Computational analysis of Plasmodium falciparum RNA-Seq data reveals PPIs that might be implicated in the invasion of the RBCs

Soyemi, Jumoke and Isewon, Itunuoluwa and Ogunlana, Olubanke and Rotimi, Solomion and Oyelade, Jelili and Adebiyi, Ezekiel (2018) Computational analysis of Plasmodium falciparum RNA-Seq data reveals PPIs that might be implicated in the invasion of the RBCs. In: Computational Intelligence in Bioinformatics and computational Biology (CIBCB)., April 30 to May 2, 2018, St. Louis, MO, USA.

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Abstract

n this study, differentially expressed genes for the trophozoite and schizont stages of Plasmodium falciparum's life cycle were extracted from a time series RNA-Seq gene expression experiment. About 28% of the 5,270 genes used in the experiment were found to show significant expression at these stages. Enrichment analysis using Gene Ontology implicated a total of 62 functions as highly enriched from the list of differentially expressed genes (DEGs). Some include; protein targeting to membrane, protein import, establishment of proteins localization to organelle, ribonucleic protein complex, nucleotide-excision repair and processes related to the mitochondria. A protein interaction network (PIN) for the DEGs at the schizont stage was extracted from experimental data of protein-protein interactions and supplemented with data from a protein interaction database. We predicted a number of protein-protein interactions in Plasmodium falciparum that may be implicated in invasion of the human red blood cells (RBCs). Some of these predictions are consistent with those from previous studies while quite a number of them are novel. We also identified 16 protein complexes from the PIN using the Molecular Complex Detection (MCODE) algorithm. The functional enrichment of the identified protein complexes showed functions related to gene expression, translation, RNA transport and metabolic/biological processes which have been identified to be important in the invasion process. The result from this study is meant to provide better insight into disease at hand.

Item Type:	Conference or Workshop Item (Paper)
Subjects:	Q Science > Q Science (General) Q Science > QA Mathematics Q Science > QA Mathematics > QA75 Electronic computers. Computer science
Divisions:	Faculty of Engineering, Science and Mathematics > School of Electronics and Computer Science
Depositing User:	Unnamed user with email [email protected]
Date Deposited:	01 May 2020 20:55
Last Modified:	01 May 2020 20:55
URI:	http://eprints.federalpolyilaro.edu.ng/id/eprint/31

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