We have a track-record of peer-reviewed articles and patents in the field of clinical bioinformatics.

Clinical studies

Armenise C, Lefebvre G, Carayol J, Bonnel S, Bolton J, Di Cara A, Gheldof N, Descombes P, Langin D, Saris WH, Astrup A, Hager J, Viguerie N, Valsesia A. Transcriptome profiling from adipose tissue during a low-calorie diet reveals predictors of weight and glycemic outcomes in obese, nondiabetic subjectsAm J Clin Nutr. 2017 Aug 9. pii: ajcn156216. doi: 10.3945/ajcn.117.156216.

Dayon L, Guiraud SP, Corthésy J, Da Silva L, Migliavacca E, Tautvydaitė D, Oikonomidi A, Moullet B, Henry H, Métairon S, Marquis J, Descombes P, Collino S, Martin FJ, Montoliu I, Kussmann M, Wojcik J, Bowman GL, Popp J. One-carbon metabolism, cognitive impairment and CSF measures of Alzheimer pathology: homocysteine and beyondAlzheimers Res Ther. 2017 Jun 17;9(1):43. doi: 10.1186/s13195-017-0270-x.

Julien Laurent, Cedric Touvrey, Silke Gillessen, Magali Joffraud, Manuela Vicari, Caroline Bertrand, Stefano Ongarello, Bernd Liedert, Elisa Gallerani and Joachim Beck. T-cell activation by treatment of cancer patients with EMD 521873 (Selectikine), an IL-2/anti-DNA fusion protein. J Transl Med 11(5), 2013.

A Valsesia, A Di Cara, A Berton, V Debailleul, J Wojcik, P Farmer and C H Ladel.
Exploratory biomarker analysis reveals a genetic epistatic interaction in interleukin 1 receptor antagonist (IL1RN) gene associated to cartilage volume growth measured by MRI in response to sprifermin therapy in patients with knee radiographic osteoarthritis. Osteoarthritis and Cartilage 21:S76–S76, 2013.

Casimiro Castillejo-López, Angélica M Delgado-Vega, Jerome Wojcik, Sergey V Kozyrev, Elangovan Thavathiru, Ying-Yu Wu, Elena Sánchez, David Pöllmann, Juan R López-Egido, Serena Fineschi, Nicolás Domínguez, Rufei Lu, Judith A James, Joan T Merrill, Jennifer A Kelly, Kenneth M Kaufman, Kathy L Moser, Gary Gilkeson, Johan Frostegård, Bernardo A Pons-Estel, Sandra D’Alfonso, Torsten Witte, José Luis Callejas, John B Harley, Patrick M Gaffney, Javier Martin, Joel M Guthridge and Marta E Alarcón-Riquelme.
Genetic and physical interaction of the B-cell systemic lupus erythematosus-associated genes BANK1 and BLK. Annals of the rheumatic diseases 71(1):136–142, 2012.
DOI BibTeX

F Martinelli-Boneschi, F Esposito, P Brambilla, E Lindstrom, G Lavorgna, J Stankovich, M Rodegher, R Capra, A Ghezzi, G Coniglio, B Colombo, M Sorosina, V Martinelli, D Booth, A B Oturai, G Stewart, H F Harbo, T J Kilpatrick, J Hillert, J P Rubio, H Abderrahim, J Wojcik and G Comi.
A genome-wide association study in progressive multiple sclerosis. Multiple Sclerosis Journal 18(10):1384–1394, 2012.
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Federica Esposito, Jerome Wojcik, Mariaemma Rodegher, Marta Radaelli, Lucia Moiola, Angelo Ghezzi, Ruggero Capra, Paola Brambilla, Melissa Sorosina, Giacomo Giacalone, Vittorio Martinelli, Giancarlo Comi, Hadi Abderrahim and Filippo Martinelli Boneschi.
MGAT5 and disease severity in progressive multiple sclerosis. Journal of neuroimmunology 230(1-2):143–147, January 2011.
DOI BibTeX

R F Vollenhoven, N Kinnman, E Vincent, S Wax and J Bathon.
Atacicept in patients with rheumatoid arthritis and an inadequate response to methotrexate: results of a phase II, randomized, placebo-controlled trial. Arthritis and rheumatism 63(7):1782–1792, 2011.
DOI BibTeX

Pratyaksha Wirapati, Karl Forner, Angelica Delgado-Vega, Marta Alarcón-Riquelme, Mauro Delorenzi and Jérôme Wojcik.
Detecting epistasis with restricted response patterns in pairs of biallelic loci. Annals of human genetics 75(1):133–145, January 2011.
DOI BibTeX

