Etienne Ntumba Kabongo
Montreal,QC
Summary
- Junior Bioinformatician: The goal was to develop and implement bioinformatics pipelines for diagnosing drug resistance in tuberculosis (TB).
- Applying advanced some machine learning (ML) models to analyze genetic tuberculosis, like (XGBoost, etc ..)
- Using some advanced deep learning architectures (like Multi-Modal Learning Architectures, Attention Mechanisms and Transformers, Autoencoders and Variational Autoencoders (VAEs) to analyze GWAS and some advanced models.
Overview
10
10
years of professional experience
1
1
Certification
Work History
Researcher in Bioinformatics and Machine Learning
CRCHUM
09.2023 - Current
- Enhanced research quality by implementing advanced data analysis techniques and tools.
- Streamlined data collection processes for increased efficiency and accuracy in research findings.
- Developed innovative research methodologies, contributing to breakthrough discoveries in the field.
- Collaborated with interdisciplinary teams to conduct comprehensive studies and generate valuable insights.
Junior Bioinformatician
INSERM
03.2021 - 09.2023
- Skilled at working independently and collaboratively in a team environment.
- Self-motivated, with a strong sense of personal responsibility.
- Proven ability to learn quickly and adapt to new situations.
- Worked well in a team setting, providing support and guidance.
Teacher's Assistant
University Of Kinshasa
01.2014 - 01.2017
- Tutor of python, R programming, latex
- Tutor of linear algebra, functional analysis, operation research
- Kernel Methods
Education
Master of Science - Bioinformatics
University of Montreal
Montreal, QC09.2023
Master of Science - Human Genetics (Bioinformatics)
University of Capetown
Capetown, South-Africa12.2021
Master of Science - Mathematics
AIMS-Rwanda
Kigali06.2018
Bachelor of Science - Mathematics
University of Kinshasa
Kinshasa01.2014
Skills
- Advanced Knowledge in Python (Pytorch, tensorflow, POO, etc )
- R Programming
- Advanced NGS Analysis for WGS, WES
- Advanced GWAS Analysis using ML models
- Advanced knowledge in Bioinformatics tools (Fastqc,picards,bwa,staar,GATK, plink, Emmax, Saige, Gemma, shapeit, impute2, etc )
- Advanced knowledge in ML and Deep learning Models(DeepSEA, DanQ, other CNN-based models)
- Rare variants Analysis, PRS, Rna-seq tools
- Advanced knowledge in shell scripts
- Advanced knowledge in workflow framework (Nextflow and Snakemake)
- Pathway Analysis( Davids, GeneMania, Enrichr, NCBI, ensembl, UCSC, )
Languages
English
Full Professional
French
Native or Bilingual
Publications
- Articles 1: "Progress on Functional Genome wide Association Studies(fGWAS): Applications and Recommendation" (under review)
- Articles 2: "Predictive power of polygenic risk score is an unsolved problem in real-wold clinical population" (Under review)
- Articles 3: " Insilico Functional Analysis of Genome-Wide Dataset From 17,000 Individuals Identifies Candidate Malaria Resistance Genes Enriched in Malaria Pathogenic Pathways" Published
- Articles 4 : "Dynamics Diagnosis of Multidrug-Resistant Mycobacterium tuberculosis in AFRICA by using Computational Modeling,Machine Learning, and Deep Learning Based on LLaMa and Sequencing Data" (Manuscript)
- Articles 5: "Leveraging Causality risk detection in Non-Coding Regions by using RNN,CNN and Multimodal Language Processing" ( Manuscript)
Certification
- Advanced International Statistical Genetics Summer School (University of Colorado, Boulder, USA) (2022)
- Advanced Machine Learning and Genomics training ( 2 months)
- Internship in Functional Bioinformatics ( Biocode Ltd, liverpool, Merseydi, UK) - 2020
- Decode Life Bioinformatics ( NGS, Transcriptomics, GWAS, PRS, Pathway analysis, etc ..) , Bangalor , INDIA, 2021
- NextgenHelper training (Advanced Bioinformatics training) 2022
- H3Bionet Africa training (Advanced Bioinformatics) - 2018
- AMMI Senegal (ML and Advanced Deep Learning) ( 8 months)
Awards
- AIMS Scholarship (Mastercard Foundation) (2017-2018)
- Wellcome Trust Scholarship (2018 - 2021)
- Inserm Scholarship (2021 - 2023)
- Google-AI 2023
- Bourse d'audace et Innovation 2023
- Crchum Scholarship (2023)
References
- Prof. Dr. Emile CHIMUSA, (computational population genomics and bioinformatics), Northumbria University, UK
contact: emile.chimusa@northumbria.ac.uk
- Researcher Assistant. Dr. Wonderful CHOGA (Human Genetics, Bioinformatics), University of Stellenbosh, Capetown, South-Africa
contact: wchoga@bhp.org.bw
Projects
- "Development and Benchmarking of Integrative Data Analysis Frameworks for Multiscale Genomic in Tuberculosis" (2023-)
- "An association study by whole-genome sequencing (WGS) on inherited cardiac arrhythmia" (2021 - 2023)
- "Functional genome wide association study in susceptibility and resistance of malaria" (2021)
- "Ruin Problems for the Markovian Arrival Process risk model" (2018)
- "Introduction to light-like hypersurfaces (or null hypersurfaces)" (2014)
Timeline
Researcher in Bioinformatics and Machine Learning
CRCHUM
09.2023 - Current
Junior Bioinformatician
INSERM
03.2021 - 09.2023
Teacher's Assistant
University Of Kinshasa
01.2014 - 01.2017
Master of Science - Bioinformatics
University of Montreal
Master of Science - Human Genetics (Bioinformatics)
University of Capetown
Master of Science - Mathematics
AIMS-Rwanda
Bachelor of Science - Mathematics
University of Kinshasa
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