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CoPub specifications

Information


Unique identifier OMICS_01178
Name CoPub
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 5.0
Stability No
Maintained No

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Publications for CoPub

CoPub in publications

 (21)
PMCID: 5824109
PMID: 29193890
DOI: 10.1002/psp4.12267

[…] & tsujii developed a search engine for medline abstracts, called facta, which retrieves textual evidence of associations between the query terms and the concepts. frijters et al. developed the copub discovery tool to assess the significance of co‐occurrence based on the mutual information measure and mine the new relationships between biomedical concepts. finally, yetisgen‐yildiz & […]

PMCID: 5581332
PMID: 28894735
DOI: 10.3389/fbioe.2017.00048

[…] decades ago and is increasingly being discussed in the scientific community (swanson, ; blagosklonny and pardee, ; soldatova and rzhetsky, ). several co-occurrence based-lbd approaches, such as copub mapper (alako et al., ), pubgene (jenssen et al., ), chilibot (chen and sharp, ), and geneways (rzhetsky et al., ), have been developed. other approaches have focused on capturing higher order […]

PMCID: 5498031
PMID: 28678852
DOI: 10.1371/journal.pone.0180539

[…] limitations found in many of previous works. first, the discovered novel hypotheses were often unconfirmed with a clinical test [–]. such studies stayed as they found the existing facts. although copub discovery conducted experimental validation for testing their new hypotheses [], its elicited hypotheses lacked context information and were merely based on the co-occurrence relationship like […]

PMCID: 4719073
PMID: 26420781
DOI: 10.1093/bib/bbv087

[…] of a computational approach as an efficient, yet powerful, approach to drug discovery [, ]. frijters et al. successfully found links between genes, drugs, pathways and diseases through their tool copub discovery that mines the biomedical literature for the elucidation of new relationships between these concepts []. based on their predictions, they validated two different drugs’ role in cell […]

PMCID: 4583281
PMID: 26407179
DOI: 10.1371/journal.pone.0139179

[…] were expressed as vmax., gene array data were extracted from the genomics data repository, gene expression omnibus (http://www.ncbi.nlm.nih.gov/geo/). text mining analysis was performed using copub tool (http://services.nbic.nl/copub5)., to evaluate the putative implication of adam12 in emt, we first performed in silico analyses using transcriptional data previously reported for breast […]


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CoPub institution(s)
Computational Drug Discovery (CDD), CMBI, NCMLS, Radboud University Nijmegen Medical Centre, Netherlands Bioinformatics Centre (NBIC), HB Nijmegen, Molecular Design and Informatics, MSD, BH Oss and SARA Computing and Network Services, Amsterdam, Netherlands

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