Bioinformatics program for PhD students 2021-2022

This training program in statistics, bioinformatics and image analysis begins with a mandatory common core during which we will present all the tracks, and follow short courses on computer science, reproducible research, experimental design and ethics, plagiarism and good scientific conduct.

Each student then can choose to follow one or several track of  modules — R and Statistics, Bioinformatics, or Image Analysis— according to their background and field of research. A certificate of attendance will be delivered to each student at the end of each track session.

Next key dates :

• Common core : Session 2 – virtual session – February 4, 2022, from 9:30 AM to 5:30 PM.
  Join Teams Meeting
• R Programming and Statistics: Session 1 – virtual session (on Teams) in French
  • RS1, Introduction to R and Statistics: November 2, 3, 4, 5, 2021 (mornings)
  • RS2, Hypothesis testing: November 8, 9, 10, 15, 2021 (mornings)
  • RS3, Linear models: November 17, 18, 19, 22, 2021 (mornings)
  • RS4, Multivariate analyses: November 23, 24, 25, 26, 2021 (mornings)
• Image Analysis : Session 1 – on campus
  • IA1, Getting started in BioImage Analysis with Fiji: January 11, 2022 (all day) – room 5 Teams
  • IA2, Using Icy for BioImage Analysis: January 12, 2022 (morning) – room 5 CANCELLED
  • IA3 Advanced Icy features: scripting and protocols: January 12, 2022 (afternoon) – room 5 CANCELLED
  • IA4 Reconstruction of super-resolution images: January 13, 2022 (morning) – room 5 Teams
  • IA5 Using Machine Learning for BioImage analysis: January 13, 2022 (afternoon) – room 5 CANCELLED
• Bioinformatics :
  • B1, Unix basic commands: February 17-18, 2022 (all day) – room 5 (on Teams) POSTPONED to March 17-18, 2022 (all day) – on Teams
  • B2, Introduction to sequence analysis: February 24-25, 2022 (all day) – room 6
  • B3, Proteomics data analysis: February 28 and March 1, 2022 (all day) – room 6
  • B4, Refresher on utilities for HTS data analysis: March 3, 2022 (all day) – room 6on Teams
  • B5, Basic concepts in HTS data analysis: March 4, 2022 (all day) – room 6
  • B6, Expression, quantification, differential analysis: March 21, 2022 (all day) – room 6
  • B7, Variant calling: March 22, 2022 (all day) – room 6
  • B8, Genotype data and association studies: March 23, 2022 (all day) – room 6
  • B9, ChiP-seq data analysis: March 24, 2022 (all day) – room 6 on Teams
  • B10, Metagenomics: March 25, 2022 (all day) – room 6
  • B11, Single cell analysis: March 28-29, 2022 (all day) – room 6
  • B12, Functional analysis: March 30-31, 2022 (all day) – room 6
  • B13, Advanced UNIX commands: May 19-20, 2022 (all day) – room 6
• R Programming and Statistics : Session 2 – on campus
  • RS1, Introduction to R and Statistics: April 4-6, 2022 (all day) – rooms 2 and 3
  • RS2, Hypothesis testing: April 7,8, 2022 (all day) – rooms 2 and 3
  • RS3, Linear models: April 11, 12, 2022 (all day) – rooms 2 and 3
  • RS4, Multivariate analyses: April 14-15, 2022 (all day) – rooms 2 and 3
• Image Analysis : Session 2 – on campus
  • IA1, Getting started in BioImage Analysis with Fiji: May 31, 2022 (all day) – room 6
  • IA2, Using Icy for BioImage Analysis: June 1, 2022 (morning) – room 6
  • IA3 Advanced Icy features: scripting and protocols: June 1, 2022 (afternoon) – room 6
  • IA4 Reconstruction of super-resolution images: June 2, 2022 (morning) – room 6
  • IA5 Using Machine Learning for BioImage analysis: June 2, 2022 (afternoon) – room 6

A detailed description of the next Common Core day is available here. No registration is required. First year PhD students will receive a Teams link from the Graduate Office. For an overview of all the courses and sessions of the program and a detailed description of each module, you can access the Course Content or download the flyer below.

[gview file=”https://research.pasteur.fr/wp-content/uploads/2021/08/research_pasteur-bioinformatics-program-for-phd-students-2021-2022-flyer2021-2022-modified.pdf”] The bioinformatics program is also a Pasteur course. For more information, follow this link : www.pasteur.fr/en/bioinformatics-program-phd-students

Registration to the modules will open on October 25, 2021, and closed (usually) one week before the starting date of each module. If you experience any difficulties with the registration system, please contact the teaching team: bioinfo-program@pasteur.fr.

To register, you need first to create a Moodle account. To do that, fill out and submit the sign-up form. Once you receive your credentials, use the links below to register to the modules that you want to attend: