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Welcome to LncRNAWiki 105,256 human long non-coding RNAs inside

Introduction LncRNAWiki is a wiki-based database for management of human lncRNAs, aiming to harness collective intelligence to collect, edit, and annotate information about human lncRNAs. This database is a publicly editable and open-content platform for community curation of human lncRNAs, bearing the potential to become a comprehensive and up-to-date knowledgebase for human lncRNAs. A featured lncRNA, ENST00000534336.1, that is overexpressed in many kinds of cancers and is closely associated with tumor growth and metastasis, is community-curated. If a lncRNA is newly reported in a published paper or is annotated in a lncRNA database and this lncRNA is found not to be included by the present LncRNAWiki dataset after search, users can create a new page for this lncRNA. For example, LUNAR1, the recently discovered lncRNA, which is Notch-regulated and functions to enhance IGF1R (insulin-like growth factor receptor 1) mRNA expression to maintain human T cell acute lymphoblastic leukemia (T-ALL), has been added to LncRNAWiki.

Data sources We integrated lncRNA sequences and annotation information from three data sources: GENCODE (version 19; 23,898 human lncRNA transcripts), NONCODE (version 4.0; 95,135 human lncRNA transcripts), and LNCipedia (version 2.1; 32,181 human lncRNA transcripts). After the process of error and redundancy elimination, we at last obtained 105,255 non-redundant lncRNA transcripts. To examine how many lncRNAs have been functionally annotated, we blasted the 105,255 lncRNAs against lncRNA sequences in lncRNAdb (purple circle indicates lncRNAdb) (downloaded on 21 July, 2014; 223 lncRNAs in total) and found at most 103 lncRNAs have been functionally annotated to date, indicating a long-term process of human lncRNA annotation.

Classification Taking into account that the genomic context of lncRNAs may offer insights into their function, the classification of lncRNAs based on genomic location is of great biological significance in in-depth mining and analysis (Ma etal. 2013, RNA Biology). We classified lncRNAs into seven groups (Intergenic, Intronic (S),Intronic (AS),Overlapping (S),Overlapping (AS), Sense and Antisense) based on their genomic location in respect to protein-coding genes. Help

Publications On the classification of long non-coding RNAs. (2013) RNA Biology, 10(6),924-933.

About Us Our group works in the field of Computational Biology and Bioinformatics (CBB), currently with a particular focus on building biological knowledge wikis in aid of community curation of massive biological knowledge.

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