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Database Commons - KUPS

KUPS

Citations: 21

z-index 0.33

Short name KUPS
Full name University of Kansas Proteomics Service
Description The University of Kansas Proteomics Service (KUPS) provides high-quality protein-protein interaction (PPI) datasets for researchers who are interested in eulicidating PPIs with 'in silico' methods.
URL http://www.ittc.ku.edu/chenlab/kups/
Year founded 2011
Last update & version 2011-11-30    v1.0
Availability Free to all users
University/Institution hosted University of Kansas
Address Lawrence,KS 66045,USA
City Lawrence
Province/State KS
Country/Region United States
Contact name Xue-wen Chen
Contact email xwchen@ku.edu
Data type(s)
Major organism(s)
Keyword(s)
  • in silico method
Publication(s)
  • KUPS: constructing datasets of interacting and non-interacting protein pairs with associated attributions. [PMID: 20952400]

    Xue-wen Chen, Jong Cheol Jeong, Patrick Dermyer
    Nucleic acids research 2011:39(Database issue)
    21 Citations (Google Scholar as of 2016-04-30)

    Abstract: KUPS (The University of Kansas Proteomics Service) provides high-quality protein-protein interaction (PPI) data for researchers developing and evaluating computational models for predicting PPIs by allowing users to construct ready-to-use data sets of interacting protein pairs (IPPs), non-interacting protein pairs (NIPs) and associated features. Multiple filters and options allow the user to control the make-up of the IPPs and NIPs as well as the quality of the resultant data sets. Each data set is built from the overall database, which includes 185 446 IPPs and ?1.5 billion NIPs from five primary databases: IntAct, HPRD, MINT, UniProt and the Gene Ontology. The IPP set can be set to specific model organisms, interaction types and experimental evidence. The NIP set can be generated using four different strategies, which can alleviate biased estimation problems. Lastly, multiple features can be provided for all of the IPP and NIP pairs. Additionally, KUPS provides two benchmark data sets to help researchers compare their algorithms to existing approaches. KUPS is freely available at http://www.ittc.ku.edu/chenlab.

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Tags

Interaction and Network Protein
Caenorhabditis elegans Campylobacter jejuni Drosophila melanogaster Escherichia coli Homo sapiens Mus musculus Saccharomyces cerevisiae
in silico method

Record metadata

  • Created on: 2015-06-20
  • Curated by:
    • Chunlei Yu [2016-04-17]
    • Chunlei Yu [2016-03-31]
    • Chunlei Yu [2015-11-20]
    • Chunlei Yu [2015-06-29]
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