Dr Victor Chukwudi Osamor
BSc, PGD, MSc, Ph.D
RESEARCH OUTLINE : Bioinformatics, Computational Biology,- Healthcare informatics, Neuroinformatics , Data analytics, Data mining and Epigenetics. Others are Public health, Modeling and Network Reconstruction, Functional genomics, K-means Clustering, Microarray data analysis, Genome-Wide Association Studies (GWAS), Next Generation Sequencing, Bioinformatics tools application, Drug discovery, PCR, Proteomics and Drug design. Computer Graphics and Animation. Software development.
We are attaining a climax where diseases plaguing mankind can be eliminated through the development and application of tools of bioinformatics, computational biology and other cutting-edge techniques in healthcare. My interest is to understand the ways in which gene expression is regulated post-transcriptionally and to seek ways in which this knowledge can be useful in advancing drug delivery and gene therapy. I am involved in design, programming, building of tools and use of existing tools in big data analysis generated and deposited in biological databases. I analyse histone modification data to investigate their roles in facilitating disease conditions. I am interested in the treatment discovery of malaria and other vector-borne diseases with emphasis on the analysis of huge high through-put malaria microarray data, Next Generation Sequence (NGS) data, transcription binding factors and their characterization with respect to diseases such as diabetes, heart-attack, high blood pressure.
I work on NGS data analysis for chip-seq and DNA-seq of the central nervous system (CNS) and spinal Cord in line with my interest in computational neuroscience/neuroinformatics. We plan to also employ the application of computer graphics for brain atlas and animation of parts of the brain to express the understanding of the complex interacting mechanisms and activities. I am also interested in the system biology and analysis of complex diseases in human to bridge the functional effects of sequence variations (SNPs) and pathways with practical solutions to network reconstruction issues, network analysis and network-based modeling. The management of big data is fast becoming an emerging field, my research also entails the design of repository and data banks for different organisms used for research purposes.
Awards & Honours
- Post Doctoral Fellowship Award –ERCIM “Alain Bensoussan Fellowship by European Research Consortium for Informatics and Mathematics (ERCIM), 2004 route des Lucioles – BP 9306902 Sophia AntipolisCedex –France (Funding: ERCIM and European Commission)
- ERCIM/ Marie Curie Fellow: Host: University of Warsaw, Institute of Informatics, Fac of MIM, ul Banacha 2, 02-097 Warsaw
- H3ABIONET/ H3Africa Research Grant - National Institute of Health (USA) / Wellcome Trust (2013)
- Malaria at Liver Stage Research Grant Award – Covenant University Seed Grant (2013)
- Covenant University Staff Development Research Grant Award (2009).
- International Glossinia Genome Initiative (IGGI) Consortium Grant Award (2007): Funding in excess of 10 million US $ from multiple sources, WHO/TDR, NIH, Wellcome Trust, RIKEN and Genoscope.
- Best National Youth Service Corps (NYSC) ’91 Award-: Department of Biology, The Polytechnic, Ibadan, Oyo State, Nigeria.
- NACOSS Award- Most Educating Lecturer ’06/07: Department of Computer and Information Science Students, Covenant University, Ogun State, Nigeria.
Travel Grants Awards
I have won grants and participated in Research training /Workshop /Conferences in reputable International Centers of Excellence in different parts of the world.
- National Institute of Health / Wellcome Trust Award -(ICIPE), Nairobi, Kenya. H3ABioNet Train-the-Trainer Bioinformatics Course, 8th – 26th July 2013.
- Federation of European Biosciences Societies (FEBS) & EMBL/EBI YTF
AWARD: In Silico systems biology: network reconstruction, analysis &
network based modelling, Hinxton, Cambridge, (23-26 May 2011).
- Joint ISCB Africa/African Society of Bioinformatics and Computational
Biology & African Society of Human Genetics Award – CAPE TOWN,
SOUTH AFRICA. The Third Conference on Bioinformatics of African
Pathogens, Hosts and Vectors (6 – 11 March, 2011).
- European Union/TeachSG/Israeli Nat.Com. for UNESCO Award- ISRAEL:
First BIOmics Workshop and Conference held at Weizmann Institute of Science (WIS), Rehovot, Israel. Aug. 30-Sept. 4, 2009.
- · WHO/TDR/ANDI Award- ABUJA: “African Network for Drugs and diagnostics
Innovation(ANDI): Creating a sustainable platform for R&D innovation in
Africa” held at ECOWAS Secretariat, Abuja, Nigeria(Oct. 6-8, 2008).
