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H-DBAS: human-transcriptome database for alternative splicing: update 2010
2009
Nucleic Acids Research
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H-DBAS (http://h-invitational.jp/h-dbas/) is a specialized database for human alternative splicing (AS) based on H-Invitational full-length cDNAs. ...
In this update, for better annotations of AS events, we correlated RNA-Seq tag information to the AS exons and splice junctions. ...
Finally, we are grateful to all those who annotated the full-length human cDNAs at the H-Invitational and H-Invitational two conferences. ...
doi:10.1093/nar/gkp984
pmid:19969536
pmcid:PMC2808982
fatcat:gm4nmnbszbgmvpixzcjyc3nlri
A comprehensive survey of human polymorphisms at conserved splice dinucleotides and its evolutionary relationship with alternative splicing
2010
BMC Evolutionary Biology
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We therefore surveyed validated SNPs in the database dbSNP located at splice dinucleotides of all human genes that are defined by the H-Invitational Database. ...
2010, 10:122 ...
We also thank all the other members of the Integrated Database and Systems Biology Team of BIRC, AIST and former members of the Integrated Database Team of JBIRC for technical assistance and for providing ...
doi:10.1186/1471-2148-10-122
pmid:20433709
pmcid:PMC2882926
fatcat:asy72jrlifaahnbecfozupmldy
ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing
2010
Nucleic Acids Research
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Alternative splicing is emerging as a major mechanism for the expansion of the transcriptome and proteome diversity, particularly in human and other vertebrates. ...
We present here a new release of ASPicDB which now provides a unique annotation resource of human protein variants generated by alternative splicing. ...
Indeed, currently available databases, such as ASD (20) , ASAP II (21), ASTALAVISTA (22) and H-DBAS (23), mostly collect information on alternative transcripts at the mRNA level, without considering ...
doi:10.1093/nar/gkq1073
pmid:21051348
pmcid:PMC3013677
fatcat:66dt62xgnzewjpx3hb4qdnrqsi
Function of alternative splicing
2013
Gene
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Almost all polymerase II transcripts undergo alternative pre-mRNA splicing. Here, we review the functions of alternative splicing events that have been experimentally determined. ...
Alternative splicing changes proteins encoded by mRNAs, which has profound functional effects. ...
McEnrue for editorial help. ...
doi:10.1016/j.gene.2012.07.083
pmid:22909801
pmcid:PMC5632952
fatcat:4t6cozxi2vffnnkhm6difvwhnu
Information theoretical prediction of alternative splicing with application to type-2 Diabetes Mellitus
[article]
2010
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Considering alternative splicing, all these genes stand for ~100 000 transcripts to be analysed. ...
In the course of my work I have developed a software pipeline for the analysis of alternative splicing and differential gene expression. ...
An exception is the H-DBAS database which relies solely on the H-Invitational project data [143] , using manually annotated cDNA sequences. ...
doi:10.17169/refubium-14074
fatcat:2ewta4zwjnfkffiawob57s52ay
Methods for transcript variant discovery and alternative expression analysis : application to the study of fluorouracil resistance in colorectal cancer
2010
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I first approached this problem by creating a microarray design platform for alternative expression analysis called 'ALEXA-array' (www.AlexaPlatform.org). ...
The scale and complexity of the transcriptome present significant barriers to (1) identifying isoforms and (2) applying knowledge to human disease research. ...
Databases of transcript diversity derived from EST/mRNA sequences AltTrans Annotation and visualization of AS and AP (Hs, Mo.R-Se De novo annotation of genomes by analysis of short read sequences 137 H-DBAS ...
doi:10.14288/1.0068972
fatcat:atrxurgcgjhizfcjvkzo4gsemq
Fifth International Poplar Symposium: 'Poplars and willows: from research models to multipurpose trees for a bio-based society'
2011
Tree Physiology
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Acknowledgements
Organizers We greatly appreciate the significant contribution of Gabriele Bucci (
Sponsors We also gratefully acknowledge and thank the following organizations who have provided generously for ...
Analysis of transcriptome data also revealed extensive alternative splicing, and we have generated dataset of over 3000 novel intron-exon junction borders. ...
Average
H, DBA and DBH of 28 clones at 4 ages were 757 ± 28 cm, 10.8 ± 0.6 cm and 8.3 ± 0.6 cm,
respectively. ...
doi:10.1093/treephys/tpr117
pmid:22158009
fatcat:jx4k6kx2ircafkzp6c5pmc6y6e