The landscape of microRNA interaction annotation: analysis of three rare disorders as a case study.
The landscape of microRNA interaction annotation: analysis of three rare disorders as a case study.
复制标题
DOI：
10.1093/database/baad066
复制
发表时间：
2023-10-11
期刊：
影响因子：
--
通讯作者：
中科院分区：
文献类型：
--
作者：
In recent years, a huge amount of data on ncRNA interactions has been described in scientific papers and databases. Although considerable effort has been made to annotate the available knowledge in public repositories, there are still significant discrepancies in how different resources capture and interpret data on ncRNA functional and physical associations. In the present paper, we present a collection of microRNA–mRNA interactions annotated from the scientific literature following recognized standard criteria and focused on microRNAs, which regulate genes associated with rare diseases as a case study. The list of protein-coding genes with a known role in specific rare diseases was retrieved from the Genome England PanelApp, and associated microRNA–mRNA interactions were annotated in the IntAct database and compared with other datasets. RNAcentral identifiers were used for unambiguous, stable identification of ncRNAs. The information about the interaction was enhanced by a detailed description of the cell types and experimental conditions, providing a computer-interpretable summary of the published data, integrated with the huge amount of protein interactions already gathered in the database. Furthermore, for each interaction, the binding sites of the microRNA are precisely mapped on a well-defined mRNA transcript of the target gene. This information is crucial to conceive and design optimal microRNA mimics or inhibitors to interfere in vivo with a deregulated process. As these approaches become more feasible, high-quality, reliable networks of microRNA interactions are needed to help, for instance, in the selection of the best target to be inhibited and to predict potential secondary off-target effects. Database URL https://www.ebi.ac.uk/intact
登录
查看更多内容
DOI：
10.1007/978-1-61779-083-6_11
发表时间：
2011-01-01
期刊：
MICRORNAS IN DEVELOPMENT: METHODS AND PROTOCOLS
影响因子：
--
作者：
Nicolas, Francisco E.
通讯作者：
Nicolas, Francisco E.
影响因子：
4.5
作者：
Richter, Trevor;Nestler-Parr, Sandra;Hughes, Dyfrig A.
通讯作者：
Hughes, Dyfrig A.
影响因子：
64.5
作者：
Lewis, BP;Shih, IH;Burge, CB
通讯作者：
Burge, CB
影响因子：
14.9
作者：
Orchard S;Ammari M;Aranda B;Breuza L;Briganti L;Broackes-Carter F;Campbell NH;Chavali G;Chen C;del-Toro N;Duesbury M;Dumousseau M;Galeota E;Hinz U;Iannuccelli M;Jagannathan S;Jimenez R;Khadake J;Lagreid A;Licata L;Lovering RC;Meldal B;Melidoni AN;Milagros M;Peluso D;Perfetto L;Porras P;Raghunath A;Ricard-Blum S;Roechert B;Stutz A;Tognolli M;van Roey K;Cesareni G;Hermjakob H
通讯作者：
Hermjakob H
DOI：
10.1261/rna.065565.118
发表时间：
2018-08
期刊：
RNA (New York, N.Y.)
影响因子：
--
作者：
Huntley RP;Kramarz B;Sawford T;Umrao Z;Kalea A;Acquaah V;Martin MJ;Mayr M;Lovering RC
通讯作者：
Lovering RC