- · ICS-UNIDO Award - ITALY:
“Drug Design and Discovery for Developing Countries” held at JOLLY Hotel,
Corso Cavour 7, Trieste, Italy (International Centre for Science and High
Technology of UNIDO (July 3rd -5th , 2008)).
- UNICEF/UNDP/WHO/WORLD BANK/TDR Award – SOUTH AFRICA:
“Annotation and Bioinformatic Analysis of Glossina cDNA” held at
South African National Bioinformatics Institute (SANBI), University of
Western Cape, Cape Town, South Africa (Nov. 12-18th ,2007).
- Wellcome Trust Award -UK:
“ Functional Genomics and Systems Biology” held at
Hinxton, Cambridge, UK (Wellcome Trust: Jun. 20-29th ,2007).
- CNRS /ICIPE/ ILRI Award - KENYA:
“Bioinformatics of African Pathogens and Disease Vectors” held at
Nairobi, Kenya (CNRS france/ICIPE/ ILRI: 28th May- 2nd Jun., 2007).
- WHO/TDR Award - MALI:
“Functional Genomics of Insect Vectors of Human Diseases” held at
Bamako, Mali (WHO/TDR Geneva: Nov.29-Dec. 13, 2006).
Introduction to Bioinformatics, Statistical methods, Operating system, Research methodology, Bioinformatics I, Binformatics II, Introduction to computer science, Use of Computer & ICT, Use of Library Study Skill & ICT II, Use of software packages I, Use of software packages II, Use of software packages III, Compiler Design, Computational biology and Interdisciplinary Topics, Computer Architecture, ICT and research methodology, Current topics in computing, Problem solving and programming, Statistical computing, Data structure, Computational and molecular biology, R programming, Python.
Selected Publications (6)
Osamor V.C. (2013): A Simplified Integrated Automation of Clustering Indices for Quality Validation and Comparison. Accepted for oral presentation at The International Society for Computational Biology (ISCB) and African Society for Bioinformatics and Computational Biology (ASBCB) Conference on Bioinformatics, March 13-15, Casablanca, Morocco.
Osamor V.C., Ntie F., Omotosho O. (2011): Selenium, Selenoproteins and the Human Health System: Curative or Potential Poison. Accepted for oral presentation at Joint Conference of ISCB Africa/ ASBCB and African Society of Human Genetics, Capetown, South Africa.
OSAMOR V.C., Oludumila S.O. (2011): Using Open Source Classes to Solve Bioinformatics Problems of Sequence Alignment. Book of Abstracts of 4th ANDI International Conference on “African Network for Drugs and Diagnostics Innovation. United Nations Conference Center, Addis Ababa, Ethiopia. 24 - 27 October 2011, Pp 117.
Osamor I.P. and Osamor V.C. (2010): Financing the health system: A critical analysis of Nigerian health sector. Book of Abstracts of 3th ANDI International Conference on “African Network for Drugs and Diagnostics Innovation. United Nations Office in Nairobi (UNON), Kenya. 11-13 October 2010, Pp 111.
Osamor V.C. (2010): Thriving DNA technology and ICT Impact in genomic era: An African perspective. Book of Abstracts of 3th ANDI International Conference on “African Network for Drugs and Diagnostics Innovation. United Nations Office in Nairobi (UNON), Kenya. 11-13 October 2010, Pp 111-112.
Osamor V. , Adebiyi E., Doumbia S. (2009): Comparative Functional
Classification of Plasmodium falciparum Genes using k-means Clustering. Accepted for oral presentation at IACSIT-SC, IEEE Computer Society Press, Pp 491-495.
Thomson Reuters ISI Impact Factor: Indexed
Osamor V.C., E. Adebiyi, et al. (2009): PCR-based Detection of Malaria at Liver Stage. Proceedings of ANDI International Conference on “African Network for Drugs and Diagnostics Innovation: Creating a sustainable platform for R&D innovation in Africa”. Medical Research Centre (MRC), South Africa.
Osamor V.C., Adebiyi E.F., Doumbia S. (2009): Simultaneous and Single Gene Expression Computational Analysis for Malaria Treatment Discovery. Proceedings of the First BIOmics Conference and Workshop. Weizmann Institute of Science (WIS), Rehovot, Israel. Aug. 30-Sept. 4, 2009.
