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Software and Database

Software

Tool Name Description & URL & Paper
CRlncRC Description: Cancer related lncRNA classifier
Url: https://github.com/xuanblo/CRlncRC
Paper: Zhang X, Wang J, Li J, Chen W, Liu C. CRlncRC: a machine learning-based method for cancer-related long noncoding RNA identification using integrated features. BMC Med Genomics. 2018 Dec 31;11(Suppl 6):120. doi: 10.1186/s12920-018-0436-9. PMID: 30598114; PMCID: PMC6311943.
CRlncRC2 Description: Cancer related lncRNA classifier 2
Url: https://github.com/xuanblo/CRlncRC2
Paper: Zhang X, Li T, Wang J, Li J, Chen L, Liu C. Identification of Cancer-Related Long Non-Coding RNAs Using XGBoost With High Accuracy. Front Genet. 2019 Aug 9;10:735. doi: 10.3389/fgene.2019.00735. PMID: 31456817; PMCID: PMC6701491.
重楼植物属在线分类系统 Description: Online classification system of Paris (Chinese)
Url: http://paris.liu-lab.com/
Author: RenQiang

Database

DB Name Description & Url & Paper
JCDB Description: Jatropha curcas Database
Url: http://jcdb.xtbg.ac.cn
Paper: Zhang X, Pan BZ, Chen M, Chen W, Li J, Xu ZF, Liu C. JCDB: a comprehensive knowledge base for Jatropha curcas, an emerging model for woody energy plants. BMC Genomics. 2019 Dec 24;20(Suppl 9):958. doi: 10.1186/s12864-019-6356-z. PMID: 31874631; PMCID: PMC6929279.
CRlncRNA Description: Cancer-related lncRNA Database
Url: http://crlnc.xtbg.ac.cn
Paper: Wang J, Zhang X, Chen W, Li J, Liu C. CRlncRNA: a manually curated database of cancer-related long non-coding RNAs with experimental proof of functions on clinicopathological and molecular features. BMC Med Genomics. 2018 Dec 31;11(Suppl 6):114. doi: 10.1186/s12920-018-0430-2. PMID: 30598113; PMCID: PMC6311896.
ZFLNC Description: A database for zebrafish lncRNA
Url: http://zflnc.xtbg.ac.cn
Paper: Hu X, Chen W, Li J, Huang S, Xu X, Zhang X, Xiang S, Liu C. ZFLNC: a comprehensive and well-annotated database for zebrafish lncRNA. . Database (Oxford). 2018 Jan 1;2018:bay114. doi: 10.1093/database/bay114. PMID: 30335154; PMCID: PMC6193196.
CRISPRlnc Description: Cancer-related lncRNA Database
Url: http://crlnc.xtbg.ac.cn
Paper: Chen W, Zhang G, Li J, Zhang X, Huang S, Xiang S, Hu X, Liu C. CRISPRlnc: a manually curated database of validated sgRNAs for lncRNAs. Nucleic Acids Res. 2019 Jan 8;47(D1):D63-D68. doi: 10.1093/nar/gky904. PMID: 30285246; PMCID: PMC6324000.
PVDB Description: The Plukenetia volubilis genome database
Url: http://pvdb.xtbg.ac.cn
Paper:
重楼属在植物网络知识库 Description: Paris in plant network knowledge base (Chinese)
Url: http://pwkb.liu-lab.com/
Author: RenQiang