Data Scientist with experience in bioinformatics consulting, academic research and software development.
- Background
- Curriculum Vitae
- MSc. Computer Science specialized in Bioinformatics, University of Ottawa (2012-2015)
- BSc. Computer Science specializion with Honours, University of Ottawa (2007-2012)
- Contact:
- E-mail:
manuel.belmadanipmme
Advising and design of bioinformatics solutions and analysis plans for research projects. Comfortable in applying computional data analysis to understand data from genomics, proteomics, transcriptomics and model organism assays or experiments. The core of my recent work has mostly been combinations of statistics and visualization, software development, Linux-based computing solutions, databases design and web technologies. I enjoy working on research projects and can tackle software engineering challenges along the way.
Generally, I'm open to discuss a research problem if:
- I can make the time given my existing engagements and contracts
- The research question is sound and a good fit for my skill set
Feel free to use one of the contact methods above to connect with me. Any of the topics listed below are areas I'm comfortable advising in:
Key areas of expertise:
bioinformatics,
statistical analysis,
cloud application development,
genomics,
proteomics,
transcriptomics,
variant calling,
experimental data analysis,
genotype-disease analysis
Multi-model functionalization of disease-associated PTEN missense mutations identifies multiple molecular mechanisms underlying protein dysfunction. Nat. Commun. 11, 2073 (2020) Post, K. L., Belmadani, M., Ganguly, P., Meili, F., Dingwall, R., McDiarmid, T. A., Meyers, W. M., Herrington, C., Young, B. P., Callaghan, D. B., Rogic, S., Edwards, M., Niciforovic, A., Cau, A., Rankin, C. H., O’Connor, T. P., Bamji, S. X., Loewen, C. J. R., Allan, D. W., Pavlidis, P. & Haas, K.
Systematic phenomics analysis of autism-associated genes reveals parallel networks underlying reversible impairments in habituation. Proc. Natl. Acad. Sci. U. S. A. 117, 656–667 (2020) McDiarmid, T. A., Belmadani, M., Liang, J., Meili, F., Mathews, E. A., Mullen, G. P., Hendi, A., Wong, W.-R., Rand, J. B., Mizumoto, K., Haas, K., Pavlidis, P. & Rankin, C. H.
VariCarta: A Comprehensive Database of Harmonized Genomic Variants Found in Autism Spectrum Disorder Sequencing Studies. Autism Res. 12, 1728–1736 (2019) Belmadani, M., Jacobson, M., Holmes, N., Phan, M., Nguyen, T., Pavlidis, P. & Rogic, S.
Whole genome sequencing and variant discovery in the ASPIRE autism spectrum disorder cohort. Clin. Genet. (2019) doi:10.1111/cge.13556 Callaghan, D. B., Rogic, S., Tan, P. P. C., Calli, K., Qiao, Y., Baldwin, R., Jacobson, M., Belmadani, M., Holmes, N., Yu, C., Li, Y., Li, Y., Kurtzke, F.-E., Kuzeljevic, B., Yu, A., Hudson, M., McNaughton, A. J. M., Xu, Y., Dionne-Laporte, A., Girard, S., Liang, P., Separovic, E. R., Liu, X., Rouleau, G., Pavlidis, P. & Lewis, M. E. S.
Assessing transcriptome quality in patch-seq datasets. Front. Mol. Neurosci. 11, 363 (2018) Tripathy S., Toker L., Bomkamp C., Mancarci O., Belmadani M. & Pavlidis P.
A comprehensive analysis of 3’ end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylation. Genome Res. (2016) doi:10.1101/gr.202432.115 Gruber A. J., Schmidt R., Gruber A. R., Martin G., Ghosh S., Belmadani M., Keller W. & Zavolan M.
Some web applications I've worked on:
- VariCarta - A database of harmonized ASD genomic variants
- RDMM - Rare Diseases: Models & Mechanisms Network - A register for rare disease research and model organism collaboration.
- PolyASite - A web atlas of 3′ end processing sites.