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PolySearch specifications

Information


Unique identifier OMICS_01194
Name PolySearch
Alternative name PolySearch2
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Maintainers


  • person_outline David Wishart
  • person_outline Yifeng Liu
  • person_outline Yongjie Liang

Additional information


Previous version: http://wishart.biology.ualberta.ca/polysearch/ User guide: http://polysearch.cs.ualberta.ca/dochelp

Publications for PolySearch

PolySearch citations

 (11)
library_books

The SNPcurator: literature mining of enriched SNP disease associations

2018
PMCID: 5844215
PMID: 29688369
DOI: 10.1093/database/bay020

[…] re emphasis on short sequence variations and SNPs. Disgent database () lists results compiled from expert curated databases and enhances the results by incorporating the BeFree text-mining system (). Polysearch () associates genetic variants to diseases and drugs based on their co-occurrence frequency in abstracts.Most of the above tools achieved high performance levels on different corpora. Howev […]

library_books

Biological networks in Parkinson’s disease: an insight into the epigenetic mechanisms associated with this disease

2017
BMC Genomics
PMCID: 5596942
PMID: 28899360
DOI: 10.1186/s12864-017-4098-3

[…] porting on the vesicle coat protein complex AP3B2 to have some neuron-specific functions such as neurotransmitter release [, ]. STXBP1 was found to be listed as an AD-specific marker in Genotator [], Polysearch [] and Pescador []. AF1Q is a retinoic acid target gene and reported to have an association with ovarian cancer disease []. GASP was found as a potential tumor marker for several cancers [] […]

library_books

An analysis of disease gene relationship from Medline abstracts by DigSee

2017
Sci Rep
PMCID: 5215527
PMID: 28054646
DOI: 10.1038/srep40154

[…] in terms of overlaps is also consistent with the small number of overlaps of disease-gene relations between OMIM and GWAS.We compared DigSee with three other disease-gene relationship search engines, PolySearch2, DISEASES, and DisGeNET, which identify disease-related genes by integrating disease databases or by employing text-mining approaches. For the 299 disease types from OMIM and GWAS, PolySea […]

library_books

Establishing a baseline for literature mining human genetic variants and their relationships to disease cohorts

2016
BMC Med Inform Decis Mak
PMCID: 4959367
PMID: 27454860
DOI: 10.1186/s12911-016-0294-3

[…] drugs, and cells.There exist a few systems that are aimed extracting the same relations that we are interested in from the literature and make use primarily of co-occurrence strategies. These include PolySearch [] and SNPShot []. PolySearch includes diseases, genes, mutations, and drugs, but was only assessed on protein interaction and disease gene relations. SNPShot was assessed primarily with re […]

library_books

Proteomics for systems toxicology

2014
Comput Struct Biotechnol J
PMCID: 4212285
PMID: 25379146
DOI: 10.1016/j.csbj.2014.08.004

[…] -to-date information on a given protein. However, it does not allow querying specific concepts and biological contexts. This is supported by specific text-mining tools such as EBIMed , SciMiner , and PolySearch . EBIMed and SciMiner accept free literature queries as the input and automatically identify and associate the proteins, functions, and drugs reported in the identified literature. PolySear […]

library_books

Chapter 15: Disease Gene Prioritization

2013
PLoS Comput Biol
PMCID: 3635969
PMID: 23633938
DOI: 10.1371/journal.pcbi.1002902

[…] link extraction, however, the existing gene prioritization techniques rely mostly on term co-occurrence statistics (e.g. PosMed and GeneDistiller ) and gene-function annotations (e.g. ENDEAVOR and PolySearch ), which can then be related to diseases as described above.For a significantly oversimplified example of this type of processing consider searching PubMed for the terms breast cancer and B […]

Citations

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PolySearch institution(s)
Department of Computing Science, University of Alberta, Edmonton, AB, Canada; Department of Biological Science, University of Alberta, Edmonton, AB, Canada
PolySearch funding source(s)
Supported by Canadian Institutes for Health Research (CIHR); Alberta Innovates Health Solutions; Genome Canada; and Genome Alberta.

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