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ChiTaRS-3.1——与蛋白质-蛋白质相互作用相匹配的增强型嵌合转录本和RNA测序数据库。

ChiTaRS-3.1-the enhanced chimeric transcripts and RNA-seq database matched with protein-protein interactions.

作者信息

Gorohovski Alessandro, Tagore Somnath, Palande Vikrant, Malka Assaf, Raviv-Shay Dorith, Frenkel-Morgenstern Milana

机构信息

Faculty of Medicine in Galilee, Bar-Ilan University, Henrietta Szold 8, Safed 13195, Israel.

Faculty of Medicine in Galilee, Bar-Ilan University, Henrietta Szold 8, Safed 13195, Israel. Corresponding author:

出版信息

Nucleic Acids Res. 2017 Jan 4;45(D1):D790-D795. doi: 10.1093/nar/gkw1127. Epub 2016 Nov 29.

DOI:10.1093/nar/gkw1127
PMID:27899596
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC5210585/
Abstract

Discovery of chimeric RNAs, which are produced by chromosomal translocations as well as the joining of exons from different genes by trans-splicing, has added a new level of complexity to our study and understanding of the transcriptome. The enhanced ChiTaRS-3.1 database (http://chitars.md.biu.ac.il) is designed to make widely accessible a wealth of mined data on chimeric RNAs, with easy-to-use analytical tools built-in. The database comprises 34 922: chimeric transcripts along with 11 714: cancer breakpoints. In this latest version, we have included multiple cross-references to GeneCards, iHop, PubMed, NCBI, Ensembl, OMIM, RefSeq and the Mitelman collection for every entry in the 'Full Collection'. In addition, for every chimera, we have added a predicted Chimeric Protein-Protein Interaction (ChiPPI) network, which allows for easy visualization of protein partners of both parental and fusion proteins for all human chimeras. The database contains a comprehensive annotation for 34 922: chimeric transcripts from eight organisms, and includes the manual annotation of 200 sense-antiSense (SaS) chimeras. The current improvements in the content and functionality to the ChiTaRS database make it a central resource for the study of chimeric transcripts and fusion proteins.

摘要

嵌合RNA是由染色体易位以及通过反式剪接连接不同基因的外显子产生的，它为我们对转录组的研究和理解增添了新的复杂层面。增强版的ChiTaRS-3.1数据库（http://chitars.md.biu.ac.il）旨在广泛提供大量关于嵌合RNA的挖掘数据，并内置了易于使用的分析工具。该数据库包含34922个嵌合转录本以及11714个癌症断点。在这个最新版本中，我们为“完整数据集”中的每个条目添加了与GeneCards、iHop、PubMed、NCBI、Ensembl、OMIM、RefSeq和米特尔曼数据库的多个交叉引用。此外，对于每个嵌合体，我们添加了一个预测的嵌合蛋白质-蛋白质相互作用（ChiPPI）网络，便于直观显示所有人类嵌合体的亲本蛋白和融合蛋白的蛋白质伙伴。该数据库对来自八个生物体的34922个嵌合转录本进行了全面注释，包括对200个正义-反义（SaS）嵌合体的手动注释。ChiTaRS数据库目前在内容和功能上的改进使其成为研究嵌合转录本和融合蛋白的核心资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3764/5210585/bcd49aada70b/gkw1127fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3764/5210585/ed2576538659/gkw1127fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3764/5210585/bcd49aada70b/gkw1127fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3764/5210585/ed2576538659/gkw1127fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3764/5210585/bcd49aada70b/gkw1127fig2.jpg

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