Shargunov Alexander V, Krasnov George S, Ponomarenko Elena A, Lisitsa Andrey V, Shurdov Mikhail A, Zverev Vitaliy V, Archakov Alexander I, Blinov Vladimir M
I. I. Mechnikov Institute of Vaccines and Sera of the Russian Academy of Medical Sciences , 5A, Maly Kazenny per., 105064 Moscow, Russia.
J Proteome Res. 2014 Jan 3;13(1):173-82. doi: 10.1021/pr400808u. Epub 2013 Dec 9.
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/.
以染色体为中心的人类蛋白质组计划（C-HPP）旨在鉴定各种染色体的蛋白质产物和转录本。C-HPP的俄罗斯部分致力于人类18号染色体的研究。我们使用广泛认可的Tophat和SpliceGrapher（一种用于准确预测剪接位点和可变mRNA异构体的工具），对肝脏、大脑、肺、肾脏、血液、睾丸、皮肤和骨骼肌中18号染色体转录本的剪接变体和编码的蛋白质产物进行了广泛挖掘。已分析了约61亿条由4500亿个碱基组成的读数。评估了正常组织中剪接事件的相对频率以及基因表达谱。使用ExPASy PROSITE突出显示了先前未知剪接变体的新特征和可能的功能位点。构建了一组独特的蛋白质型肽，可利用质谱法鉴定新的可变蛋白质种类。所揭示的数据将整合到C-HPP俄罗斯部分以基因为中心的知识库中，该知识库可在http://kb18.ru和http://www.splicing.zz.mu/上获取。
