Bioinformatics
Data generated from OCCAMS samples using a variety of genomic, transcriptomic, and methylomic sequencing techniques are processed and managed by the Cancer Research UK Cambridge Institute (CI).
The OCCAMS Bioinformatic Pipeline
HPC
Production pipelines running on the CI's high-performance computing cluster perform a range of analyses including read alignment, single nucleotide and structural variant calling, mutational signature analysis, copy number profiling, and expression quantification.
Data Analysis
Further computational and statistical techniques are employed to stratify Barrett's oesophagus and oesophageal adenocarcinoma and to research the biological processes and risk factors involved in their development and progression.
European Genome-phenome Archive
Sequencing reads and methylation array data are deposited at the European Genome-phenome Archive (EGA); these data are made available to members of the wider research community through controlled access protocols.
Visit EGA (ega-archive.org)
ICGC-ARGO
OCCAMS also contributes genomic data to ICGC ARGO; these data and ARGO analyses are available via its data platform.
Visit ICGC-ARGO (icgc-argo.org)
Bioinformatic data
Variant calls, mutational signatures, copy number alterations, and expression data are available to collaborating researchers following application to the OCCAMS Steering Committee.