Short Curiculum vitae

Annaël BRUNET

BioPhysicist scientist :
aims to combine computational models and experimental genome-wide data
Annaël Brunet ID

Position & project topic

  • 04/2019 - Now : Research Fellow, in biophysics and bioinformatics, in CollasLab, Oslo University, Norway
    -> How Lamina-associated domains act as a tuning for configuring mechanical constraints on chromatin domains at nuclear periphery ?

  • 10/2016 - 04/2019 : Post-Doctoral Researcher, in bioinformatics, in CollasLab, Oslo University, Norway
    -> How expression patterns of circadian metabolic genes are relates to changes in Lamina Associated Domains recruitment and how this could impact the 3D configuration of the genome inside the nucleus?

  • 10/2012 - 10/2015 : PhD student, in biophysics, in LPT and IPBS, Toulouse III University, France
    > How local defects or large set of physicochemical conditions influence the DNA molecules conformations at the single molecule level?

All of this developed my abilities to conducting and managing independent projects and daily work in an interdisciplinary way.

Please find additional information on scientific research projects at Projetcs page.


Clic here for the complete version of my CV

Training & Diplomas

  • 04/2019 - Now : Research Fellow :
    -> Establishing how lamina-associated domains could modulate mechanical constraints and physical properties on the chromatin fiber and dynamically contribute of the regulation of these regions.
    -> Performing a kinetic Monte-Carlo Simulations based on a mesoscopic statistical model of chromatin.

  • 10/2016 - 04/2019 : Post-Doctoral Researcher :
    -> Analyzing genome wide RNASeq and ChiPSeq data to investigate how expression patterns of metabolic genes is relates to changes in LAD recruitment (cancerous, circadian context).
    -> Improving a computational procedure to analysis of the large RNA and ChipSeq data.

  • 10/2012 - 10/2015 : PhD student :
    -> Measuring the impact of intrinsic bending, local denaturation or variation of ion concentration in solution on the DNA conformations with high-throughput Tethered Particle Motion (HT-TPM).
    -> Performing a kinetic Monte-Carlo Simulations based on a mesoscopic statistical model of DNA.
    -> Developing a computational procedure for analyzing large set of ht-TPM data.

  • 2010 - 2012 : Master Research & licence :
    -> Measuring the value of the single negative charge appearing during the ionization of 2-(3-perylene) ethanoic acid molecule by Scanning Tunneling Microscopy (STM) at Low Temperature and Ultra High Vacuum.
    -> Realizing a solar furnace coupling with a Stirling engine and animating a stand about the energies at the open day of a company.

Skills

Thanks to an interdisciplinary environment, I developed and improved both, computation and experimental skills.

Computational skills

  • Kinetic Monte-Carlo simulation
    -> C, C++
  • High-throughput data analysis pipeline
    -> bash scripts, pipeline process , BWT algorithms, peakcaller software
  • Developing computing procedure and methodologies
    -> Mathematica
    -> Python, Git

Experimental skills

  • Single molecule techniques
    -> High-throughput Tethered Particle Motion
  • BioMolecular techniques
    -> DLS, Zetasizer, UV spectroscopy, quantification PCR
  • Microscopy techniques
    -> Scanning Tunneling Microscopy, Scanning Electron Microscopy, fluorescence and dark field microscopy

Last publications

Brunet, A., Forsberg, F., Fan Q., Sæther T., Collas P., Nuclear Lamin B1 Interactions with Chromatin during the Circadian Cycle Are Uncoupled from Periodic Gene Expression, Frontiers in Genetics, DOI: 10.3389/fgene.2019.00917.

Please find list of published scientific articles in the Publication page.