CNRS National Center for Scientific Research
Postdoctoral position in Bioinformatics
CNRS National Center for Scientific Research
The Centre National de la Recherche Scientifique (National Center for Scientific Research) is a public organization under the responsibility of the French Ministry of Education and Research.
Visit employer page
JOB DETAILS
Published: 12 days ago
Application deadline: Unspecified
Location: Paris , France
You need to sign in or create an account to save this job
Please mention that you found this job on Academic Positions when applying.
SHARE THIS JOB
Postdoctoral position in Bioinformatics

“Data integration from intracellular phospho-signaling to gene expression re-programming”

Context:

Extracellular stimuli are perceived by cells and converted into signaling cascades relayed by dynamic phosphorylations of proteins. These cascades finally reach the chromatin, made up of histones and DNA, and impact it, in part by changing the modification pattern of its histone constituents. Ultimately, the gene expression program is revisited, to allow the cells to develop an adequate response to the stimulus. We wish to decipher these iterative steps upon uptake by endothelial cells of extracellular vesicles produced by cancer cells: these vesicles contain microRNAs and proteins, including oncogenes, which can have combined impacts on the recipient cells. The obtained data should allow better understanding how cancer tumors manipulate their environment to ensure their survival, in particular by stimulating angiogenesis.

Experimental design:

Analyses of the phosphoproteome and of histone post-translational modifications (PTMs) by mass spectrometry, of chromatin re-organization by ATAC-sequencing, and of mRNA by RNA-sequencing will be performed on endothelial cells at different time points after application of extracellular vesicles produced by a cancer cell line.

Objectives:

First, the recruited person will carry out bioinformatics analysis of each omics data independently. In proteomics, given the wealth of PTMs modifying histones described over the past ten years (including several acylations, e.g. propionylation, butyrylation, etc, on Lys residues), a particular challenge consists of the interpretation of mass spectrometry (MS/MS) spectra by the establishment of a dedicated bioinformatics method. Transcriptomic data will be processed to quantify expression and to detect differentially expressed / spliced transcripts. Epigenomic data will be used to identify differentially accessible chromatin regions.

Then, the recruited person will work on the integrated analysis of these multi-omics processed data to decipher target cell perturbations undergone after internalization of extracellular vesicles secreted by cancer cells. We expect to identify connections between alterations of signaling pathways, remodeling of chromatin and gene expression reprogramming associated with the complex stimulus applied to endothelial cells.

Support to the project:

The recruited person will be supervised by Delphine Pflieger and Christophe Bruley, experts in proteomics from the biochemical sample preparation to the bioinformatic analysis of data, and by Christophe Battail, expert in the bioinformatic analysis of NGS data.

Expected competences:

The applicant should be familiar with Linux environment and have experience in computer programming (mainly R, Python, Shell) dedicated to the analysis of omics data. The successful candidate will be collaborative and have good communicating skills. Practical knowledge of basic statistics would be appreciated.

We encourage bioinformaticians with previous experience in proteomics and/or NGS (RNAseq and ChIPseq) data analysis to submit a cover letter outlining motivations with a brief statement about career goals, a CV, and at least one reference letter.

Location: Grenoble

Duration: guaranteed till end of March 2019.

Salary: between 2000 and 2800 Euros netto per month, depending on experience.

Contact: Delphine Pflieger (delphine.pflieger@cea.fr)

Apply now
You need to sign in or create an account to save this job
JOBS FROM THIS EMPLOYER
PhD / Postdoctoral Position in Quantitative Biology & Biophysics
Cells are complex, autonomous genetic machines with rich information processing capabilities. Synthetic Biology builds on these properties to design novel, synthetic genetic programs in cells to carry out useful functions. Yet, safety and efficiency issues require creation of synthetic circuits that are reliable over a large range of operating conditions and stable to all sorts of external perturbations. This is a tremendous challenge since the robustness of a genetic circuit is limited by its dependency on the cellular host machinery and the fundamental stochastic nature of gene expression. Taking inspiration from physics and engineering, we aim at using microfluidics, optogenetic and control theory to take control of yeast cells and by that mean pilot robustly and in real time the behavior of synthetic circuits.
Open Post-Doc Position at CNRS-LIRMM “Design Space Exploring Carbon Nanotubes for Next Generation of Energy Efficient Integrated Circuits”
The research is related to circuit design and design space exploration of carbon nanotubes (CNTs) for low-power and high-performance integrated circuits. The objective is to investigate signal, power and thermal integrity of circuits with CNT devices and CNT interconnect. Additionally, circuit architecture and interconnect topology will be investigated for high bandwidth and energy efficiency.
Post-doctoral position - Could an altered biomechanical landscape be a common underling process in dementia and neurodegeneration?
This Post-doc position is part of the interdisciplinary project FluidBrain about the role of biomechanics in the context of brain aging, neurodegenerative diseases and dependence. This project involves the Toulouse Neuroimaging Center (http://tonic.inserm.fr) and the Porous Media Group of IMFT (www.imft.fr). This consortium is already recognized as an international leader on the multi-scale modeling of human brain microcirculation (http://brainmicroflow.inp-toulouse.fr).
PhD or Post-doctoral joint-position - Lagrangian analysis and stochastic modeling of flow and transport properties of brain microvascular networks.
PhD or Post-doctoral joint-position at the Institut de Mécanique des Fluides de Toulouse and the Observatoire des Sciences de l’Univers de Rennes.  Lagrangian analysis and…
APPLY FOR THIS JOB
Personal details
Upload your CV and attachments
The file format must be a .doc, .pdf, or .rtf, and the file cannot exceed 2 MB in size.
The file format must be a .doc, .pdf, or .rtf, and the file cannot exceed 2 MB in size.

By applying for a job listed on Academic Positions you agree to our terms and conditions and privacy policy.