Junior Bioinformatics Engineer
Welcome to my GitHub profile! I am a bioinformatics engineer passionate about cellular biology and developing computational solutions for genomic and transcriptomic research. Here you'll find a collection of my projects, contributions, and collaborations.
- 🎓 Graduated from the BioMed Master's program at the University of Montpellier and the GENIOMHE Bioinformatics Master's program at Paris-Saclay University.
- 🧪 Skilled in cellular biology, developmental biology, and cancer research.
- 💻 Proficient in Python, R, genomics, transcriptomics, statistics, and Machine Learning.
- 🌱 Currently enhancing my knowledge in [technologies or areas you are currently exploring].
- Protein Assay
- PCR
- Transfection
- Western Blot
- Cell Culture
- Python, R
- DESeq2, EdgeR, Seurat
- Scikit-Learn
- Hadoop, Snakemake
- Git, Galaxy
- Patient, thoughtful
- Team player, autonomous
- Thorough, curious
- English: Conversational reading and speaking
- French: Native
- Master's in BioMed
University of Montpellier - Master's in Bioinformatics (GENIOMHE)
Paris-Saclay University
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Bioinformatics Engineer
Institut Curie, Paris
2022 - 2023 (20 months)- Computational Biologist in the U932 - Salmon Team
- Utilized Kallisto for bulk RNA-Seq alignment and RNA Velocity on scRNA-Seq
- Conducted bulk RNA-Seq analysis with DESeq2
- Performed scRNA-Seq, 10X Visium, and Vizgen MERFISH analysis with Seurat
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Bioinformatics Engineer
IFB-Core and ARTBio Sorbonne University, Paris
2022 (2 months)- Developed workflows for COVID-19 surveillance
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M2 Internship
LISN, Orsay
2019 (6 months)- Statistics and Genetics: Dimension reduction adapted to paleogenomics
- Simulated demographic scenarios with msprime (Python)
- Tested and improved dimension reduction methods
- Established evaluation criteria for the method
- Contributed to the development of the R package "TemporalDR"
- Used Snakemake and GitLab for tracking
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M1 Internship
CEA Fontenay-aux-Roses, Paris
2018 (5 months)- Transcriptomic analyses of murine neural progenitors
- Whole transcriptome analysis with R of Affymetrix data
- Used Ingenuity Pathway Analysis
- scRNA-Seq analysis via Monocle R
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M1 Internship
Institut Cochin Inserm U1016, Paris
2017 (2 months)- Genomic Team of Remi Cheynier / GENOM’IC
- Transcriptomic study on the effect of interleukin 7 on chemokine production by vaginal mucosa cells
- Transcriptomic analysis of primate tissues treated with IL-7
- Created R scripts for whole transcriptome analysis of Affymetrix data
- Used Ingenuity Pathway Analysis
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M2 Internship
IGH CNRS UMR9002, Montpellier
2015 (6 months)- IMGT®
- Identification of genotype and haplotypes of IG and TR genes from NGS repertoire sequencing analysis
- Created Perl scripts
- Used UNIX environment
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M1 Internship
IGMM CNRS UMR 5535, Montpellier
2014 (2 months)- Nuclear Control of Cell Proliferation
- Phosphorylation of histone H3 at serine 57
- Western blot, BCA, Histone purification
- R-HPLC
- Cell culture (U2OS)
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Switching of RNA splicing regulators in immature neuroblasts: a key step in adult neurogenesis
Corentin Bernou, Marc-André Mouthon, Mathieu Daynac, Benjamin Demaille, et al.
eLife12:RP87083 Link to article -
Inference of population genetic structure from temporal samples of DNA
Olivier François, Séverine Liégeois, Benjamin Demaille, Flora Jay
bioRxiv 801324 Link to article
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Abstract 7642: Activated FAP+ cancer-associated fibroblasts in non-muscle invasive bladder cancer are associated with progression to muscle-invasive disease
Abdenour Abbas, Shrisha Maskey, Evan Cheng, Ziao Li, et al.
Cancer Research 15 March 2024; 84 (6_Supplement): 7642. -
Abstract 4603: Single-cell and spatial dissection of the effect of combined PD-L1 and TGFb blockade by bintrafusp alfa from the ICING window-of-opportunity trial in resectable locally advanced HNSCC patients
Caroline Hoffmann, Jan-Timon Werle, Jocelyn Gal, et al.
Cancer Research, 84(6_Supplement), 4603-4603. Link to article
- 📱 Phone: +33 6 33 12 17 37
- 📧 Email: benjamin.demaille@icloud.com
⭐️ From BenjaminDEMAILLE