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<!doctype html>
<html lang="en">
<head>
<meta charset="utf-8">
<meta name="viewport" content="width=device-width, initial-scale=1">
<title>Thomas Bersez</title>
<link rel="icon" type="image/png" href="favicon.png">
<link href="https://cdn.jsdelivr.net/npm/[email protected]/dist/css/bootstrap.min.css" rel="stylesheet"
integrity="sha384-4bw+/aepP/YC94hEpVNVgiZdgIC5+VKNBQNGCHeKRQN+PtmoHDEXuppvnDJzQIu9" crossorigin="anonymous">
<link rel="stylesheet" href="https://cdn.jsdelivr.net/npm/[email protected]/font/bootstrap-icons.css">
<link rel="stylesheet" href="style.css">
</head>
<body style="background-color: black;">
<div class="container-fluid">
<div class="row flex-nowrap" id="page-row">
<!-- Left pane -->
<div class="col-auto me-auto d-flex">
<div class="flex-column d-flex">
<div class="container flex-nowrap mt-3 ms-3">
<h1 class="display-2">Hello, I'm Thomas</h1>
<h1 class="display-5">Swiss army knife bioinformatician</h1>
</div>
<div class="mt-auto">
<div class="container mb-4 ms-3">
<!-- About me -->
<div role="button" data-bs-toggle="modal" data-bs-target="#aboutme">
<h3 class="menu-element">
About me
</h3>
</div>
<div class="modal fade" id="aboutme" tabindex="-1" aria-labelledby="aboutmelabel" aria-hidden="true">
<div class="modal-dialog modal-dialog-centered modal-dialog-scrollable modal-xl">
<div class="modal-content">
<div class="modal-header">
<h1 class="modal-title fs-5" id="aboutmelabel">
Hello, I'm Thomas...
</h1>
<div data-bs-theme="dark">
<button type="button" class="btn-close" data-bs-dismiss="modal" aria-label="Close"></button>
</div>
</div>
<div class="modal-body">
<p class="modal-body-text">
... a <b>Swiss army knife</b> bioinformatician.
</p>
<p class="modal-body-text justify">
Why such a title you may ask? Simply because my passion for bioinformatics and
computer science has pushed me to endorse various roles, to learn multiple technologies
and work in various fields such as agronomic sciences, software development and
human health.
</p>
<p class="modal-body-text justify">
I thrive on learning new things everyday and believe that curiosity, commitment and
can-do attitude put together is the perfect mix for good engineering. I do my best to cultivate
those qualities!
</p>
<p class="modal-body-text justify">
When not coding, I play bass. I've been an amateur musician for about 10 years now!
</p>
</div>
</div>
</div>
</div>
<!-- Experience -->
<div role="button" data-bs-toggle="modal" data-bs-target="#experience">
<h3 class="menu-element">
Experience
</h3>
</div>
<div class="modal fade" id="experience" tabindex="-1" aria-labelledby="experiencelabel"
aria-hidden="true">
<div class="modal-dialog modal-dialog-centered modal-dialog-scrollable modal-xl">
<div class="modal-content">
<div class="modal-header">
<h1 class="modal-title fs-5" id="experiencelabel">
Work experience
</h1>
<div data-bs-theme="dark">
<button type="button" class="btn-close" data-bs-dismiss="modal" aria-label="Close"></button>
</div>
</div>
<div class="modal-body">
<div>
<p class="lead modal-body-text">
Data analysis manager and Associate - <a href="https://www.cgenetix.com/">CGenetix</a> - September 2022 - November 2023 - Paris, France
</p>
<p class="modal-body-text justify">
I have been the head of data analysis and software development at CGenetix, a Parisian startup.
</p>
<p class="modal-body-text justify">
CGenetix develops a liquid biopsy kit to diagnose kidney graph rejections using a mix of bioinformatics, molecular
biology, microfluidics and machine learning. In this context, my daily tasks included the design, planning and
implementation of the company in-house tools and client-end SAS. I also administrated CGenetix cloud servers.
</p>
<p class="modal-body-text justify">
As an associate, I took part in meetings with the board, investors and clinicians as well as recruitement pipelines.
It's a great opportunity to learn about HR, business, fund-raising and communication!
</p>
<p class="modal-tech">
Technologies : Python, Tensorflow, Pandas, Django, MongoDB, Nextflow, R, Go, Docker, GCP, Kubernetes
</p>
<p class="modal-tech">
Referee : <a href="https://www.linkedin.com/in/geoffroy-poulet/?originalSubdomain=fr">Geoffroy Poulet</a>, CEO
</p>
<hr>
</div>Technologies : Python, Tensorflow, Pandas, Django, MongoDB, Nextflow, R, Go, Docker, GCP, Kubernetes
</p>
<div>
<p class="lead modal-body-text">
R&D bioinformatician - <a href="https://geneviatechnologies.com/">Genevia Technologies</a> - August 2019 - September 2022 - Tampere, Finland
</p>
<p class="modal-body-text justify">
For 3 years, I worked as a bioinformatician at Genevia Technologies, a Finnish bioinformatics out-sourcing company.
</p>
<p class="modal-body-text justify">
As a member of the R&D team, I developed a codebase of pipelines, tools and workflows aiming at improving the company
productivity and reducing the need for boiler-plate code to kickstart clients projects. For instance, I developed a flexible RNA
sequencing analysis pipeline ruining a fastq to differancial-expression-analysis worflow from a single command line.
</p>
<p class="modal-body-text justify">
I also took part in the development of web-based machine learning applications for the company customers. Doing so I learned
a lot about UX design, web development and cloud native applications.
