Grégoire Siekaniec

My projects

I am a bioinformatician currently working in the Algorithmic Bioinformatics team at Saarland University, focusing on the development of the second version of ORI, a bacterial strain identification software I initially developed during my thesis (see below). Previously, I completed a postdoctoral fellowship where I processed exomic data of metastatic RH+/HER2- breast cancer.
During my Ph.D. I work in bacterial genomics on the rapid identification of bacterial strains using the Oxford Nanopore MinION sequencer, specifically targeting the species Streptococcus thermophilus.
My professional goal is to advance in the fields of genomics, transcriptomics, and metagenomics.

For more details on my scientific and professional background you can download my resume:

Scientific paper

Siekaniec, G. et al.. Identification of Isolated or Mixed Strains from Long Reads: A Challenge met on Streptococcus thermophilus Using a MinION Sequencer. Microbial Genomics 7, 11 (2021). https://doi.org/10.1099/mgen.0.000654

Roux, E. et al. The genomic basis of the Streptococcus thermophilus health-promoting properties. BMC Genomics 23, 210 (2022). https://doi.org/10.1186/s12864-022-08459-y

My thesis manuscript entitled "Identification of strains of a bacterial species from long reads" is available here

Informatics

ORI (Oxford nanopore Read Identification) can be found here: https://github.com/gsiekaniec/ORI

Other projects can be found on my github : https://github.com/gsiekaniec

Teaching

2018-2019:

• TP Python - License L1 Biologie: 24h
• TP/TD Python - Master M1 BioInformatique: 19h
• TP/TD Python - Master M1 Santé publique: 21h

Popularization of sciences

Participation at the 2019 edition of Sciences en Cour[t]s with Nicolas Guillaudeux

Sciences en Cour[t]s is a very short film festival for popular science. We win the public price for our film called "Me, my dog and the others: in search of lost transcripts". This video explains in a simplified way a part of Nicolas's thesis.

Organisation of the 2020 edition of Sciences en Cour[t]s

In addition to the 2019 participation, I take care, with Nicolas Guillaudeux and Raphael Truffet, of the organization of the 2020 Sciences en cour[t]s festival. I notably made the poster for the 2020 year edition below.

Little extra 1: sport skills

Climbing (since 2022)

Slackline (since 2016)

Running (sometimes)

Longboard (beginner)

Little extra 2: animals

I have two little rabbits called Raven and Ryuk.

I also take part in the education of a White Swiss Shepherd dog called Snow.