B Brynedal, J Wojcik, F Esposito, V Debailleul, J Yaouanq, F Martinelli-Boneschi, G Edan, G Comi, J Hillert and H Abderrahim.
MGAT5 alters the severity of multiple sclerosis. Journal of neuroimmunology 220(1-2):120–124, March 2010.
DOI BibTeX

D Colleselli, A E Pelzer, E Steiner, S Ongarello, G Schaefer, G Bartsch and C Schwentner.
Upgrading of Gleason score 6 prostate cancers on biopsy after prostatectomy in the low and intermediate tPSA range. Prostate cancer and prostatic diseases 13(2):182–185, 2010.
DOI BibTeX

Rosanna Pescini Gobert, Lara Joubert, Marie-Laure Curchod, Catherine Salvat, Isabelle Foucault, Catherine Jorand-Lebrun, Marc Lamarine, Hélène Peixoto, Chloé Vignaud, Christèle Frémaux, Thérèse Jomotte, Bernard Françon, Chantal Alliod, Lilia Bernasconi, Hadi Abderrahim, Dominique Perrin, Agnes Bombrun, Francisca Zanoguera, Christian Rommel and Rob Hooft van Huijsduijnen.
Convergent functional genomics of oligodendrocyte differentiation identifies multiple autoinhibitory signaling circuits. Molecular and cellular biology 29(6):1538–1553, March 2009.
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A-K Abelson, A M Delgado-Vega, S V Kozyrev, E Sánchez, R Velázquez-Cruz, N Eriksson, J Wojcik, M V P Linga Reddy, G Lima, S D’Alfonso, S Migliaresi, V Baca, L Orozco, T Witte, N Ortego-Centeno, AADEA group, H Abderrahim, B A Pons-Estel, C Gutiérrez, A Suárez, M F González-Escribano, J Martin and M E Alarcón-Riquelme.
STAT4 associates with systemic lupus erythematosus through two independent effects that correlate with gene expression and act additively with IRF5 to increase risk. Annals of the rheumatic diseases 68(11):1746–1753, 2009.
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Alexandre E Pelzer, Daniela Colleselli, Jasmin Bektic, Georg Schaefer, Stefano Ongarello, Christian Schwentner, Leo Pallwein, Michael Mitterberger, Eberhard Steiner, Georg Bartsch and Wolfgang Horninger.
Clinical and pathological features of screen vs non-screen-detected prostate cancers: is there a difference?. BJU international 102(1):24–27, July 2008.
DOI BibTeX

Alexandre E Pelzer, Daniela Colleselli, Jasmin Bektic, Eberhard Steiner, Reinhold Ramoner, Michael Mitterberger, Christian Schwentner, Georg Schaefer, Stefano Ongarello, Georg Bartsch and Wolfgang Horninger.
Pathological features of Gleason score 6 prostate cancers in the low and intermediate range of prostate-specific antigen level: is there a difference?. BJU international 101(7):822–825, April 2008.
DOI BibTeX

Sergey V Kozyrev, Anna-Karin Abelson, Jerome Wojcik, Ammar Zaghlool, Prasad M V Linga Reddy, Elena Sanchez, Iva Gunnarsson, Elisabet Svenungsson, Gunnar Sturfelt, Andreas Jönsen, Lennart Truedsson, Bernardo A Pons-Estel, Torsten Witte, Sandra D’Alfonso, Nadia Barizzone, Nadia Barrizzone, Maria Giovanna Danieli, Carmen Gutierrez, Ana Suarez, Peter Junker, Helle Laustrup, Maria Francisca González-Escribano, Javier Martin, Hadi Abderrahim and Marta E Alarcón-Riquelme.
Functional variants in the B-cell gene BANK1 are associated with systemic lupus erythematosus. Nature genetics 40(2):211–216, 2008.
DOI BibTeX

Alexandre E Pelzer, Daniela Colleselli, Jasmin Bektic, Georg Schaefer, Stefano Ongarello, Christian Schwentner, Fritz Aigner, Michael Mitterberger, Eberhard Steiner, Georg Bartsch and Wolfgang Horninger.
Over-diagnosis and under-diagnosis of screen- vs non-screen-detected prostate cancers with in men with prostate-specific antigen levels of 2.0-10.0 ng/mL. BJU international 101(10):1223–1226, 2008.
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Alexandre E Pelzer, Jasmin Bektic, Thomas Akkad, Stefano Ongarello, Georg Schaefer, Christian Schwentner, Ferdinand Frauscher, Georg Bartsch and Wolfgang Horninger.
Under Diagnosis and Over Diagnosis of Prostate Cancer in a Screening Population With Serum PSA 2 to 10 ng/ml. The Journal of Urology 178(1):93–97, July 2007.
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Mickael Guedj, David Robelin, Mark Hoebeke, Marc Lamarine, Jérôme Wojcik and Gregory Nuel.
Detecting local high-scoring segments: a first-stage approach for genome-wide association studies. Statistical applications in genetics and molecular biology 5:Article22, 2006.
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Methods

