BiBs : Bioinformatics and Biostatistics
The Epigenetics and Cell Fate lab BiBs facility provides a broad range of services related to bioinformatics.
Picture from Gerd Altmann, source: Pixabay.
The BiBs platform is part of and actively contributes to the development of the iPOP-UP platform which federates and promotes bioinformatics at the level of the Université Paris Cité.
The facility includes two permanent staff and regularly welcomes trainees or apprentices.
Our expertise is about the analysis of high-throughput sequencing data (Illumina and Oxford Nanopore). We can guide you on analyzing different types of omics data:
- Transcriptome (RNA-seq)
- Methylome (bisulphite sequencing, or direct long-read detection by nanopore)
- Genomic localization of transcription factors or histone marks (ChIP-seq or CUT&RUN)
- Chromatin accessibility (ATAC-seq)
- Chromosome conformation (Hi-C)
In addition to ‘bulk’ analyses, we are strengthening our skills in the analysis of ‘single-cell’ data, in particular thanks to the iPOP-UP network.
We are also experts in the integration of different bioinformatics tools within workflows (Snakemake), which makes analyzes reproducible and accessible to a wide audience of researchers. Our workflows are compatible with the high performance computing clusters of the Université Paris Cité (iPOP-UP, hosted by RPBS) and the French Institute of Bioinformatics.
Finally, we have expertise in data management (drafting of data management plans, FAIR principles).
Experimental design: advice on the choice of sequencing technique, the necessary depth, the controls, the number of biological replicates…
Development of high throughput sequencing data analysis workflows and support in their use.
Support in the use of the iPOP-UP high-performance computing cluster and organization of dedicated training.
Maintenance and promotion of the bioinformatics tools developed by members of the laboratory.
On-demand training on the use of bioinformatics tools to develop user autonomy.
Proofreading of articles or funding requests concerning projects using NGS analyses.
Assistance in the recruitment of interns, doctoral students, post-doctoral fellow or engineers in charge of omics data analysis.
Best practice recommendations for data management and analysis based on the FAIR principles.
Lamarck B building, room 366b
35 rue Hélène Brion, 75013 Paris
Congratulations on the new work "ZBTB24 is a conserved multifaceted transcription factor at genes and centromeres that governs the DNA methylation state and expression of satellite repeats" by Grillo et al. shared on bioRxiv. Read here:...
Congratulations to the Defossez team for their paper "A genetic screen identifies BEND3 as a regulator of bivalent gene expression and global DNA methylation" by Yakhou, Azogui, Gupta et al., which was published in Nucleic Acid Research. Read it here: doi:...
Congratulations to the Defossez group for their paper published in Nature Strucural and Molecular Biology
Congratulations to the Defossez group for their paper "A genome-wide screen reveals new regulators of the 2-cell-like cell state" by Gupta, Yakhou et al., published in Nature Structural and Molecular Biology. Read it here: doi: 10.1038/s41594-023-01038-z ...
Tuesday, October 17th, 2023, at 11:00 am Jacques Côté CHU de Québec/Université Laval, CanadaInvited by Sophie Polo and Claire Rougeulle “MYST-family chromatin modifying complexes in genome expression/stability and disease” The seminar will take place in the Institut...