We present a multi-omics proteome and transcriptome analysis of a Danish colorectal cancer tumor cohort composed of 428 fresh frozen biopsies from tumors of 387 patients mainly diagnosed with TNM stage II or III disease. The proteome data of 428 samples from 387 patients, and the phosphoproteome of 54 samples from 53 patients is deposited at the ProteomeXchange Consortium via the PRIDE partner repository. Proteomics data is available via ProteomeXchange with identifier PXD044246. The RNA sequencing data from 372 matching samples from 330 patients is deposited here and consist of three batches in accordance with the three sequencing technologies used (Dataset IDs: A; B; C; see below). RNA sequencing data from dataset ID A and B was previously published as part of manuscripts PMID: 33332369 and PMID: 28494874, respectively. Details regarding patient selection, tumor sample preparation, RNA isolation and sequencing can be found in the original publication listed below.
| Dataset ID | Sample number | Sample type | Technology | Sequencing platform |
|---|---|---|---|---|
| A | 147 | Tumor RNA | Illumina NGS, TruSeq | Illumina Hiseq 2000 |
| B | 34 | Tumor RNA | Illumina NGS, ScriptSeq v2 | Illumina NextSeq500 |
| C | 191 | Tumor RNA | Illumina NGS, KAPA RNA HyperPrep | Illumina NovaSeq 6000 |
Martinez-Val et al. Proteomics of colorectal tumors identifies the role of CAVIN1 in tumor formation and progression.
External researchers (academic or commercial) interested in analysing the colorectal cancer dataset will need to contact the Data Access Committee via email to cla@clin.au.dk. The Data Access Committee is formed of Claus Lindbjerg Andersen, Jesper Bertram Bramsen, and Ole Halfdan Larsen (Department of Clinical Medicine, Aarhus University). Due to Danish Law, for the authors to be allowed to share the data (pseudonymized) it will require prior approval from The Danish National Committee on Health Research Ethics (or similar) for the specific new research goal. The author (based in Denmark) must submit the application for ethical approval, with the external researcher(s) as named collaborator(s). In addition to ethical approval, a Collaboration Agreement and a Data Processing Agreement is required, both of which must be approved by the legal office of the institution of the author (data owner) and the legal office of the institution of the external researcher (data processor).