GenCLiP protocols

View GenCLiP computational protocol

GenCLiP statistics

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GenCLiP specifications

Information


Unique identifier OMICS_03940
Name GenCLiP
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Maintainer


Publications for GenCLiP

GenCLiP in pipelines

 (2)
2016
PMCID: 4705764
PMID: 26742487
DOI: 10.1186/s40246-015-0059-6

[…] were built with the aid of cytoscape [], using the central nodes identified in each comparison. semantic relationships were identified between genes and keywords with the text mining tool genclip []. we searched for relationships using the keywords “immune response”, “t regulatory cells”, “autophagy”, “ubiquitin-proteasome”, “endocytosis”, “fibrosis”, “inflammation”, “extracellular […]

2016
PMCID: 4705764
PMID: 26742487
DOI: 10.1186/s40246-015-0059-6

[…] were built with the aid of cytoscape [], using the central nodes identified in each comparison. semantic relationships were identified between genes and keywords with the text mining tool genclip []. we searched for relationships using the keywords “immune response”, “t regulatory cells”, “autophagy”, “ubiquitin-proteasome”, “endocytosis”, “fibrosis”, “inflammation”, “extracellular […]


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GenCLiP in publications

 (18)
PMCID: 5864740
PMID: 29567951
DOI: 10.1038/s41598-018-23492-2

[…] analysis results of ppis were downloaded from string, and modified by cytoscape (http://www.cytoscape.org/). according to the analysis of string, nodes with higher degree in the ppi were put into genclip 2.0 (http://ci.smu.edu.cn/genclip2.0/confirm_keywords.php), which is an online tool for literature mining of genes. genclip could generate keywords of genes in previous literatures to help us […]

PMCID: 5773581
PMID: 29348654
DOI: 10.1038/s41598-018-19413-y

[…] were 643 upregulated and 538 downregulated genes in swoz2-bcnu cells. the volcano plots of differentially expressed genes are shown in fig. . these differentially expressed genes were analysed by genclip 2.0 software to annotate gene functions. sorting by the negative value of the log (p-value) of go analysis is shown in fig. . the top-ranking terms were related to apoptosis and programmed […]

PMCID: 5688798
PMID: 29163679
DOI: 10.3892/ol.2017.7068

[…] subsequent to analysis of the modules, the degs in the modules were analyzed using literature mining to explore their relevance in previous studies. the gene cluster with literature profiles 2.0 (genclip 2.0; http://ci.smu.edu.cn/) () online tool was used for literature mining of human genes and network. the input gene set was the key gene set in the ppi network. the literature mining gene […]

PMCID: 5525596
PMID: 28810559
DOI: 10.3892/etm.2017.4597

[…] interaction were considered as hub nodes., the association among nodes with a higher degree of interaction in the network and the associated biological functions were analyzed by literature mining. genclip 2.0 () (http://ci.smu.edu.cn/genclip2.0/confirm_keywords.php) is an online tool used for the literature mining analysis of human genes and networks. hub gene sets obtained from the ppi […]

PMCID: 5446886
PMID: 28588348
DOI: 10.1155/2017/1804240

[…] elucidate the correlations between mirnas and potential target genes, mirna-gene network analyses were generated by cytoscape (). text mining of the 17 de-mirnas and 17 degs was performed using the genclip 2.0 software. the occurrence frequency of terms in corresponding gene-related literature including cell differentiation, signal transduction, mesenchymal stem cells, transforming growth […]


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GenCLiP institution(s)
Cancer Institute, Key Laboratory of Zebrafish Modeling and Drug Screening for Human Diseases of Guangdong Higher Education Institutes, Department of Cell Biology, Southern Medical University, Guangzhou, Guangzhou Biotechnology Center, Guangzhou, School of Basic Medical Sciences, Network Center and Department of Plastic Surgery, Nanfang Hospital, Southern Medical University, Guangzhou, China

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