Tissue-Specific Alternative Splicing Analysis Reveals the Diversity of Chromosome 18 Transcriptome

The
Chromosome-centric Human Proteome Project (C-HPP) is aimed
to identify the variety of protein products and transcripts of the
number of chromosomes. The Russian part of C-HPP is devoted to the
study of the human chromosome 18. Using widely accepted Tophat and
SpliceGrapher, a tool for accurate splice sites and alternative mRNA
isoforms prediction, we performed the extensive mining of the splice
variants of chromosome 18 transcripts and encoded protein products
in liver, brain, lung, kidney, blood, testis, derma, and skeletal
muscles. About 6.1 billion of the reads represented by 450 billion
of the bases have been analyzed. The relative frequencies of splice
events as well as gene expression profiles in normal tissues are evaluated.
Using ExPASy PROSITE, the novel features and possible functional sites
of previously unknown splice variants were highlighted. A set of unique
proteotypic peptides enabling the identification of novel alternative
protein species using mass-spectrometry is constructed. The revealed
data will be integrated into the gene-centric knowledgebase of the
Russian part of C-HPP available at http://kb18.ru and http://www.splicing.zz.mu/.