big-A Facility

Presentation

Missions :

Genome wide technologies are now part of many projects. the CBI has developped a local core facility to process and analyse that kind of data and make these technologies accessible to every CBI's team.

The core facility missions are :

- Help CBI's teams to process their high throughput sequencing data, by being implicated at the earliest stage of new project requiring next generation sequencing tools and processing/analysing the data.

- Develop pipelines and user-friendly applications, at the request, to automatize certain tasks.

- Take charge of the user trainings on existing tools via Internal CBI trainings (Biostat/R and Bioinfo/Galaxy) and user support. The core facility can also supervise or co-supervise students, on the core facility or in the teams.

- Develop methods and tools for project requiring particular expertise (statistics, mathematics or bioinformatics) on advanced questions (new technology, multi-scale analysis, comparative and integrated analysis...).

- Insert the core facility in a local bioinformatic network by working with other institutions and core facility (plateau bioinfo I2MC, GenoToul Biostat, local workshop...) and scientific and technological monitoring.

Publications

• Creff J., Nowosad A., Prel A., Pizzocarro A., Aguirrebengoa M., Duquesnes N., Callot C., Jungas T., Dozier C. and A. Besson.
  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 DV, Puget N, Rocher V, Arnould C, Aguirrebengoa M, Genais M, Firmin N, Shamanna RA, Mourad R, Bohr VA, 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 JS, 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 RF, Yart A, Castan-Laurell I, Bertrand-Michel J, Burlet-Schiltz O, Postic C, Denechaud PD, Moro C, Legube G, Lee CH, Guillou H, Valet P, Dray C, Pradère JP..
  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

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Funding