Anna Zhukova • Research - Institut Pasteur

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member
team
department
center
program_project
nrc
whocc
project
software
tool
patent

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Administrative Staff
Assistant Professor
Associate Professor
Clinical Research Assistant
Full Professor
Graduate Student
Lab assistant
Non-permanent Researcher
Permanent Researcher
Pharmacist
PhD Student
Physician
Post-doc
Project Manager
Research Associate
Research Engineer
Retired scientist
Technician
Undergraduate Student
Veterinary
Visiting Scientist

Appointments

Deputy Director of Center
Deputy Director of Department
Deputy Director of National Reference Center
Director of Center
Director of Department
Director of Institute
Director of National Reference Center
Group Leader
Head of Facility
Head of Structure
Honorary President of the Departement
Labex Coordinator

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Rachel Legendre

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Diseases

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10 Publications

About

A computer scientist by training, I am applying this knowledge to solve biological problems and am particularly interested in modelling of biological systems, knowledge inference, ontologies and data visualisation.

Courses

INTRODUCTION À LA PHYLOGÉNIE MOLÉCULAIRE : CONCEPTS, METHODES ET OUTILS

Nous proposons une formation classique à la phylogénie moléculaire avec des cours théoriques portant sur les trois méthodes de construction d’arbres phylogénétiques : distance, parcimonie et maximum de vraisemblance. Nous expliquerons les concepts généraux […]

Evolutionary Bioinformatics

Bioinformatics and Biostatistics HUB

Center of Bioinformatics, Biostatistics and Integrative Biology

Olivier Gascuel

Frédéric Lemoine

Julien Guglielmini

Alexis Criscuolo

Catherine Dauga

2017-12-18 09:30:00 2017-12-22 17:30:00 Europe/Paris INTRODUCTION À LA PHYLOGÉNIE MOLÉCULAIRE : CONCEPTS, METHODES ET OUTILS Nous proposons une formation classique à la phylogénie moléculaire avec des cours théoriques portant sur les trois méthodes de construction d’arbres phylogénétiques : distance, parcimonie et maximum de vraisemblance. Nous expliquerons les concepts généraux […] 25-28 Rue du Dr Roux, 75015 Paris, France

Scientific Programming in Python

The ever growing usage of high throughput technologies in Biology is revolutionizing the life sciences and profoundly changing its practices. Scripting languages are used on a daily basis in life science labs in order […]

Bioinformatics and Biostatistics HUB

Center of Bioinformatics, Biostatistics and Integrative Biology

Bertrand Néron

Thomas Cokelaer

François Laurent

Jean-Baptiste Masson

2017-03-06 09:30:00 2017-03-18 17:00:00 Europe/Paris Scientific Programming in Python The ever growing usage of high throughput technologies in Biology is revolutionizing the life sciences and profoundly changing its practices. Scripting languages are used on a daily basis in life science labs in order […] 25 Rue du Dr Roux, 75015 Paris, France

Introduction to Python Programming

Python is often used to learn programming as it is very readable and easy to write. Python is a very popular language in bioinformatics where many programs and libraries are written in python. This […]

Bioinformatics and Biostatistics HUB

Center of Bioinformatics, Biostatistics and Integrative Biology

Bertrand Néron

Benoît Lelandais

Nicolas Maillet

2018-06-04 09:30:00 2018-06-08 17:00:00 Europe/Paris Introduction to Python Programming Python is often used to learn programming as it is very readable and easy to write. Python is a very popular language in bioinformatics where many programs and libraries are written in python. This […] 25 Rue du Dr Roux, 75015 Paris, France

Introduction to data analysis

This five weeks graduate level course will give participants basic skills and hands-on training in biostatistics. It will cover all the steps of an analysis workflow : design, collection, curation, hypothesis testing and data […]

Bioinformatics and Biostatistics HUB

Center of Bioinformatics, Biostatistics and Integrative Biology

Stéphane Descorps-Declère

Marie-Agnès Dillies

Bertrand Néron

Quentin Giai Gianetto

Vincent Guillemot

Nicolas Maillet

Amandine Perrin

2017-01-16 09:00:00 2017-02-17 13:00:00 Europe/Paris Introduction to data analysis This five weeks graduate level course will give participants basic skills and hands-on training in biostatistics. It will cover all the steps of an analysis workflow : design, collection, curation, hypothesis testing and data […] 28 Rue du Docteur Roux, Paris, France

