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Hi there πŸ‘‹

Short professional bio πŸ”­ 🌱 πŸ’¬

Since September 2023, I am working at INRAE as a Plant Research Scientist working to understand and improve legume species (pea, faba bean) resistance to aphids. I live in France near Rennes in the Bretagne province.

Originally trained as a β€œwet-lab” Plant Molecular Biologist, I progressively drifted towards Genomics, Data Management and Data Science applied to Plant Biology. I will now investigate the genetic basis of aphid resistance in legume crops, a key element of a sustainable agriculture in temperate and arid dry Mediterranean regions.

From 2014 to 2023 and under the direct supervision of Petra Bleeker and Michel Haring, I spent a great deal of my professional life at the Swammerdam Institute for Life Sciences (University of Amsterdam) as a postdoctoral researcher and support data scientist for experimental researchers. On a day to day basis, I helped experimental Life Scientists facing issues in Bioinformatics, Statistics, Data Science and Genomics and participated to research of the group of Petra Bleeker on tomato resistance to insect pests (whitefly, thrips).

I also coordinated the Amsterdam Science Park Study Group, a small community of computional biologists that foster the adoption of Open Science practices in daily scientific work. We have received funding from NWO (Dutch Research Council) in 2021 and 2022 to expand our activities. Related to this, I also contributed to the establishment and expansion of the University of Amsterdam Data Science Center (DSC), applying Machine Learning techniques in Life Sciences and coordinating training activities of the DSC.

Links

mgalland.info

Linkedin profile

Marc Galland's Projects

basemap icon basemap

Jupyter notebook to plot geographical datasets using basemap

bioawk icon bioawk

BWK awk modified for biological data

clusterprofiler icon clusterprofiler

:bar_chart:statistical analysis and visualization of functional profiles for genes and gene clusters

code_py icon code_py

A collection of well-commented code snippets for data science

denovo2differential icon denovo2differential

De novo assembly of mRNA-Seq reads + differential expression of these transcripts + annotation of the de novo assembled transcripts

events icon events

Materials and reports related to snakemake-days-fr events

freebayes icon freebayes

Bayesian haplotype-based genetic polymorphism discovery and genotyping.

funannotate icon funannotate

A genome annotation pipeline based on funannotate: Snakemake pipeline + Docker image

github_publication_template icon github_publication_template

A template to generate a GitHub template for a scientific publication. Contains sub-folders for figures, sub-folders for tables, a README file with the figure list, etc.

gviz icon gviz

Scripts to plot NGS data on genomic coordinates

how-many-reads icon how-many-reads

Analyses related to RNA-seq experimental design: how many reads per sample, power, etc.

jcvi icon jcvi

Python utility libraries on genome assembly, annotation and comparative genomics

me_and_myself icon me_and_myself

A repository to demonstrate collaboration with one person (yourself)

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