pathDIP statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

pathDIP specifications

Dataset

Information

Unique identifier	OMICS_14022
Name	pathDIP
Alternative name	pathway Data Integration Portal
Restrictions to use	None
Database management system	Other
Community driven	No
Data access	File download, Browse
User data submission	Not allowed
Version	2.5.0.0
Maintained	Yes

Maintainer

Igor Jurisica

Publication for pathway Data Integration Portal

PathDIP: an annotated resource for known and predicted human gene-pathway associations and pathway enrichment analysis

2017 Nucleic Acids Res

PMCID: 5210562

PMID: 27899558

DOI: 10.1093/nar/gkw1082

pathDIP citations

(4)

Differentially expressed microRNAs in lung adenocarcinoma invert effects of copy number aberrations of prognostic genes

2018

Oncotarget

PMCID: 5823624

PMID: 29507679

DOI: 10.18632/oncotarget.24070

[…] Using Pathway Data Integration Portal v2.5.1.2 (http://ophid.utoronto.ca/pathDIP), we performed comprehensive pathway enrichment analysis across 20 major pathway databases []. We considered literature curat […]

HABP2 p.G534E variant in patients with family history of thyroid and breast cancer

2017

Oncotarget

PMCID: 5522276

PMID: 28402931

DOI: 10.18632/oncotarget.16639

[…] as visualized in NAViGaTOR v3 [] (http://ophid.utoronto.ca/navigator).To elucidate biological functions of the protein network (Figure ), we performed a comprehensive pathway enrichment analysis. The Pathway Data Integration Portal (pathDIP) was used to perform enrichment analysis across pathways from 20 major pathway databases (pathDIP ver. 2.5; []). We considered literature curated gene: pathway […]

Reduced BRCA1 transcript levels in freshly isolated blood leukocytes from BRCA1 mutation carriers is mutation specific

2016

PMCID: 4989508

PMID: 27534398

DOI: 10.1186/s13058-016-0739-8

See protocol

[…] nes expressed differentially between BRCA1 mutation carriers and non-carriers by testing for differences in mean gene expression levels with a Benjamini-Hochberg false discovery rate of P < 0.05. The PathDIP database (http://ophid.utoronto.ca/pathDIP) was used to identify over-represented signaling pathways using data from significantly upregulated and downregulated genes through functional enrich […]

Quantification of angiotensin II regulated proteins in urine of patients with polycystic and other chronic kidney diseases by selected reaction monitoring

2016

PMCID: 4974759

PMID: 27499720

DOI: 10.1186/s12014-016-9117-x

[…] 3 (http://ophid.utoronto.ca/navigator) (1937718), and the corresponding XML file can be found at: http://www.cs.utoronto.ca/~juris/data/ClinProteom16/.Considering the proteins in the network, we used pathDIP v1.0 (http://ophid.utoronto.ca/pathDIP) to perform pathway enrichment analysis across pathway variants gathered from major public pathways databases. List of 60 most enriched pathways were vis […]

Citations

Looking to check out a full list of citations?

pathDIP institution(s)

Department of Medical Biophysics, University of Toronto, Toronto, Canada; Princess Margaret Cancer Centre, University Health Network, TMDT, Toronto, Canada; Department of Medical Biophysics, University of Toronto, Toronto, Canada; Department of Computer Science, University of Toronto, Toronto, ON, Canada; Institute of Neuroimmunology, Slovak Academy of Sciences, Bratislava, Slovakia

pathDIP funding source(s)

This work was supported by the Ontario Research Fund (GL2-01-030), the Canada Research Chair Program (CRC 203373, 225404), the Ontario Research Fund (RE-03-020), the Natural Sciences Research Council (NSERC 203475), the Canada Foundation for Innovation (CFI 12301, 203373, 29272, 225404, 30865), the US Army (DOD W81XWH-1-1-0501) and IBM.

pathDIP reviews

Be the first to review pathDIP