PLATFORM
Platerform manager: Aguirrebengoa Marion et Trouche Didier
Presentation
The use of omics technologies is essential for many projects. The local big-A facility is dedicated to the analysis of this data to allow everyone to use these approaches, which have become indispensable. The missions of the platform are:
• Support CBI teams in their omics data analysis projects by providing guidance for project setup and then assistance with data analysis.
• Develop web-applications in the form of user-friendly graphical interfaces, useful to everyone, based on requests.
• Train users in existing tools, through internal CBI training and occasional user support. Supervise master’s students, interns on the platform, or in the users’ teams.
• Contribute to the development of tools and methods for projects that require more advanced expertise and automate processing through reproducible pipelines
• Integrate the facility in the Toulouse’s bioinformatics network in collaboration with regional platforms (Genotoul Biostat), to be involved in various working groups, and to ensure technology watch.
– Creff J., Nowosad A., Prel A., Pizzocarro A., Aguirrebengoa M., Duquesnes N., Callot C., Jungas T., Dozier C. and Besson A., p57Kip2 acts as a transcriptional corepressor to regulate intestinal stem cell fate and proliferation, Cell Rep, 2023 Jun doi: https://doi.org/10.1016/j.celrep.2023.112659. PMID: 37327110
– Cohen S., Guenolé A., Lazar I., Marnef A., Clouaire T., Vernekar D.V., Puget N., Rocher V., Arnould C., Aguirrebengoa M., Genais M., Firmin N., Shamanna R.A., Mourad R., Bohr V.A., Borde V., Legube G., A POLD3/BLM dependent pathway handles DSBs in transcribed chromatin upon excessive RNA:DNA hybrid accumulation, Nature Communication, 2022 Apr
– Personnaz J., Piccolo E., Dortignac A., Iacovoni J.S., Mariette J., Rocher V., Polizzi A., Batut A., Deleruyelle S., Bourdens L., Delos O., Combes-Soia L., Paccoud R., Moreau E., Martins F., Clouaire T., Benhamed F., Montagner A., Wahli W., Schwabe R.F., Yart A., Castan-Laurell I., Bertrand-Michel J., Burlet-Schiltz O., Postic C., Denechaud P.D., Moro C., Legube G., Lee C.H., Guillou H., Valet P., Dray C., Pradère J.P., Nuclear HMGB1 protects from nonalcoholic fatty liver disease through negative regulation of liver X receptor, Science Advances, 2022 Mar
– Aguirrebengoa M. and Ohayon D., Purification of astrocyte subtype based on a double reporter mice approach for downstream transcription profiling, STAR Protocols, 2021 Dec
– Ohayon D., Aguirrebengoa M., Escalas N., Jungas T., Soula C., Transcriptome profiling of the Olig2-expressing astrocyte subtype reveals their unique molecular signature, iScience, 2021 Jul
– Muniz L., Lazorthes S., Delmas M., Ouvrard J., Aguirrebengoa M., Trouche D., Nicolas E., Circular ANRIL isoforms switch from repressors to activators of p15/CDKN2B expression during RAF1 oncogene-induced senescence, RNA Biol., 2021 Mar 18(3):404-420. doi:10.1080/15476286.2020
– Aguillon R., Madelaine R., Aguirrebengoa M., Guturu H., Link S., Dufourcq P., Lecaudey V., Bejerano G., Blader P., Batut J., Morphogenesis is transcriptionally coupled to neurogenesis during peripheral olfactory organ development, Development, 2020 Nov
– Hebras J., Marty V., Personnaz J., Mercier P., Krogh N., Nielsen H., Aguirrebengoa M., Seitz H., Pradere J.P., Guiard B.P., Cavaille J., Reassessment of the involvement of Snord115 in the serotonin 2c receptor pathway in a genetically relevant mouse model, Elife. 2020 Oct 5;9:e60862, 2020 Oct doi: 10.7554/eLife.60862. PMID: 33016258 Free PMC article
– Lamaa A., Humbert J., Aguirrebengoa M., Cheng X., Nicolas E., Côté J., Trouche D., Integrated analysis of H2A.Z isoforms function reveals a complex interplay in gene regulation, Elife, 2020 Feb 28;9. doi: 10.7554/eLife.53375
– Lepesant J.M.J., Iampietro C., Galeota E., Auge B., Aguirrenbengoa M., Merce C., Chaubet C., Rocher V., Haenlin M., Waltzer L., Pelizzola M., Di Stefano L., A dual role of dLsd1 in oogenesis: regulating developmental genes and repressing transposons, Nucleic Acids Research, 2020 Feb 20;48(3):1206-1224, 2020 Feb
– Clouaire T., Rocher V., Lashgari A., Arnould C., Aguirrebengoa M., Biernacka A., Skrzypczak M., Aymard F., Fongang B., Dojer N., Iacovoni J.S., Rowicka M., Ginalski K., Côté J., Legube G., Comprehensive Mapping of Histone Modifications at DNA Double-Strand Breaks Deciphers Repair Pathway Chromatin Signatures, Molecular Cell, 2018 Oct
– Cohen S., Puget N., Lin Y.L., Clouaire T., Aguirrebengoa M., Rocher V., Pasero P., Canitrot Y., Legube G., Senataxin resolves RNA:DNA hybrids forming at DNA double-strand breaks to prevent translocations, Nature Communication, 2018 Feb
– §Muniz L., §Deb M.K. (§co-first authors), Aguirrebengoa M., Lazorthes S., *Trouche D., *Nicolas E .(*co-last authors), Control of gene expression in senescence through transcriptional read-through of convergent protein-coding genes, Cell Reports, 2017 Nov 21(9):2433-2446.
– §Aymard F., §Aguirrebengoa M., §Guillou E., (§co-first authors) Javierre B.M., Bugler B., Arnould C., Rocher V., Iacovoni J.S., Biernacka A., Skrzypczak M., Ginalski K., Rowicka M., Fraser P., Legube G., Genome-wide mapping of long-range contacts unveils clustering of DNA double-strand breaks at damaged active genes, Nat Struct Mol Biol, 2017 Mar
Affiliation