C3BI Course: Introduction to Molecular Phylogenetics – Hong Kong 2018

General Information: This introductory course aims to give the basic theoretical and practical concepts, best practices, and software necessary to start working on molecular phylogenetics and its applications to epidemiology. The course will have […]

Bioinformatics and Biostatistics HUB

Evolutionary Bioinformatics

Hong Kong University-Pasteur Research Centre

Center of Bioinformatics, Biostatistics and Integrative Biology

Olivier Gascuel

Frédéric Lemoine

Julien Guglielmini

Sebastian Duchene

2018-10-22 08:00:00 2018-10-27 19:00:00 Europe/Paris C3BI Course: Introduction to Molecular Phylogenetics – Hong Kong 2018 General Information: This introductory course aims to give the basic theoretical and practical concepts, best practices, and software necessary to start working on molecular phylogenetics and its applications to epidemiology. The course will have […] HKU-Pasteur Research Pole HKJC Building for Interdisciplinary Research 5 Sassoon Road, Pokfulam, Hong Kong

Projects

The phylodynamics of partner notification and contact tracing in HIV epidemics

Olivier Gascuel (PI)

We develop phylodynamics models and methods to study viral epidemics, in particular HIV. This new, trendy domain is in between usual mathematical epidemiology, typically based on compartment models, and phylogenetics. The models used in […]

Bioconvert

Thomas Cokelaer (PI)

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another. Life science uses many different formats. They may be old, or with complex syntax and converting […]

PastML: A Fast Likelihood Method to Reconstruct and Visualize Ancestral Scenarios

Olivier Gascuel (PI)

The reconstruction of ancestral scenarios is widely used to study the evolution of characters along a phylogenetic tree, for example to infer ancestral molecular characters and their changes in time, or in phylogeography to […]

Modelling the emergence and transmission of HIV-1 drug resistance mutations

Olivier Gascuel (PI)

Drug resistance mutations (DRM) emerge in HIV-1 viruses through selective pressure during antiviral treatment (ART). Acquired drug resistance rates vary depending on duration of ART and type of prescribed regimen. Drug resistance can then […]

Virogenesis

Olivier Gascuel (PI)

Virus discovery and epidemic tracing from high throughput metagenomic sequencing VIROGENESIS is a research project under the EC H2020 framework (2015-2018), that will develop bioinformatics software applications to fully exploit the potential of high-throughput Next-Generation-Sequencing […]

Systems biology of cell infection by the bacterial pathogen Listeria monocytogenes

Javier Pizarro-Cerda (PI)

In the context of the Swiss consortium InfectX (www.infectx.ch), we have previously performed siRNA, microRNA and drug screens to investigate signaling pathways modulating invasion of host cells by the bacterial pathogen Listeria monocytogenes. In […]

Software

PastML

Olivier Gascuel (PI)

PastML is a tool for ancestral character reconstruction on phylogenetic trees. The reconstruction of ancestral scenarios is widely used to study the evolution of characters along a phylogenetic tree, for example to infer ancestral […]

CV

(EN)

Experience

since 2015, Paris FR	Research Engineer @ Institut Pasteur	phylodynamics, phylogeography
2014-15, Bordeaux FR	Postdoc @ IBGC CNRS UMR 5095/U. of Bordeaux	modelling mitochondrial metabolism
2011-14, Bordeaux FR	Doctoral researcher @ Inria/U. of Bordeau x/CNRS joint project-team MAGNOME	knowledge-based generalization and visualization for metabolic models
2011, Cambridge, UK	Intern @ EMBL-EBI, Comp. Systems Neurobiology group	Kinetic Simulation Algorithm Ontology (KiSAO) and libKiSAO
2010, Bordeaux, FR	Intern @ Inria/U. of Bordeaux/CNRS joint project-team MAGNOME	Magus genome annotation system
2009, Cambridge, UK	Intern @ EMBL-EBI, Functional Genomics group	Experimental Factor Ontology extension of search in ArrayExpress
2008-10, St. Petersburg, RU	Junior software developer @ SwiftTeams

Education

2011-14	PhD, Computer Science	University of Bordeaux, FR
2005-10	Specialist (BSc+MSc), Software Engineering & Math	St. Petersburg State University, RU
2007-09	Alumna, Software Engineering	Academy of Modern Software Engineering, RU

Publications

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Published on: 10 Nov 2015 • Modified on: 19 Jul 2018