keywords: 
biotechnologies
molecular and cellular biology
genomics
single-cell RNA sequencing
spatial transcriptomics
quantitative biology
DNA data storage
Wastewater molecular epidemiolgy 
Lung single cell atlas
COPD
Pulmonary hypertension
cystic fibrosis
CFTR
epithelial Na+ channel
 

Since the beginning of 2015, our team has adopted a new approach allowing a study at the single cell level, through a project supported by the Cancéropôle PACA, the french association “Vaincre la Mucoviscidose”, the national infrastructure France Génomique and CD06. Collection of data across millions of cells allow us to study the elementary cells that constitute a human lung, and to analyze their properties under different experimental conditions, either normal, such as development, or pathological conditions, such as in chronic obstructive pulmonary disease, cystic fibrosis, asthma, lung cancer, plumonary hypertension.
Our group is engaged into the "Human Cell Atlas", an international effort to create a reference atlas of all the cells of the human body. The goal is to establish a resource accessible to all for studies in biology / medicine. Project partners commit to building a freely available and easily accessible resource to access data, and to develop the software and standards required for data analysis and sharing, based on best open-source and collaborative development practices. The Human Cell Atlas is a large-scale, long-term international project involving many of the world's leading research institutions. As one of the 38 pilot projects, we develop tools and technologies needed to build an Atlas of the 10¹³ human cells that make a human body. 
The team achieves its research works in close association with the Platform of Functional Genomics, created in 1999 with the support of numerous public and private partners. This allows many biology research teams to gain access to the most advanced high-throughput sequencing technologies (Next Seq 500 Illumina, Oxford Nanopore), and spatial transcriptomics (Merscope, Vizgen; Xenium, 10X Genomics).

Position: Research director (CE) CNRS
Chair Human Lung Cell Atlas at 3IA Cote d'Azur
Creator and head of UCA GenomiX
Coordinator Equipex 4D-OMICs
Scientific director IHU Respirera
President GIP Canceropole PACA
President Scientific Council Vaincre la Mucoviscidose
Past positions: Director of the Institute of Molecular and Cellular Pharmacology in Sophia Antipolis from 2004 to 2017 (20 scientific groups, >20M€ of annual budget). Fostering regional development in quantitative biology. Participation to regional and national coordinations (Vaincre la Mucoviscidose, Cancéropole SUD, France Génomique, IHU RespirERA, Obépine+, PEPR CellID, PEPR Molecularxiv).

Education: polytechnique school (1981-1984), PhD of the University Nice Sophia Antipolis (1989)
Science: Pioneering works in lung and epithelial biology and in genomics: molecular cloning of the amiloride-sensitive epithelial Na+ channel, discovery of the altered chloride channel activity of the main cystic fibrosis mutation and its first direct activator, roles of non-coding RNAs in lung homeostasis, first human lung single-cell atlas, spatial transcriptomics, creation of novel epidemiological approaches to monitor respiratory viruses in wastewater.

Creation and animation of regional and national infrastructure in genomics: France Génomique, UCA GenomiX. First French contributor to the Human Cell Atlas project (supports by European commission, Agence National de la Recherche, Fondation pour la Recherche Médicale, Chan Zuckerberg Foundation).

Contributions to European and national exploratory projects (DiscovAIR, human lung cell atlas; Marie Curie LongTREC, on long read RNA sequencing; PEPR Molecularxiv, use of DNA as a mode of long term storage of information).

185 peer-reviewed publications: https://www.ncbi.nlm.nih.gov/myncbi/18KTYxatgTcAz/bibliography/public/

(25971 citations, H-index = 75, source : https://scholar.google.com/citations?user=0HsbOIYAAAAJ&hl=fr)

Administration of science:

Director of the Institute of Molecular and Cellular Pharmacology in Sophia Antipolis from 2004 to 2017 (20 scientific groups, >20M€ of annual budget). Fostering regional development in genomics, proteomics, lipidomics, and cellular imaging. Participation to regional and national coordinations (Vaincre la Mucoviscidose, Cancéropole SUD, France Génomique, IHU RespirERA, Obépine+, PEPR CellID, PEPR Molecularxiv).

