A draft of protein interactions in the malaria parasite P. falciparum

Stefan Wuchty, Jonathan J. Ipsaro

Research output: Contribution to journalArticle

20 Citations (Scopus)

Abstract

Recent advances have provided a working interactome map for the human malaria parasite Plasmodium falciparum. The aforementioned map, generated from genome-scale analyses, has provided a basis for proteomic studies of the parasite; however, such large-scale approaches commonly suffer from undersampling and lack of coverage. The current map bears no exception, containing only one-quarter of the organism's proteins. Inspired by the needs of the current map and the wealth of bioinformatics data, we assembled a map of 19 979 interactions among 2321 proteins in P. falciparum. The resultant map was generated by computationally inferring protein-protein interactions from evolutionarily conserved protein interactions, underlying domain interactions, and experimental observations. To compile this information into a repository of meaningful data, we assessed interaction quality by applying a logistic regression method, which correlated the presence of an interaction with relevant cellular parameters. Interestingly, it was found that sub-networks from different sources are quite dissimilar in their topologies and overlap to a very small extent. Applying Markov clustering, we observe a typical cluster composition, featuring common cellular functions that were previously reported absent, making this map a valuable resource for understanding the biology of this organism.

Original languageEnglish (US)
Pages (from-to)1461-1470
Number of pages10
JournalJournal of Proteome Research
Volume6
Issue number4
DOIs
StatePublished - Apr 2007
Externally publishedYes

Fingerprint

Malaria
Parasites
Proteins
Protein Interaction Domains and Motifs
Falciparum Malaria
Plasmodium falciparum
Computational Biology
Proteomics
Cluster Analysis
Logistic Models
Genome
Bioinformatics
Logistics
Genes
Topology
Chemical analysis

Keywords

  • Human malaria parasite
  • Interactome
  • P. falciparum

ASJC Scopus subject areas

  • Biochemistry
  • Biotechnology
  • Genetics

Cite this

A draft of protein interactions in the malaria parasite P. falciparum. / Wuchty, Stefan; Ipsaro, Jonathan J.

In: Journal of Proteome Research, Vol. 6, No. 4, 04.2007, p. 1461-1470.

Research output: Contribution to journalArticle

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