LncExpDB: an expression database of human long non-coding RNAs.
LncExpDB: an expression database of human long non-coding RNAs.
复制标题
DOI：
10.1093/nar/gkaa850
复制
发表时间：
2021-01-08
影响因子：
14.9
通讯作者：
Ma L
中科院分区：
文献类型：
--
作者：
Li Z;Liu L;Jiang S;Li Q;Feng C;Du Q;Zou D;Xiao J;Zhang Z;Ma L
长链非编码rna （lncRNAs）在不同生物学条件下的表达谱为其生物学功能、相互作用靶点以及转录可靠性提供了重要的见解。然而，目前还缺乏一个全面的资源，通过整合人类lncrna在广泛的生物学条件下的表达谱，系统地表征人类lncrna的表达景观。在这里，我们介绍了lncRNA表达数据库lnexpdb (https://bigd.big.ac.cn/lncexpdb)，该数据库致力于提供lncRNA基因的全面表达谱，探索其表达特征和能力，鉴定具有潜在重要功能的特征基因，并在各种生物学背景/条件下与蛋白质编码基因建立相互作用。基于全面整合和严格的管理，lnexpdb目前拥有101 293个高质量的人类lncRNA基因的表达谱，这些基因来自于9种生物环境下337种生物条件下的1977个样本。因此，LncExpDB估计lncRNA基因的表达可靠性和表达能力，鉴定出25 191个特征基因，并进一步获得28 443 865个lncRNA- mrna相互作用。此外，用户友好的web界面可以实现各种条件下表达谱的交互式可视化，并且可以轻松探索特定环境下的特征lncrna及其交互伙伴。总的来说，lnexpdb具有全面整合和管理lncRNA表达谱的功能，因此将成为人类lncRNA功能研究的基础资源。
Expression profiles of long non-coding RNAs (lncRNAs) across diverse biological conditions provide significant insights into their biological functions, interacting targets as well as transcriptional reliability. However, there lacks a comprehensive resource that systematically characterizes the expression landscape of human lncRNAs by integrating their expression profiles across a wide range of biological conditions. Here, we present LncExpDB (https://bigd.big.ac.cn/lncexpdb), an expression database of human lncRNAs that is devoted to providing comprehensive expression profiles of lncRNA genes, exploring their expression features and capacities, identifying featured genes with potentially important functions, and building interactions with protein-coding genes across various biological contexts/conditions. Based on comprehensive integration and stringent curation, LncExpDB currently houses expression profiles of 101 293 high-quality human lncRNA genes derived from 1977 samples of 337 biological conditions across nine biological contexts. Consequently, LncExpDB estimates lncRNA genes’ expression reliability and capacities, identifies 25 191 featured genes, and further obtains 28 443 865 lncRNA-mRNA interactions. Moreover, user-friendly web interfaces enable interactive visualization of expression profiles across various conditions and easy exploration of featured lncRNAs and their interacting partners in specific contexts. Collectively, LncExpDB features comprehensive integration and curation of lncRNA expression profiles and thus will serve as a fundamental resource for functional studies on human lncRNAs.
登录
查看更多内容
影响因子：
7
作者：
Harrow J;Frankish A;Gonzalez JM;Tapanari E;Diekhans M;Kokocinski F;Aken BL;Barrell D;Zadissa A;Searle S;Barnes I;Bignell A;Boychenko V;Hunt T;Kay M;Mukherjee G;Rajan J;Despacio-Reyes G;Saunders G;Steward C;Harte R;Lin M;Howald C;Tanzer A;Derrien T;Chrast J;Walters N;Balasubramanian S;Pei B;Tress M;Rodriguez JM;Ezkurdia I;van Baren J;Brent M;Haussler D;Kellis M;Valencia A;Reymond A;Gerstein M;Guigó R;Hubbard TJ
通讯作者：
Hubbard TJ
影响因子：
14.9
作者：
Frankish A;Diekhans M;Ferreira AM;Johnson R;Jungreis I;Loveland J;Mudge JM;Sisu C;Wright J;Armstrong J;Barnes I;Berry A;Bignell A;Carbonell Sala S;Chrast J;Cunningham F;Di Domenico T;Donaldson S;Fiddes IT;García Girón C;Gonzalez JM;Grego T;Hardy M;Hourlier T;Hunt T;Izuogu OG;Lagarde J;Martin FJ;Martínez L;Mohanan S;Muir P;Navarro FCP;Parker A;Pei B;Pozo F;Ruffier M;Schmitt BM;Stapleton E;Suner MM;Sycheva I;Uszczynska-Ratajczak B;Xu J;Yates A;Zerbino D;Zhang Y;Aken B;Choudhary JS;Gerstein M;Guigó R;Hubbard TJP;Kellis M;Paten B;Reymond A;Tress ML;Flicek P
通讯作者：
Flicek P
exoRBase：人类血液外泌体中circRNA、lncRNA和mRNA的数据库
影响因子：
14.9
作者：
Li S;Li Y;Chen B;Zhao J;Yu S;Tang Y;Zheng Q;Li Y;Wang P;He X;Huang S
通讯作者：
Huang S
影响因子：
14.9
作者：
Jiang, Shuai;Cheng, Si-Jin;Gao, Ge
通讯作者：
Gao, Ge
影响因子：
4.3
作者：
Lee S;Seo HH;Lee CY;Lee J;Shin S;Kim SW;Lim S;Hwang KC
通讯作者：
Hwang KC