Xavier Robin – Curriculum Vitæ

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I am currently carrying bioinformatic and cellular signaling network research as an Assistant Professor in the Linding lab group at the University of Copenhagen, Denmark. I am specialized in the analysis of Mass Spectrometry data, data integration and Deep Learning methods.

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Areas of expertise

Deep Learning
Network biology (cellular signaling networks)
Mass Spectrometry and NGS (Whole Exome and RNA-seq) data processing and integration
Data analysis (ROC curves, biomarkers, supervised learning)
Bioinformatics programming
Web development (including database design)

Publications

⇒ See my bibliography.

Research experience

2016 – now, University of Copenhagen, Denmark: Assistant Professor, Linding lab
2014 – 2016, University of Copenhagen, Denmark: Post-doc, Linding lab
2014, Technical University of Denmark: Post-doc, Linding lab
2013, Technical University of Denmark: Bourse de chercheur débutant du Fond National; Post-doc, Linding lab

Scientific tools

MIAPEGelDB: a web interface to create MIAPE-gel-compliant documents; miapegeldb.expasy.org
pROC: a package for R and S+ to build and analyze ROC curves; www.expasy.org/tools/pROC
PanelomiX: find the best panel of biomarkers; www.panelomix.net
DeepLearning: a Deep Learning package for R; Restricted Bolzman Machines training with contrastive divergence and autoencoder fine-tuning with conjugate gradients; github.com/xrobin/DeepLearning

University degrees obtained

2012, University of Geneva: PhD in Science, interdisciplinary (bioinformatics)
2007, University of Geneva: Masters in proteomics and bioinformatics
2005, University of Geneva: Bachelor in biology

Public presentations

2009, UseR! conference, Rennes France: Combination of protein biomarkers
2010, Swiss Proteomics Society PhD students' symposium, Basel: How to combine biomarkers?
2011, HUPO Annual World Congress, Genève: PanelomiX – a bioinformatic tool to build biomarker panels
2012, 9th Siena Meeting, Sienne, Italy: PanelomiX: a web-based tool to create panels of biomarkers based on thresholds

Posters

2007, Congress of the Swiss Proteomics Society, Lausanne: MIAPEGelDB: a web-based submission tool and public repository for MIAPE gel electrophoresis documents
2008, 8^th Siena meeting, Siena, Italy: Comparison of statistical learning methods for biomarker combination; Swiss Proteomics Society Grant
2008, European BioAlpine Convention, Geneva: Comparison of statistical learning methods for biomarker combination; Award for the best poster in the session “beyond discovery in proteomics”
2012, Integrative Network Biology 2012: Network Medicine, Helsingør, Denmark: pROC: an open-source package for R and S+ to analyze and compare ROC curves

Teaching activities

2010, 2011, in masters in proteomics and bioinformatics: Biomarker validation part 2: statistical analysis (2h); Combination of biomarkers (2h)
2014, Bachelor in IT and Health, KU / DTU: Course organizer: Introduction to Systems Biology

Associations

Association du corps intermédiaire de médecine fondamentale: Board member and webmaster; www.unige.ch/medecine/acimf
Geckozone community: Translation of extensions for Firefox and webmaster; extensions.geckozone.org

Education

Since 2007, University of Geneva: Preparation of a PhD thesis in sciences, mention interdisicplinary; “Combination of biomarkers”
2007, University of Geneva: Specialisation internship in the “stroke” project of the Biomedical Proteomics Research Group and University Hospital of Geneva
2005 – 2007, University of Geneva: Master's degree in proteomics and bioinformatics (jointly organized by the faculties of medicine and sciences and the Swiss Institute of Bioinformatics); Practical work “Tools for proteomic standards” (web interface for MIAPE documents)
2002 – 2005, University of Geneva: Bachelor in biology (faculty of sciences); Monograph “A dual role for Ded1p helicase?”
1998 – 2002, High school, Geneva: Federal maturity with scientific options; “with mention”; Distinction Denise Lecoultre for my maturity work about prion
1993 – 2007, Conservatoire populaire de musique de Genève: Piano (music studies certificate); “with mention”
1987 – 1998, Geneva: Obligatory school

Professionnal background

Summer 2005, Geneva: Shop assistant at the fruit and vegetables department of Migros store.
Summer 2004, Geneva: Order assistant at the central purchasing agency of Migros, fruit and vegetables department.
Summer 2003, Geneva: Storekeeper in multimedia centre for Migros (CMR)
Summer 2002, Moudon: Military recruit school, hospital soldier; One-week placement at Delémont hospital (stewardship department)

Additional information

Peer-reviewed manuscripts for:: Journal of Proteomics; Biomarkers; The Open Proteomics Journal; Bioinformatics; Journal of Statistical Software
2012 – present: Member of the editorial board of the Journal of Proteomics
Spoken languages: French (mother tongue); German (good level); English (high school level)
Personal informations: Nationality : Switzerland; Date of birth : 9th January 1983; Birth place : Lancy, Geneva
Hobbies: Reading (Science-fiction, fantasy, computing); Photography (macro)

Xavier Robin