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FpClass specifications

Information


Unique identifier OMICS_07243
Name FpClass
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Versioning


No version available

Maintainer


  • person_outline Igor Jurisica

Information


Unique identifier OMICS_07243
Name FpClass
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Maintainer


  • person_outline Igor Jurisica

Publication for FpClass

FpClass citations

 (13)
library_books

BRD7 expression and c Myc activation forms a double negative feedback loop that controls the cell proliferation and tumor growth of nasopharyngeal carcinoma by targeting oncogenic miR 141

2018
PMCID: 5859396
PMID: 29559001
DOI: 10.1186/s13046-018-0734-2

[…] as a cofactor of c-myc to regulate the expression of mir-141. firstly, we predicted that brd7 might be one of c-myc interacting proteins by interrogating the annotated ppi predictions data from the fpclass database (additional file : table s3). then, the if analysis showed that brd7 was colocalized with c-myc in a punctate distribution pattern (fig. ), and the co-ip experiments further revealed […]

library_books

Revealing the Amylase Interactome in Whole Saliva Using Proteomic Approaches

2018
Biomed Res Int
PMCID: 5831883
PMID: 29662892
DOI: 10.1155/2018/6346954

[…] among amylase and other proteins found in the human ws as described elsewhere []. first, a comprehensive search was performed in eight different databases (biogrid, hprd, apid, embl-ebi, fpclass, string, intact, and bioplex) () to provide a solid list with both known and predicted protein-amylase interactions. second, a simulated amylase hub containing only the 66 proteins identified […]

library_books

Recent Progress in CFTR Interactome Mapping and Its Importance for Cystic Fibrosis

2018
Front Pharmacol
PMCID: 5785726
PMID: 29403380
DOI: 10.3389/fphar.2017.00997

[…] et al., ). the first involves combining experimentally validated ppis from multiple small-scale studies. the second involves computational prediction algorithms, such as the recently developed fpclass (kotlyar et al., ), which make use of a variety of available known datasets and protein features to generate lists of predicted potential interactions. and finally, the third employs […]

library_books

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

[…] curated gene:pathway memberships as well as those predicted according to experimentally detected protein-protein interactions (including interactions experimentally detected between orthologues plus fpclass interactions with minimum confidence level for predicted associations equal 0.95; for more details see pathdip documentation)., author contributions , tt – conception and design of the work, […]

library_books

Vitamin D receptor is present on the neuronal plasma membrane and is co localized with amyloid precursor protein, ADAM10 or Nicastrin

2017
PLoS One
PMCID: 5703467
PMID: 29176823
DOI: 10.1371/journal.pone.0188605

[…] proteins. the localization of vdr on neuronal membranes and its co-localization with target proteins were investigated with cell surface staining followed by immunofluorescence labelling. the fpclass was used for protein-protein interaction prediction. our results demonstrated the localization of vdr on the neuronal plasma membrane and the co-localization of vdr and app or adam10 […]

library_books

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

[…] curated gene: pathway memberships and those predicted according to experimentally detected protein-protein interactions (including interactions experimentally detected between orthologues plus fpclass [] interactions with minimum confidence level for predicted associations equal 0.95 (for more details see pathdip documentation in http://ophid.utoronto.ca/pathdip)., the presence […]


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FpClass institution(s)
Princess Margaret Cancer Center, University Health Network, Toronto, ON, Canada; Centro Riferimento Oncologico, Istituto Nazionale Tumori, Aviano, Italy; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON, Canada; Nanjing University of Aeronautics and Astronautics, Nanjing, China; Department of Systems Biology, Division of Cancer Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX, USA; Charles Perkins Centre, The University of Sydney, Sydney, New South Wales, Australia; Donnelly Centre, Departments of Molecular Genetics and Biochemistry, University of Toronto, Toronto, ON, Canada; Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada; Department of Computer Science, University of Toronto, Toronto, ON, Canada; TECHNA Institute for the Advancement of Technology for Health, Toronto, ON, Canada
FpClass funding source(s)
Supported by grants from Genome Canada via the Ontario Genomics Institute, Ontario Research Fund (GL2-01-030, RE-03-020), the Canadian Institutes for Health Research (#99745, #93579), the Natural Sciences Research Council (#203475), US Army Department of Defense W81XWH-12-1-0501, the Italian Association for Cancer Research, the Friuli Venezia-Giulia and CRO 5xmille Intramural Grant, the Friuli Venezia-Giulia Exchange Program, the Ontario Genomics Institute (#303547), the Canadian Institutes of Health Research (Catalyst-NHG99091, PPP-125785), the Canadian Cystic Fibrosis Foundation (#300348), the Canadian Cancer Society (2010-700406), Genentech and University Health Network (GL2-01-018), US National Institutes of Health (NIH) PO1/PPG grant 01CA0099031 and NCI R21 CA126700.

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