lncRNAtor #

Database for expression profile of lncRNAs curated by Ewha Womens University, Seoul South Korea.

Annotation #

• Collected samples from Human, Mouse, Fly, Worm, and Yeast.
• Collected data information from ENSEMBL, HGNC, MGI, and lncRNAdb databases.

Expression profiling #

• Collected 208 RNA-Seq studies (6295 samples) from GEO, ENCODE, modENCODE, and TCGA databases.
• Expression analysis was carried out based on tissues, diseases, drugs and developmental stages.
• Cufflinks (expression) and cuffdiff (DEGs) was used.

Functional analysis #

• The Protein-coding mRNAs that are coexpressed with lncRNA were identified under various conditions and categorized based on GO and pathway analysis.
• In addition, Protein-lncRNA interactions were compiled using CLIP-Seq or PAR-CLIP sequencing experiments in GEO database.

lncRNA databases #

• ALDB
• ChIPBase
• DIANA-LncBase
• Functional lncRNA Database
• GeneCards v3
• GermlncRNAdb
• lnCeDB
• LNCipedia
• LncRNA2Target
• lncRNABase
• lncRNAdb
• LncRNADisease
• lncRNAMap
• LncRNASNP
• LncRNAWiki
• lncRNome
• MOuse NOnCode Lung Database
• NONCODE v4.0
• Noncoding RNA Expression Database (NRED)
• PLncDB
• starBase v2.0
• zflncRNApedia

Reference

1. lncRNAtor

2. Park C, Yu N, Choi I, Kim W, and Lee S (2014) lncRNAtor: a comprehensive resource for functional investigation of long noncoding RNAs; Bioinformatics.