Research project - Gene expression regulation (I)

Research topic: The use of long-read sequencing for the identification of protein complexes footprints on the chromatin of individual cells

Project summary

Binding of proteins to specific sites on DNA is a fundamental aspect of nuclear processes such as gene expression, DNA replication, DNA repair and others. A number of techniques such as ChIP-seq, DNase-seq, FAIRE-seq and others are used to map protein-DNA interactions at the genome-wide scale in living cells. The readout of these methods, however, comes from averaging bulk measurements from a population of cells. These methods are therefore unable to reveal the cell-to-cell heterogeneity of protein-DNA interactions and provide very limited information about the relationship between neighboring interactions on the same molecule. The primary goal of the proposed project is to overcome the above-mentioned limitations by developing an advanced technique to generate high-resolution long footprints of protein-DNA binding at single-molecule level in living cells. The methods to be developed will take advantage of a recent sequencing technique called SMRT-sequencing from PacBio.

Summary of responsibilities

This project combines the use of state-of-the-art functional genomic technologies with standard biochemistry and molecular biology in Saccharomyces cerevisiae. The student/postdoc will be in charge of executing and analysing the vast majority of the experiments for the project and will be assisted during his/her training by Dr. Robert and senior members of the lab. The IRCM has several core laboratories with expertise that will enhance the training experience of the candidate.

Recent selected publications

  • Uwimana N, Collin P, Jeronimo C, Haibe-Kains B, Robert F. (2017) Bidirectional terminators in Saccharomyces cerevisiae prevent cryptic transcription from invading neighboring genes. Nucleic Acids Res. 2017 Jun 20;45(11):6417-6426. 
  • Jeronimo C, Langelier M-F, Bataille AR, Pascal JM, Pugh BF, Robert F. (2016) Tail and Kinase modules differently regulate core Mediator recruitment and function in vivo. Mol Cell. 2016 Nov 3;64(3):455-466. doi: 10.1016/j.molcel.2016.09.002. Epub 2016 Oct 20.
  • Jeronimo C, Watanabe S, Kaplan CD, Peterson CL, Robert F. (2015) The Histone Chaperones FACT and Spt6 Restrict H2A.Z from Intragenic Locations. Mol Cell. 2015 Jun 18;58(6):1113-23.

Job requirements

We seek a highly motivated individual with a genuine interest in understanding the mechanistic aspects of molecular processes. A background in molecular biology and/or biochemistry is mandatory. Knowledge in bioinformatics, computer programming or statistics are assets but not mandatory.

Conditions of employment

Starting date as soon as possible Only candidates with very good academic track records will be considered.

To apply

Send candidacy to François Robert, Director of the Chromatin and Gene Expression Research Unit.

François Robert
Research Unit Director