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EOSC4Cancer Longitudinal Synthetic Colorectal Cancer Genomic data developed at BSC

The synthetic genomes have been created trying to mimic real cancer data of 4 patients (Named 185,186,187 and 188). Mutations are based on real CRC patients from the PCAWG dataset. For each patient, two tumor samples at different time points and one healthy sample have been simulated. The cancer intra-tumor heterogeneity and evolution in the patients is depicted by simulating reads from tumor subclones separately and then mixing them according to their clonal proportions in each sample. For rapid use and transfer only selected chromosomes have been generated for each patient. Chromosomes per patient: -185: chr4, chr5, chr7, chr17 -186: chr1, chr7, chr12, chr17 -187: chr1, chr2, chr5, chr12, chr17 -188: chr2, chr5, chr12, chr13, chr17 Worflows used to create BAM/BAI, VCF and MAF files from FASTQ (Alignment with GRCh38): - https://usegalaxy.eu/published/workflow?id=2c3d05023c02113e - https://usegalaxy.eu/published/workflow?id=1da86d74f8535f4e

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EGA public datasets

This policy is affiliated to the open access datasets archived at the EGA. Datasets are not subject to controlled access and, as a result, may be distributed without the requirement of a data access application.

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS50000000190 Synthetic Genomics
  • Changed dataset title and description. Changed files in 12 runs. Added 28 analyses
  • added 3 more datasets: VCF, MAF, BAM/BAI files
  • synthetic data
  • Dataset Released

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Located in
EGAF50000086812 fq.gz 12.3 GB
EGAF50000086813 fq.gz 12.3 GB
EGAF50000086814 fq.gz 13.5 GB
EGAF50000086815 fq.gz 13.5 GB
EGAF50000086816 fq.gz 12.1 GB
EGAF50000086817 fq.gz 12.1 GB
EGAF50000086845 vcf 3.0 MB
EGAF50000086846 txt 7.6 kB
EGAF50000086847 bai 2.7 MB
EGAF50000086848 bam 20.8 GB
EGAF50000086851 vcf 2.8 MB
EGAF50000086852 bai 2.7 MB
EGAF50000086853 bam 21.2 GB
EGAF50000086858 bai 2.7 MB
EGAF50000086859 bam 22.2 GB
EGAF50000086871 txt 15.5 kB
EGAF50000127149 fq.gz 5.5 GB
EGAF50000127150 fq.gz 10.7 GB
EGAF50000127217 fq.gz 5.8 GB
EGAF50000127254 fq.gz 9.7 GB
EGAF50000127255 fq.gz 9.7 GB
EGAF50000127256 fq.gz 5.5 GB
EGAF50000127257 fq.gz 6.4 GB
EGAF50000127258 fq.gz 6.4 GB
EGAF50000127259 fq.gz 10.7 GB
EGAF50000127260 fq.gz 12.4 GB
EGAF50000127261 fq.gz 12.4 GB
EGAF50000127262 fq.gz 10.9 GB
EGAF50000127263 fq.gz 10.9 GB
EGAF50000127264 fq.gz 8.2 GB
EGAF50000127265 fq.gz 8.2 GB
EGAF50000127266 fq.gz 8.6 GB
EGAF50000127267 fq.gz 8.6 GB
EGAF50000127268 fq.gz 5.8 GB
EGAF50000127294 vcf 2.1 MB
EGAF50000127295 txt 13.6 kB
EGAF50000127296 txt 13.5 kB
EGAF50000127297 bai 2.6 MB
EGAF50000127298 bam 19.1 GB
EGAF50000127311 bai 2.1 MB
EGAF50000127312 bam 9.4 GB
EGAF50000127313 bam 12.7 GB
EGAF50000127314 bai 2.4 MB
EGAF50000127317 bai 2.4 MB
EGAF50000127318 bam 16.0 GB
EGAF50000127319 bai 2.1 MB
EGAF50000127320 bam 10.8 GB
EGAF50000127321 bai 2.1 MB
EGAF50000127322 bam 9.6 GB
EGAF50000127323 txt 17.1 kB
EGAF50000127324 vcf 2.3 MB
EGAF50000127327 vcf 1.2 MB
EGAF50000127330 txt 10.1 kB
EGAF50000127331 txt 7.9 kB
EGAF50000127334 bam 21.0 GB
EGAF50000127335 bai 2.6 MB
EGAF50000127336 vcf 1.9 MB
EGAF50000127339 vcf 907.8 kB
EGAF50000127358 bai 2.6 MB
EGAF50000127359 bam 17.5 GB
EGAF50000127360 bai 2.4 MB
EGAF50000127361 bam 15.0 GB
EGAF50000127403 txt 8.3 kB
EGAF50000127404 vcf 1.1 MB
64 Files (427.8 GB)