Osamor V.C. (2008) : Antimalarial Drug Design Promises from African Plants. Proceedings of ICS-UNIDO International Conference on “Drug Design and Discovery for Developing Countries”, Trieste, Italy. http://www.ics.trieste.it/portal/ActivityDocument.aspx?id=5713
Osamor V.C.(2008):Exploring Bioinformatics, Molecular Dynamics and
Combinatorial Chemistry Approaches in Drug Development. Proceedings of ANDI International Conference on “African Network for Drugs and Diagnostics Innovation: Creating a sustainable platform for R&D innovation in Africa”.
Osamor V., Adebiyi E., Oyelade J., Doumbia S.(2008): Metric Matrices k-means (MMk-means) for Clustering Malaria Microarray Data. Proceedings of the 16th International Conference on Intelligent Systems for Molecular Biology (ISMB 2008), Toronto, Canada (See Poster B48). http://www.iscb.org/uploaded/css/24/3195.pdf
Chinedu S, Omonhinmin A, Dike I., Omotosho O., Osamor V., Oyelade O., Adebiyi E. (2008): Species Level Characterisation in Thaumatococcu daniellii: Re-evaluating Morphorlogical Evidences via In-Silico Studies. Proceedings of the 16th International Conference on Intelligent Systems for Molecular Biology (ISMB 2008), Toronto, Canada (See Poster C07)
Osamor V.C and Adebiyi E. F (2007): Microarray Technology: An experimental and computational way to eradicate malaria in Africa. Proceedings of 9th International Conference of Nigeria Computer Society on Millennium Development Goals in Nigeria, Owerri, Nigeria. http://www.ncs-nig.org
Osamor V., Adebiyi E. and Doumbia S. (2007): K-Means Clustering and the Analysis of Malaria Microarray Data (MMD). International Conference on the Bioinformatics of African Pathogens and Disease Vectors, Nairobi, Kenya(See Poster6,Pp.20-21).
Osamor V. C. and Adebiyi E. F. (2007): Microarray Analysis For Human Malaria Parasite Plasmodium Falciparum Using K-Means Clustering Computational Approaches (2007). Proceedings of the First Southern African Bioinformatics Workshop (SABioinf 2007), Johannesburg, South Africa, ISBN 978-0-620-38113-0, Page 89 (See Poster http://www.bioinf.wits.ac.za/conference/sabioinf2007.pdf)
Daramola J.O, Osamor V.C., and Oluwagbemi O.O. (2007): Real-Time Monitoring of Healthcare Patients Using Wireless Sensor Networks. Proceedings of 9th International Conference of Nigeria Computer Society on Millennium Development Goals in Nigeria, Owerri, Nigeria. Available at http://www.ncs-nig.org
Adebiyi E.F., Osamor V.C., Fatumo S. (2005): A Significant Difference in output among Microarray Experiment Front-end Tools. Proceedings of the 13th International Conference on Intelligent Systems for Molecular Biology (ISMB 2005), Michigan. U.S.A. (See Poster E-6, http://www.iscb.org/ismb2005/posters_list.html)
Adebiyi E.F, Osamor V. C., Fatumo S. (2005): Conventional Doctor’s medication steps versus technologies emerging from Bioinformatics. International Conference on Human Development(ICHD), Covenant University, Ota, Ogun State.
Summary of Profile
My interest is to understand the ways in which gene expression is regulated post-transcriptionally and to seek ways in which this knowledge can be useful in advancing drug delivery and gene therapy. I am currently investigating the best Histone modification (HM) combination that will yield an optimal result for the determination of open chromatin region (DNase hypersensitive sites) by the analysis of HM data using my developed algorithms. This will cause a shift in the over-reliance of the less abundant DNase-seq data to more abundant Chip-seq HM data. I am also studying the level of compromise that would be made resulting from this shift and perhaps if negligible, then it will give birth to a new technique of determining open chromatin region (active transcription sites) for organisms that do not have DNase-seq data but have Chip-seq HM data. This involves the design, programming, building of tool and use of existing tools in Big data analysis of enormous biological data generated over time and deposited in biological databases. This will rely on my previous experience in the design of MMk-means applied in the analysis of microarray data.
An outline of my general research interest includes: Bioinformatics and Computational Biology: Healthcare informatics, Neuroinformatics , Computational neurosciences, Data analytics, Data mining and Epigenetics. Others are Public health, Modeling and Network Reconstruction, Functional genomics, K-means Clustering, Microarray data analysis, Genome-Wide Association Studies (GWAS), Next Generation Sequencing, Bioinformatics tools application, Drug discovery, PCR, Proteomics and Drug design. Computer Graphics and Animation. Software development.