Full list of publications available at: https://scholar.google.com/citations?hl=en&user=0HsbOIYAAAAJ

1. Sikkema L, Ramírez-Suástegui C, Strobl DC, Gillett TE, Zappia L, Madissoon E, Markov NS, Zaragosi LE, Ji Y, Ansari M, Arguel MJ, Apperloo L, Banchero M, Bécavin C, Berg M, Chichelnitskiy E, Chung MI, Collin A, Gay ACA, Gote-Schniering J, Hooshiar Kashani B, Inecik K, Jain M, Kapellos TS, Kole TM, Leroy S, (…) Lung Biological Network Consortium; (…) Barbry P, Duong TE, Falk CS, Meyer KB, Kropski JA, Pe'er D, Schiller HB, Tata PR, Schultze JL, Teichmann SA, Misharin AV, Nawijn MC, Luecken MD, Theis FJ. An integrated cell atlas of the lung in health and disease. Nat Med. 2023 Jun;29(6):1563-1577. doi: 10.1038/s41591-023-02327-2. Epub 2023 Jun 8. PMID: 37291214
2. Lebrigand K, Bergenstråhle J, Thrane K, Mollbrink A, Meletis K, Barbry P*, Waldmann R, Lundeberg J. The spatial landscape of gene expression isoforms in tissue sections. Nucleic Acids Res. 2023 May 8;51(8):e47. doi: 10.1093/nar/gkad169. PMID: 36928528; PMCID: PMC10164556.   * Corresponding author
3. Rios G, Lacoux C, Leclercq V, Diamant A, Lebrigand K, Lazuka A, Soyeux E, Lacroix S, Fassy J, Couesnon A, Thiery R, Mari B, Pradier C, Waldmann R, Barbry P. Monitoring SARS-CoV-2 variants alterations in Nice neighborhoods by wastewater nanopore sequencing. Lancet Reg Health Eur. 2021 Nov;10:100202. doi: 10.1016/j.lanepe.2021.100202. Epub 2021 Aug 17. PMID: 34423327; PMCID: PMC8372489.
4. Lebrigand K, Magnone V, Barbry P*, Waldmann R. High throughput error corrected Nanopore single cell transcriptome sequencing. Nat Commun. 2020 Aug 12;11(1):4025. doi: 10.1038/s41467-020-17800-6. PMID: 32788667; PMCID: PMC7423900. * Corresponding author
5. Deprez M, Zaragosi LE, Truchi M, Becavin C, Ruiz García S, Arguel MJ, Plaisant M, Magnone V, Lebrigand K, Abelanet S, Brau F, Paquet A, Pe'er D, Marquette CH, Leroy S, Barbry P. A Single-Cell Atlas of the Human Healthy Airways. Am J Respir Crit Care Med. 2020 Dec 15;202(12):1636-164 doi: 10.1164/rccm.201911-2199OC. PMID: 32726565.
6. Sandra Ruiz-Garcia†, Marie Deprez†, Kevin Lebrigand, Agnès Paquet, Amélie Cavard, Marie-Jeanne Arguel, Marin Truchi M, Ignacio Caballero, Sylvie Leroy, Charles-Hugo Marquette, Brice Marcet, Pascal Barbry*, Laure-Emmanuelle Zaragosi. Single-cell RNA-seq reveals novel cell differentiation dynamics during human airway epithelium regeneration. Development. 2019 Oct 23;146(20):dev177428. doi: 10.1242/dev.177428. * Corresponding author
7. Brice Marcet, Christelle Coraux*, Benoît Chevalier*, Guillaume Luxardi*, Laure-Emmanuelle Zaragosi, Karine Robbe-Sermesant, Thomas Jolly, Bruno Cardinaud, Chimène Moreilhon, Lisa Giovannini-Chami, Philippe Birembaut, Rainer Waldmann, Laurent Kodjabachian, Pascal Barbry. miR-449 microRNAs trigger vertebrate multiciliogenesis through direct repression of the Notch ligand Delta-like 1. Nature Cell Biology. 13(6):694-701
8. Lebrigand K, Russell R, Moreilhon C, Rouillard J-M. Jost B, Amiot F, Magnone V, Bole-Feysot C, Rostagno P, Virolle V, Defamie V, Dessen P, Williams G, Lyons P, Rios G, Mari B, Gulari E, Kastner P, Gidrol X, Freeman TC, Barbry P. An open-access long oligonucleotide microarray resource for analysis of the human and mouse transcriptomes. Nucleic Acids Research 2006, 34(12):e87.
9. Dalemans W, Barbry P, Champigny G, Jallat S, Dott K, Dreyer D, Crystal RG, Pavirani A, Lecocq JP, Lazdunski M. 1991. Altered chloride ion channel kinetics associated with the delta F508 cystic fibrosis mutation. Nature. 354:526-8
10. Lingueglia E, Voilley N, Waldmann R, Lazdunski M, Barbry P. 1993. Expression cloning of an epithelial amiloride-sensitive Na+ channel. A new channel type with homologies to Caenorhabditis elegans degenerins. FEBS Lett. 318:95-9.