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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 Olujoke and Rotimi, Solomon and Oyelade, O. J. and Adebiyi, E. F. (2018) Computational analysis of Plasmodium falciparum RNA-Seq data reveals PPIs that might be implicated in the invasion of the RBCs. In: 2018 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB), 30 May-2 June 2018, St. Louis, MO, USA.

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In 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 > QA Mathematics > QA75 Electronic computers. Computer science
Q Science > QH Natural history > QH301 Biology
Divisions: Faculty of Medicine, Health and Life Sciences > School of Biological Sciences
Depositing User: Mrs Patricia Nwokealisi
Date Deposited: 12 Mar 2019 09:39
Last Modified: 12 Mar 2019 09:39

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