RNAInter v4.0: RNA interactome repository with redefined confidence scoring system and improved accessibility.
RNAInter v4.0: RNA interactome repository with redefined confidence scoring system and improved accessibility.
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RNAInter v4.0：RNA 相互作用组存储库，具有重新定义的置信度评分系统和改进的可访问性
DOI：
10.1093/nar/gkab997
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发表时间：
2022-01-07
影响因子：
14.9
通讯作者：
Huang Y
中科院分区：
文献类型：
--
作者：
Kang J;Tang Q;He J;Li L;Yang N;Yu S;Wang M;Zhang Y;Lin J;Cui T;Hu Y;Tan P;Cheng J;Zheng H;Wang D;Su X;Chen W;Huang Y
摘要建立RNA相关相互作用知识库有助于从系统水平理解RNA的功能。然而，由于这些相互作用分布在各种资源中，有效应用这些数据的一个基本先决条件要求将它们存放在一起并使用置信度评分进行注释。因此，我们将RNA相关相互作用数据库RNAInter（RNA Interactome Database）更新为4.0版，可在http://www.rnainter.org或http://www.rna-society.org/rnainter/免费访问。与以前的版本相比，目前的RNAInter不仅包含了一个扩大的数据集，而且还更新了置信度评分系统。这个4.0版本的优点可以概括为以下几点：（i）通过整合实验证据的信任、科学界的信任和组织/细胞的类型而实现的重新定义的置信度评分系统，㈡重新设计的功能齐全的数据库，通过升级的用户友好界面，能够更迅速地检索和浏览互动情况，以及通过人工挖掘文献并将六个数据库资源与来自实验和计算来源的证据整合，将条目更新为> 4700万。总的来说，RNAInter将提供一个更全面、更容易获得的RNA相互作用组平台，以研究细胞RNA的调控格局。
Abstract Establishing an RNA-associated interaction repository facilitates the system-level understanding of RNA functions. However, as these interactions are distributed throughout various resources, an essential prerequisite for effectively applying these data requires that they are deposited together and annotated with confidence scores. Hence, we have updated the RNA-associated interaction database RNAInter (RNA Interactome Database) to version 4.0, which is freely accessible at http://www.rnainter.org or http://www.rna-society.org/rnainter/. Compared with previous versions, the current RNAInter not only contains an enlarged data set, but also an updated confidence scoring system. The merits of this 4.0 version can be summarized in the following points: (i) a redefined confidence scoring system as achieved by integrating the trust of experimental evidence, the trust of the scientific community and the types of tissues/cells, (ii) a redesigned fully functional database that enables for a more rapid retrieval and browsing of interactions via an upgraded user-friendly interface and (iii) an update of entries to >47 million by manually mining the literature and integrating six database resources with evidence from experimental and computational sources. Overall, RNAInter will provide a more comprehensive and readily accessible RNA interactome platform to investigate the regulatory landscape of cellular RNAs.
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影响因子：
14.9
作者：
Howe KL;Achuthan P;Allen J;Allen J;Alvarez-Jarreta J;Amode MR;Armean IM;Azov AG;Bennett R;Bhai J;Billis K;Boddu S;Charkhchi M;Cummins C;Da Rin Fioretto L;Davidson C;Dodiya K;El Houdaigui B;Fatima R;Gall A;Garcia Giron C;Grego T;Guijarro-Clarke C;Haggerty L;Hemrom A;Hourlier T;Izuogu OG;Juettemann T;Kaikala V;Kay M;Lavidas I;Le T;Lemos D;Gonzalez Martinez J;Marugán JC;Maurel T;McMahon AC;Mohanan S;Moore B;Muffato M;Oheh DN;Paraschas D;Parker A;Parton A;Prosovetskaia I;Sakthivel MP;Salam AIA;Schmitt BM;Schuilenburg H;Sheppard D;Steed E;Szpak M;Szuba M;Taylor K;Thormann A;Threadgold G;Walts B;Winterbottom A;Chakiachvili M;Chaubal A;De Silva N;Flint B;Frankish A;Hunt SE;IIsley GR;Langridge N;Loveland JE;Martin FJ;Mudge JM;Morales J;Perry E;Ruffier M;Tate J;Thybert D;Trevanion SJ;Cunningham F;Yates AD;Zerbino DR;Flicek P
通讯作者：
Flicek P
B 细胞发育和淋巴瘤发生中的 miRNA。
影响因子：
13.6
作者：
Coffre M;Koralov SB
通讯作者：
Koralov SB
影响因子：
48
作者：
Li T;Wernersson R;Hansen RB;Horn H;Mercer J;Slodkowicz G;Workman CT;Rigina O;Rapacki K;Stærfeldt HH;Brunak S;Jensen TS;Lage K
通讯作者：
Lage K
影响因子：
12.3
作者：
Aschenbrenner AC;Mouktaroudi M;Krämer B;Oestreich M;Antonakos N;Nuesch-Germano M;Gkizeli K;Bonaguro L;Reusch N;Baßler K;Saridaki M;Knoll R;Pecht T;Kapellos TS;Doulou S;Kröger C;Herbert M;Holsten L;Horne A;Gemünd ID;Rovina N;Agrawal S;Dahm K;van Uelft M;Drews A;Lenkeit L;Bruse N;Gerretsen J;Gierlich J;Becker M;Händler K;Kraut M;Theis H;Mengiste S;De Domenico E;Schulte-Schrepping J;Seep L;Raabe J;Hoffmeister C;ToVinh M;Keitel V;Rieke G;Talevi V;Skowasch D;Aziz NA;Pickkers P;van de Veerdonk FL;Netea MG;Schultze JL;Kox M;Breteler MMB;Nattermann J;Koutsoukou A;Giamarellos-Bourboulis EJ;Ulas T;German COVID-19 Omics Initiative (DeCOI)
通讯作者：
German COVID-19 Omics Initiative (DeCOI)
LNCediting：lncRNA 中 RNA 编辑功能效应的数据库
影响因子：
14.9
作者：
Gong J;Liu C;Liu W;Xiang Y;Diao L;Guo AY;Han L
通讯作者：
Han L