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H-DBAS: Alternative splicing database of completely sequenced and manually annotated full-length cDNAs based on H-Invitational
2007
Nucleic Acids Research
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In this database, each of the alternative splicing (AS) variants corresponds to a completely sequenced and carefully annotated human full-length cDNA, one of those collected for the H-Invitational humantranscriptome ...
The Human-transcriptome DataBase for Alternative Splicing (H-DBAS) is a specialized database of alternatively spliced human transcripts. ...
Habara, H. Nakaoka, F. Todokoro, Y. Imamizu, M. Ogawa and C. Yamasaki for genome mapping, ORF prediction and functional annotation of the H-Invitational cDNA dataset. ...
doi:10.1093/nar/gkl854
pmid:17130147
pmcid:PMC1716722
fatcat:6hkvbl4vmbeklmwekqv7ynwc4m
H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery
2012
Nucleic Acids Research
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In our analysis, 19 309 annotated genes were specific to H-InvDB and not found in RefSeq and Ensembl. ...
In the latest version, H-InvDB 8.0, a total of 244 709 human complementary DNA was mapped onto the hg19 reference genome and 43 829 gene loci, including nonprotein-coding ones, were identified. ...
ACKNOWLEDGEMENTS The authors acknowledge all the members of the H-Invitational consortium and the Genome Information Integration Project (GIIP) for participating in the annotation work of human full-length ...
doi:10.1093/nar/gks1245
pmid:23197657
pmcid:PMC3531145
fatcat:7r3vwzepiraw5juff6lm7sf6ia
Low conservation and species-specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs
2008
Nucleic Acids Research
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2019; you can also visit the original URL.
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Using full-length cDNA sequences, we compared alternative splicing (AS) in humans and mice. ...
To exclude the possibility that the full-length human cDNAs used in the present study, especially those with retained introns, were cloning artefacts or prematurely spliced transcripts, we experimentally ...
Wakaguri for their technical support during the computational analysis and are grateful to all who annotated the full-length human cDNAs at the H-Inv and H-Inv 2 conferences. ...
doi:10.1093/nar/gkn677
pmid:18838389
pmcid:PMC2582632
fatcat:4wfphimgnrfkjfwg7haptrtdy4
Splice-mediated Variants of Proteins (SpliVaP) – data and characterization of changes in signatures among protein isoforms due to alternative splicing
2008
BMC Genomics
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Conclusion: (i) Characterization: The work points to distinct sets of alternatively spliced genes with varying degrees of annotation for the splice-mediated protein isoforms. ...
(ii) We present a database that reports differences in protein signatures among human splice-mediated protein isoform sequences. ...
Acknowledgements The authors thank Professor Anna Tramontano for her support and encouragement. Ricardo Medda is acknowledged for his help with accessing and mining data from OMIM entries. ...
doi:10.1186/1471-2164-9-453
pmid:18831736
pmcid:PMC2573899
fatcat:2uvxwmyfgvdb3byhuhf6j2n344
Function of alternative splicing
2013
Gene
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However, cells typically coordinate numerous changes in 'splicing programs', which can have strong effects on cell proliferation, cell survival and properties of the nervous system. ...
Experimental analysis of these protein isoforms showed that alternative splicing regulates binding between proteins, between proteins and nucleic acids as well as between proteins and membranes. ...
Acknowledgments This work is supported by NIH RO1 GM083187 and an Endowment of the Universty of Kentucky. We thank Eva R. McEnrue for editorial help. ...
doi:10.1016/j.gene.2012.07.083
pmid:22909801
pmcid:PMC5632952
fatcat:4t6cozxi2vffnnkhm6difvwhnu
Methods for transcript variant discovery and alternative expression analysis : application to the study of fluorouracil resistance in colorectal cancer
2010
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For example, the approach was insensitive to isoforms with small differences in sequence content and limited by both the transcriptome annotations and the number of microarray features available at design ...
Several studies have suggested that many genes are alternatively expressed to produced multiple mRNA isoforms and many of these remain undiscovered. ...
Full-length sequencing of cDNA libraries As the cost of Sanger sequencing and primer synthesis has gone down it has become more practical to conduct full length sequencing of cDNA clones representing complete ...
doi:10.14288/1.0068972
fatcat:atrxurgcgjhizfcjvkzo4gsemq
Information theoretical prediction of alternative splicing with application to type-2 Diabetes Mellitus
[article]
2010
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For the detection of alternative splicing a new method based on an information theoretic concept is introduced to the field of gene expression analysis. ...
In the course of my work I have developed a software pipeline for the analysis of alternative splicing and differential gene expression. ...
Not only he offered me a motivating topic, but competently lead me into computational biology, a dynamic field of science at the interface between mathematics, biology and computer science. ...
doi:10.17169/refubium-14074
fatcat:2ewta4zwjnfkffiawob57s52ay