</p>
<p class="modal-tech">
Technologies : Python, Tensorflow, Pandas, Django, Snakemake, R, Docker, Singularity, GCP, Slurm, Kubernetes
</p>
<p class="modal-tech">
Referee : <a href="https://www.linkedin.com/in/antti-ylip%C3%A4%C3%A4-2698175b/">Antti Ylipää</a>, CEO
</p>
<hr>
</div>
<div>
<p class="lead modal-body-text">
Bioinformatician - <a href="https://www.inrae.fr/en">INRAe</a> - January 2019 - July 2019 - Avignon, France
</p>
<p class="modal-body-text justify">
The INRIAe is the French instute for agronomic research. I worked there for half a year as a junior bioinformatician.
</p>
<p class="modal-body-text justify">
My mission was to design, implement, test and deploy an allele mining software for biologists.
That's when I was familiarized with high performance computing and software design. I also took
part in doctoral student UNIX environment utilisation training.
</p>
<p class="modal-body-text justify">
Allmine, the developed software, identified several cassava mosaic virus resistance alleles and was selected for a poster presentation at the
<a href="https://jobim2019.sciencesconf.org/index7819.html?forward-action=index&forward-controller=index&lang=en">JOBIM 2019</a>
bioinformatics conference.
</p>
<p class="modal-tech">
Technologies : Python, Snakemake, R, C, Slurm, Singularity
</p>
<p class="modal-tech">
Referee : <a href="https://www6.paca.inrae.fr/gafl_eng/Staff/Holders/Gallois">Jean-Luc Gallois</a>, Head of laboratory
</p>
<hr>
</div>
<div>
<p class="lead modal-body-text">
Bioinformatician trainee - <a href="https://www.inserm.fr/">INSERM</a> - March 2018 - July 2018 - Paris, France
</p>
<p class="modal-body-text justify">
My first working experience was as bioinformatician trainee at the French institute of health sciences.
</p>
<p class="modal-body-text justify">
There, I worked on a bisulfite sequencing data analysis pipeline for cancer research. My main task was to
implement the pipeline in order to standardize and internalise the analysis expertise.
</p>
<p class="modal-body-text justify">
I learned a lot during this internship particularly how to work within a team, which is always a valuable skill!
</p>
<p class="modal-tech">
Technologies : Python, Snakemake, R, Perl
</p>
<p class="modal-tech">
Referee : <a href="https://www.linkedin.com/in/shufang-renault-15a776155/">Shufang Wang-Renault</a>, Post Doctoral Student
</p>
</div>
</div>
</div>
</div>
</div>
<!-- Education -->
<div role="button" data-bs-toggle="modal" data-bs-target="#education">
<h3 class="menu-element">
Education
</h3>
</div>
<div class="modal fade" id="education" tabindex="-1" aria-labelledby="educationlabel" aria-hidden="true">
<div class="modal-dialog modal-dialog-centered modal-dialog-scrollable modal-xl">
<div class="modal-content">
<div class="modal-header">
<h1 class="modal-title fs-5" id="educationlabel">
Education
</h1>
<div data-bs-theme="dark">
<button type="button" class="btn-close" data-bs-dismiss="modal" aria-label="Close"></button>
</div>
</div>
<div class="modal-body">
<p class="lead modal-body-text">
MSc in Computer science applied to human health, biology and environmental sciences
</p>
<p class="modal-body-text">
Paris Saclay University, 2019, with honors
</p>
<hr>
<p class="lead modal-body-text">
BSc in Molecular biology
</p>
<p class="modal-body-text">
Bordeaux University, 2017, with honors
</p>
</div>
</div>
</div>
</div>
<!-- Socials -->
<div role="button" data-bs-toggle="modal" data-bs-target="#socials">
<h3 class="menu-element">
Socials
</h3>
</div>
<div class="modal fade" id="socials" tabindex="-1" aria-labelledby="socialslabel" aria-hidden="true">
<div class="modal-dialog modal-dialog-centered modal-dialog-scrollable modal-xl">
<div class="modal-content">
<div class="modal-header">
<h1 class="modal-title fs-5" id="socialslabel">
Follow me
</h1>
<div data-bs-theme="dark">
<button type="button" class="btn-close" data-bs-dismiss="modal" aria-label="Close"></button>
</div>
</div>
<div class="modal-body">
<div class="container">
<div class="row row align-items-center">
<div class="col-8">
<p class="modal-body-text">
On Github (I swear I'll finish all my side projects someday!)
</p>
</div>
<div class="col-auto ms-auto">
<a href="https://github.com/tbersez">
<i class="bi bi-github"></i>
</a>
</div>
</div>
<div class="row row align-items-center">
<div class="col-8">
<p class="modal-body-text">
On Linkedin. I might post something interesting!
</p>
</div>
<div class="col-auto ms-auto">
<a href="https://linkedin.com/in/thomas-bersez-4103b515b">
<i class="bi bi-linkedin"></i>
</a>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
<!-- Right pane -->
<div class="col-3 d-none d-md-block d-flex">
<div class="container">
<div class="row align-items-center" style="height: 100vh;">
<div class="fade-in">
<img src="101d.jpg" alt="101d.jpg" class="img-fluid">
</div>
</div>
</div>
</div>
</div>
</div>
<script src="https://cdn.jsdelivr.net/npm/[email protected]/dist/js/bootstrap.bundle.min.js"
integrity="sha384-HwwvtgBNo3bZJJLYd8oVXjrBZt8cqVSpeBNS5n7C8IVInixGAoxmnlMuBnhbgrkm"
crossorigin="anonymous"></script>
</body>
</html>