Abhishek Garg, Kartik Mohanram, Alessandro Di Cara, Gwendoline Degueurce, Mark Ibberson, Julien Dorier and Ioannis Xenarios.
Efficient computation of minimal perturbation sets in gene regulatory networks. Frontiers in physiology 4:361, 2013.
DOI BibTeX

Pratyaksha Wirapati, Karl Forner, Angelica Delgado-Vega, Marta Alarcón-Riquelme, Mauro Delorenzi and Jérôme Wojcik.
Detecting epistasis with restricted response patterns in pairs of biallelic loci. Annals of human genetics 75(1):133–145, 2011.
DOI BibTeX

Karl Forner, Marc Lamarine, Mickaël Guedj, Jérôme Dauvillier and Jérôme Wojcik.
Universal false discovery rate estimation methodology for genome-wide association studies. Human heredity 65(4):183–194, 2008.
DOI BibTeX

Nicolas Omont, Karl Forner, Marc Lamarine, Gwendal Martin, François Képès and Jérôme Wojcik.
Gene-based bin analysis of genome-wide association studies. BMC proceedings 2 Suppl 4:S6, 2008.
BibTeX

Jérôme Wojcik and Karl Forner.
ExactFDR: exact computation of false discovery rate estimate in case-control association studies. Bioinformatics (Oxford, England) 24(20):2407–2408, 2008.
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Alessandro Di Cara, Abhishek Garg, Giovanni De Micheli, Ioannis Xenarios and Luis Mendoza.
Dynamic simulation of regulatory networks using SQUAD. BMC bioinformatics 8:462, 2007.
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Alexandre E Pelzer, Isabel Feuerstein, Christian Fuchsberger, Stefano Ongarello, Jasmin Bektic, Christian Schwentner, Helmut Klocker, George Bartsch and Guenther K Bonn.
Influence of blood sampling on protein profiling and pattern analysis using matrix-assisted laser desorption/ionisation mass spectrometry. BJU international 99(3):658–662, 2007.
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M Guedj, J Wojcik, E Della-Chiesa, G Nuel and K Forner.
A fast, unbiased and exact allelic test for case-control association studies. Human heredity 61(4):210–221, 2006.
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J S Yu, S Ongarello, R Fiedler, X W Chen, G Toffolo, C Cobelli and Z Trajanoski.
Ovarian cancer identification based on dimensionality reduction for high-throughput mass spectrometry data. Bioinformatics 21(10):2200–2209, March 2005.
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Patents

Pascal Croteau, John Raelson, Jérôme Wojcik, Benoit Destenaves, Clément Olivier and Sonia Schnieper-Samec.
Genomic Markers for Prediction of Long-Term Response to Growth Hormone (gh) Therapy. , 2012.
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Jérôme Wojcik and Emmanuel Monnet.
Cladribine Treatment of Multiple Sclerosis in Patient Groups Defined by Genotype. (WO/2011/117267), 2011.
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Hadi Abderrahim, Jérôme Wojcik, Federica Esposito, Giancarlo Comi and Filippo Martinelli Boneschi.
Genetic Markers for Diagnosing Primary Progressive Forms of Multiple Sclerosis. (WO/2010/094525), 2010.
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Hadi Abderrahim, Jérôme Wojcik, Federica Esposito and Virginie Debailleul.
Genetic Severity Markers in Multiple Sclerosis. (WO/2010/127906), 2010.
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Ursula Boschert, Amanda Proudfoot, Linda Kadi, Pierre Alain Vitte and Jérôme Wojcik.
Use of Sdf-1 for the Treatment and/or Prevention of Neurological Diseases. (WO/2007/051785), 2007.
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Our recent work with the NIHS

Transcriptome profiling from adipose tissue during a low-calorie diet reveals predictors of weight and glycemic outcomes in obese, nondiabetic subjects.

 

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Exploratory biomarker analysis

in patients with knee radiographic osteoarthritis

This analysis reveals a genetic epistatic interaction in interleukin 1 receptor antagonist (IL1RN) in these patients

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