ProtRet: A Web Server for Retrieving Proteins in a Functional Complex

Nazar Zaki, Maryam Al Yammahi, Tetiana Habuza

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

The identification of protein complexes is becoming increasingly important to our understanding of cellular functionality. However, if a biologist wishes to investigate a certain protein, currently no method exists to assist him/her to accurately retrieve the possible protein partners that are expected to be in the same functional complex. Here, we introduce ProtRet, a web server that functions as an interface for an improved Pigeonhole approach to identify protein complexes in protein-protein interaction networks. The approach provides high-quality protein comparison that is particularly valuable because of its accurate statistical estimates based on fuzzy criterion and Hamming distance. The proposed method was tested on two high-throughput experimental protein-protein interaction data sets and two gold standard data sets and was able to retrieve more correct protein members than all existing methods. The web server is accessible from the link http://www.protret.com/.

Original languageEnglish
Title of host publicationPractical Applications of Computational Biology and Bioinformatics, 13th International Conference, PACBB 2019
EditorsFlorentino Fdez-Riverola, Miguel Rocha, Mohd Saberi Mohamad, Nazar Zaki, José A. Castellanos-Garzón
PublisherSpringer Verlag
Pages1-7
Number of pages7
ISBN (Print)9783030238728
DOIs
Publication statusPublished - 2020
Event13th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2019 - Ávila, Spain
Duration: Jun 26 2019Jun 28 2019

Publication series

NameAdvances in Intelligent Systems and Computing
Volume1005
ISSN (Print)2194-5357
ISSN (Electronic)2194-5365

Conference

Conference13th International Conference on Practical Applications of Computational Biology and Bioinformatics, PACBB 2019
Country/TerritorySpain
CityÁvila
Period6/26/196/28/19

Keywords

  • Information retrieval
  • Pigeonhole method
  • Protein complexes
  • Protein-protein interaction

ASJC Scopus subject areas

  • Control and Systems Engineering
  • General Computer Science

Fingerprint

Dive into the research topics of 'ProtRet: A Web Server for Retrieving Proteins in a Functional Complex'. Together they form a unique fingerprint.

Cite this