From sequencing to biological function
The BDSF analyses transcriptomic and genomic data, from sequencer output to publication. We have the expertise required to process complex data designs. We perform corrections, filtering and analyses to extract the maximum amount of biological information from this data. We provide clear interpretations and visualisations with a view to publishing the results.
Single-cell methods
- scRNA-seq (10X Chromium, Parse Bioscience, Smart-seq)
- scTCR-seq
- Multiome
- CITE-seq
- Spatial transcriptomics (Xenium, Visium CytAssit, CosMx, GeoMx, Stereo-seq)
Bulk methods
- RNA-seq
- BRB-seq
- ChIP-seq
- ATAC-seq
- Chromatin conformation (Hi-C, 4C-seq)
- Ribo-seq
- Nanopore sequencing
- WES
- DNA methylation
- CRISPR-Cas9 screen
- TCR/BCR-seq
Functional analyses
- Differential expression analysis
- Signalling pathway enrichment analyses (GSEA, ORA)
- Discovery of prognostic and predictive biomarkers/signatures
- Transcriptional regulation networks
- Intercellular communication, ligand-receptor (CellChat, NicheNet, CellPhoneDB)
- ProjecTILs
- TCR/BCR repertoire analysis and clonal diversity and expansion
- Detection of mutations/polymorphisms (SNP) and genomic associations (GWAS)
- Alternative splicing
- Time series analysis
Other services
- Experimental design assistance
- Statistical analyses
- Association analyses with clinical data (treatment response, survival, etc.)
- Public data exploration
- Deposit in public databases
Other types of large-scale data
- Proteomics
- Metabolomics
- CyTOF
- Nanostring and protein arrays
- LC-MS/MS
- Lipidomics