May 2004 - Mouse May 2004

• Arabidopsis May 2003 - Poplar

• D. melanogaster - D. virilis

• D. melanogaster - D. mojavensis

• D. melanogaster - D. ananassae

• D. melanogaster - D. yakuba

August 2004

Added whole genome alignment:

• Human-Fugu

June 2004

Added whole genome alignments:

• Human-Xenopus Tropicalis (frog)

     JGI browser

• Two species of phytophtora: P.sojae-P.ramorum

• Two species of Ciona: C. intestinalis and C. sojae

April 2004

Added whole genome alignments:

• Human-Chimpanzee

• Human-Chicken

• D.melanogaster-Honey Bee

March 2004

VISTA site has been completely redesigned for clarity and ease of use, as well as improved integration of the various VISTA tools. We welcome your comments.

February 2004

Whole-genome alignments of new groups of organisms are available. In addition to the three-way alignment of human/mouse/rat and the pairwise alignment of D.melanogaster/D.pseudoobscura you can now access the pairwise alignments of C.elegans/ C.briggsae and Arabidopsis/Rice through our VISTA Browser.