ASTD: The Alternative Splicing and Transcript Diversity database.
The Alternative Splicing and Transcript Diversity database (ASTD) gives access to a vast collection of alternative transcripts that integrate transcription initiation, polyadenylation and splicing variant data. Alternative transcripts are derived from the mapping of transcribed sequences to the complete human, mouse and rat genomes using an extension of the computational pipeline developed for the ASD (Alternative Splicing Database) and ATD (Alternative Transcript Diversity) databases, which are now superseded by ASTD. For the human genome, ASTD identifies splicing variants, transcription initiation variants and polyadenylation variants in 68%, 68% and 62% of the gene set, respectively, consistent with current estimates for transcription variation. Users can access ASTD through a variety of browsing and query tools, including expression state-based queries for the identification of tissue-specific isoforms. Participating laboratories have experimentally validated a subset of ASTD-predicted alternative splice forms and alternative polyadenylation forms that were not previously reported. The ASTD database can be accessed at http://www.ebi.ac.uk/astd.
Koscielny
Gautier
G
European Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
Le Texier
Vincent
V
Gopalakrishnan
Chellappa
C
Kumanduri
Vasudev
V
Riethoven
Jean-Jack
JJ
Nardone
Francesco
F
Stanley
Eleanor
E
Fallsehr
Christine
C
Hofmann
Oliver
O
Kull
Meelis
M
Harrington
Eoghan
E
Boué
Stéphanie
S
Eyras
Eduardo
E
Plass
Mireya
M
Lopez
Fabrice
F
Ritchie
William
W
Moucadel
Virginie
V
Ara
Takeshi
T
Pospisil
Heike
H
Herrmann
Alexander
A
G Reich
Jens
J
Guigó
Roderic
R
Bork
Peer
P
Doeberitz
Magnus von Knebel
Mv
Vilo
Jaak
J
Hide
Winston
W
Apweiler
Rolf
R
Thanaraj
Thangavel Alphonse
TA
Gautheret
Daniel
D
D017398:Alternative Splicing / Q000235:genetics*; D000818:Animals; D003628:Database Management Systems; D030541:Databases, Genetic; D006801:Humans; D016247:Information Storage and Retrieval / Q000379:methods; D051379:Mice; D051381:Rats; D015203:Reproducibility of Results; D012984:Software; D014584:User-Computer Interface