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CircRNA is a new group of RNA which is generated from circularization of DNA. CircRNA has been established to be tissue-specific. This database is constructed to provide a global view of tissue-specific circRNA in main tissues of human and mouse and is able to contribute to identify new markers for organogenesis and development disease. |
| Sample_ID | circRNA_ID | chromosome | donor_site | acceptor_site | junction_reads | strand | algorithm | Gene_symbol | CircRNA_type | Region | genomic_spanning_length | MRE | RBP | NCBI | genecards |
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Search by Sample |
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| Species | Sample list | Sample selected | ||
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Search by Coordinates |
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For example: chr11:2583672|2583988 |
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| Sample_ID | circRNA_ID | chromosome | donor_site | acceptor_site | junction_reads | strand | algorithm | Gene_symbol | CircRNA_type | Region | genomic_spanning_length | MRE | RBP | NCBI | genecards |
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1. Tissue-specific circRNAs in TSCD |
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hg19_adult_TS_circRNAs |
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The title of above files is as following: Tissue Coordinates Chromosome Donor_site Acceptor_site Junction_reads Strand Algorithms SRPTM Gene_annotation Gene_body Gene_type Strand microRNAs RBPs Flanking_length(donor to acceptor site) |
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2. Script for detecting sample-specific circRNAs |
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We provide perl script unique_circ.pl for downloading. The perl script can be used to extract the sample-specific circRNA information with private datasets. |
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The usage of unique_circ.pl is: perl unique_circ.pl DIR DIR includes every file which are predicted by circRNA detection tools. The file name is in format: 'sample_information', eg, brain_54year_adult. Script will take the string before the first '_' as the sample name. And the format of the file content is: |
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Chunjiang He, Associate Professor School of Basic Medical Sciences, Wuhan University Email: che@whu.edu.cn |
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Leng Han, Ph.D. Assistant Professor and CPRIT Scholar Department of Biochemistry & Molecular Biology The University of Texas Health Science Center at Houston McGovern Medical School Email: leng.han@uth.tmc.edu |
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Jing Feng, Associate Professor International School of Software, Wuhan University Email: gfeng@whu.edu.cn |
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Citation: Xia S*, Feng J*, Lei L, Hu J, Xia L, Wang J, Xiang Y, Liu L, Zhong S, Han L#, He C#. Comprehensive characterization of tissue-specific circular RNAs in the human and mouse genomes. Brief Bioinform. 2016 Aug 20. pii: bbw081. [Epub ahead of print] PubMed PMID: 27543790. |
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