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Les leaders de l’AAP Recruiting International Leaders in Oncology : F. BARD, Lauréat 2021 -

The Cibi platform offers a wide range of expertise in bioinformatics
(large scale data integration, development of specific analysis)
and develops state-of-the art bioinformatics pipelines.
We also develop custom-made biological databases for data storage and processing.
Ghislain Bidaut, Platform Manager

Skills and Services

  • NGS (Next Generation Sequencing) data analysis and integration (ChIP-Seq, RNA-Seq, single cell RNA-Seq, Genetic Variants analysis for research and cancer diagnostics)
  • Flow and mass cytometry data analysis
  • Proteomics data analysis
  • Bioinformatics pipelines and database development (Python, R, Bioconductor, RShiny, Django, PostgreSQL, etc…)
  • Projects collaboration (INCa, ANR, ARC, etc…)

Our Pipelines

Trainings

  • We would also underline that we are welcoming applications for Master and engineering school internships.
the Team publications
Jan 2017 PloS one

HTS-Net: An integrated regulome-interactome approach for establishing network regulation models in high-throughput screenings.

Rioualen C, Da Costa Q, Chetrit B, Charafe-Jauffret E, Ginestier C, Bidaut G

Jun 2021 Proceedings of the National Academy of Sciences of the United States of America

High-dimensional mass cytometry analysis of NK cell alterations in AML identifies a subgroup with adverse clinical outcome.

Chretien AS, Devillier R, Granjeaud S, Cordier C, Demerle C, Salem N, Wlosik J, Orlanducci F, Gorvel L, Fattori S, Hospital MA, Pakradouni J, Gregori E, Paul M, Rochigneux P, Pagliardini T, Morey M, Fauriat C, Dulphy N, Toubert A, Luche H, Malissen M, Blaise D, Nunès JA, Vey N, Olive D

Jul 2017 Oncotarget

NKp30 expression is a prognostic immune biomarker for stratification of patients with intermediate-risk acute myeloid leukemia.

Chretien AS, Fauriat C, Orlanducci F, Rey J, Borg GB, Gautherot E, Granjeaud S, Demerle C, Hamel JF, Cerwenka A, von Strandmann EP, Ifrah N, Lacombe C, Cornillet-Lefebvre P, Delaunay J, Toubert A, Arnoulet C, Vey N, Olive D

Nov 2021 American journal of respiratory and critical care medicine

Two New Neutrophil Subsets Define a Discriminating Sepsis Signature.

Meghraoui-Kheddar A, Chousterman BG, Guillou N, Barone SM, Granjeaud S, Vallet H, Corneau A, Guessous K, de Roquetaillade C, Boissonnas A, Irish JM, Combadière C

Aug 2021 Diagnostics (Basel, Switzerland)

Mouth Washing Impaired SARS-CoV-2 Detection in Saliva.

Costa MM, Benoit N, Tissot-Dupont H, Million M, Pradines B, Granjeaud S, Almeras L

Jul 2021 Diagnostics (Basel, Switzerland)

Optimization and Standardization of Human Saliva Collection for MALDI-TOF MS.

Costa MM, Benoit N, Saby F, Pradines B, Granjeaud S, Almeras L

Apr 2021 Journal of oral microbiology

Salivette, a relevant saliva sampling device for SARS-CoV-2 detection.

Melo Costa M, Benoit N, Dormoi J, Amalvict R, Gomez N, Tissot-Dupont H, Million M, Pradines B, Granjeaud S, Almeras L

Jan 2021 Cancers

Quantification of Immune Variables from Liquid Biopsy in Breast Cancer Patients Links Vδ2 γδ T Cell Alterations with Lymph Node Invasion.

Fattori S, Gorvel L, Granjeaud S, Rochigneux P, Rouvière MS, Ben Amara A, Boucherit N, Paul M, Dauplat MM, Thomassin-Piana J, Paciencia-Gros M, Avenin M, Pakradouni J, Barrou J, Charafe-Jauffret E, Houvenaeghel G, Lambaudie E, Bertucci F, Goncalves A, Tarpin C, Nunès JA, Devillier R, Chretien AS, Olive D

Oct 2019 Clinical epigenetics

Epigenetic down-regulation of the HIST1 locus predicts better prognosis in acute myeloid leukemia with NPM1 mutation.

Garciaz S, N'guyen Dasi L, Finetti P, Chevalier C, Vernerey J, Poplineau M, Platet N, Audebert S, Pophillat M, Camoin L, Bertucci F, Calmels B, Récher C, Birnbaum D, Chabannon C, Vey N, Duprez E

Oct 2019 EMBO molecular medicine

A genome-wide RNAi screen reveals essential therapeutic targets of breast cancer stem cells.

Arfaoui A, Rioualen C, Azzoni V, Pinna G, Finetti P, Wicinski J, Josselin E, Macario M, Castellano R, Léonard-Stumpf C, Bal A, Gros A, Lossy S, Kharrat M, Collette Y, Bertucci F, Birnbaum D, Douik H, Bidaut G, Charafe-Jauffret E, Ginestier C

Sep 2019 Oncotarget

Correction: NKp30 expression is a prognostic immune biomarker for stratification of patients with intermediate-risk acute myeloid leukemia.

Chretien AS, Fauriat C, Orlanducci F, Rey J, Borg GB, Gautherot E, Granjeaud S, Demerle C, Hamel JF, Cerwenka A, von Strandmann EP, Ifrah N, Lacombe C, Cornillet-Lefebvre P, Delaunay J, Toubert A, Arnoulet C, Vey N, Olive D

Mar 2019 Cell reports

Nidogen-1 Contributes to the Interaction Network Involved in Pro-B Cell Retention in the Peri-sinusoidal Hematopoietic Stem Cell Niche.

Balzano M, De Grandis M, Vu Manh TP, Chasson L, Bardin F, Farina A, Sergé A, Bidaut G, Charbord P, Hérault L, Bailly AL, Cartier-Michaud A, Boned A, Dalod M, Duprez E, Genever P, Coles M, Bajenoff M, Xerri L, Aurrand-Lions M, Schiff C, Mancini SJC

Jan 2019 Oncoimmunology

HVEM has a broader expression than PD-L1 and constitutes a negative prognostic marker and potential treatment target for melanoma.

Malissen N, Macagno N, Granjeaud S, Granier C, Moutardier V, Gaudy-Marqueste C, Habel N, Mandavit M, Guillot B, Pasero C, Tartour E, Ballotti R, Grob JJ, Olive D