Position and Education

• CNRS research engineer, GQE-Le Moulon (Gif-sur-Yvette, France), 2004-present
• CNRS engineer, EGCE (Gif-sur-Yvette, France), 1996-2003
• Bioinformatics post graduate degree (Université Pierre et Marie Curie, Paris VI), 1995

Research interests

I am interested in computational challenges raised by highthroughtput proteomics studies (data storage and intensive calculation). In charge of the bioinformatics developments of the PAPPSO team, I thus lead several projects :

• i2MassChroQ   (), for peptide identification, protein inference and quantification
• MassChroQ   (1), mass spectrometry based quantification software
• PROTICdb   (2), proteomic database to store, publish and query proteomics data

We have developped a complete solution using free softwares and common hardware to store 50Tbytes per year and offering high speed connection to an HPC cluster (based on ceph and Slurm).

I am also involved in the GQE Bioinformatics facility ( ABI   ), in which I lead the ABI-SYS   group (system).

Bibliography

1. Valot B., Langella O. , Nano E., Zivy M.. (2011) MassChroQ: a versatile tool for mass spectrometry quantification. Proteomics, 17 (11) 3572-7
2. Langella O. , Valot B., Jacob D., Balliau T., Flores R., Hoogland C., Joets J., Zivy M.. (2013) Management and dissemination of MS proteomic data with PROTICdb: Example of a quantitative comparison between methods of protein extraction. Proteomics, 9 (13) 1457-66

Publications

2024

• Langella O. , Renne T., Balliau T., Davanture M., Brehmer S., Zivy M., Blein-Nicolas M., Rusconi F.. (2024) Full Native timsTOF PASEF-Enabled Quantitative Proteomics with the i2MassChroQ Software Package. J. Proteome Res., 8 (23) 3353-3366
• Voedts H., Anoyatis-Pelé C., Langella O. , Rusconi F., Hugonnet JE., Arthur M.. (2024) (p)ppGpp modifies RNAP function to confer β-lactam resistance in a peptidoglycan-independent manner. Nat Microbiol, 3 (9) 647-656

2023

• Prunier G., Cherkaoui M., Lysiak A., Langella O. , Blein-Nicolas M., Lollier V., Benoist E., Jean G., Fertin G., Rogniaux H., Tessier D.. (2023) Fast alignment of mass spectra in large proteomics datasets, capturing dissimilarities arising from multiple complex modifications of peptides. BMC Bioinformatics, 1 (24) 421

2022

• Henry C., Bassignani A., Berland M., Langella O. , Sokol H., Juste C.. (2022) Modern Metaproteomics: A Unique Tool to Characterize the Active Microbiome in Health and Diseases, and Pave the Road towards New Biomarkers—Example of Crohn’s Disease and Ulcerative Colitis Flare-Ups. Cells, 8 (11) 1340
• Plancade S., Berland M., Blein-Nicolas M., Langella O. , Bassignani A., Juste C.. (2022) A combined test for feature selection on sparse metaproteomics data—an alternative to missing value imputation. PeerJ, (10) e13525

2021

• Bassignani A., Plancade S., Berland M., Blein-Nicolas M., Guillot A., Chevret D., Moritz C., Huet S., Rizkalla S., Clément K., Doré J., Langella O. , Juste C.. (2021) Benefits of Iterative Searches of Large Databases to Interpret Large Human Gut Metaproteomic Data Sets. J. Proteome Res.,
• Langella O. , Rusconi F.. (2021) mineXpert2 : Full-Depth Visualization and Exploration of MS ⁿ Mass Spectrometry Data. J. Am. Soc. Mass Spectrom., 4 (32) 1138-1141
• Van Den Bossche T., Kunath BJ., Schallert K., Schäpe SS., Abraham PE., Armengaud J., Arntzen M., Bassignani A., Benndorf D., Fuchs S., Giannone RJ., Griffin TJ., Hagen LH., Halder R., Henry C., Hettich RL., Heyer R., Jagtap P., Jehmlich N., Jensen M., Juste C., Kleiner M., Langella O. , Lehmann T., Leith E., May P., Mesuere B., Miotello G., Peters SL., Pible O., Queiros PT., Reichl U., Renard BY., Schiebenhoefer H., Sczyrba A., Tanca A., Trappe K., Trezzi JP., Uzzau S., Verschaffelt P., von Bergen M., Wilmes P., Wolf M., Martens L., Muth T.. (2021) Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows. Nat Commun, 1 (12) 7305

2017

• Langella O. , Valot B., Balliau T., Blein-Nicolas M., Bonhomme L., Zivy M.. (2017) X!TandemPipeline: A Tool to Manage Sequence Redundancy for Protein Inference and Phosphosite Identification. J. Proteome Res., 2 (16) 494-503

2016

• Sabarly V., Aubron C., Glodt J., Balliau T., Langella O. , Chevret D., Rigal O., Bourgais A., Picard B., de Vienne D., Denamur E., Bouvet O., Dillmann C.. (2016) Interactions between genotype and environment drive the metabolic phenotype within Escherichia coli isolates. Environmental microbiology, 1 (18) 100-17

2013

• Albertin W., Marullo P., Bely M., Aigle M., Bourgais A., Langella O. , Balliau T., Chevret D., Valot B., da Silva T., Dillmann C., de Vienne D., Sicard D.. (2013) Linking post-translational modifications and variation of phenotypic traits. Molecular & cellular proteomics : MCP, 3 (12) 720-35
• Langella O. , Valot B., Jacob D., Balliau T., Flores R., Hoogland C., Joets J., Zivy M.. (2013) Management and dissemination of MS proteomic data with PROTICdb: Example of a quantitative comparison between methods of protein extraction. Proteomics, 9 (13) 1457-66

2011

• Valot B., Langella O. , Nano E., Zivy M.. (2011) MassChroQ: a versatile tool for mass spectrometry quantification. Proteomics, 17 (11) 3572-7