Variant calling for NIRV-NSCLC4 cohort
The goal of IMMUcan is to understand how the immune system interacts with tumors and how therapeutic interventions influence this interaction. This cohort includes patients from the Nirvana (NCT03774732) trial treated with PD-1 Inhibitor and Chemotherapy with Concurrent Irradiation at Varied Tumour Sites in Advanced Non-small Cell Lung Cancer. This dataset contains whole exome sequencing data from tumor samples processed with the Vegan pipeline. Variant calling is performed against two Panel of Normals (one for each biological sex) computed (https://gatk.broadinstitute.org/hc/en-us/articles/360035531132) using 60 samples from the same sex, from the IMMUcan study. It includes SNP and CNV calling.
- 03/11/2026
- 52 samples
- DAC: EGAC50000000829
- Technology: Illumina Genome Analyzer II
- Archive: European Genome-phenome Archive (EGA)
DUO:0000007 version: 2021-02-23
disease specific research
This data use permission indicates that use is allowed provided it is related to the specified disease.
ModifiersMONDO:0045054
DUO:0000019 version: 2021-02-23
publication required
This data use modifier indicates that requestor agrees to make results of studies using the data available to the larger scientific community.
DUO:0000021 version: 2021-02-23
ethics approval required
This data use modifier indicates that the requestor must provide documentation of local IRB/ERB approval.
DUO:0000026 version: 2021-02-23
user specific restriction
This data use modifier indicates that use is limited to use by approved users.
DUO:0000027 version: 2021-02-23
project specific restriction
This data use modifier indicates that use is limited to use within an approved project.
DUO:0000028 version: 2021-02-23
institution specific restriction
This data use modifier indicates that use is limited to use within an approved institution.
Terms of use to access IMMUcan data v2.0
The applicant needs to agree with the Terms of use to access IMMUcan data through EGA.
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 |
|---|---|---|
| EGAS50000002115 | Cancer Genomics |
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 | Quality Report |
Located in
i
|
|---|---|---|---|---|
| EGAF50000975733 | vcf.gz | 4.6 kB |
|
|
| EGAF50000975734 | vcf.gz | 116.2 kB |
|
|
| EGAF50000975736 | vcf.gz | 8.7 kB |
|
|
| EGAF50000975737 | vcf.gz | 912.3 kB |
|
|
| EGAF50000975739 | vcf.gz | 4.6 kB |
|
|
| EGAF50000975740 | vcf.gz | 952.3 kB |
|
|
| EGAF50000975742 | vcf.gz | 8.7 kB |
|
|
| EGAF50000975743 | vcf.gz | 152.3 kB |
|
|
| EGAF50000975745 | vcf.gz | 14.5 kB |
|
|
| EGAF50000975746 | vcf.gz | 202.6 kB |
|
|
| EGAF50000975748 | vcf.gz | 6.1 kB |
|
|
| EGAF50000975749 | vcf.gz | 246.4 kB |
|
|
| EGAF50000975751 | vcf.gz | 5.6 kB |
|
|
| EGAF50000975752 | vcf.gz | 91.2 kB |
|
|
| EGAF50000975754 | vcf.gz | 8.7 kB |
|
|
| EGAF50000975755 | vcf.gz | 125.4 kB |
|
|
| EGAF50000975757 | vcf.gz | 19.5 kB |
|
|
| EGAF50000975758 | vcf.gz | 156.5 kB |
|
|
| EGAF50000975760 | vcf.gz | 11.5 kB |
|
|
| EGAF50000975761 | vcf.gz | 120.1 kB |
|
|
| EGAF50000975763 | vcf.gz | 9.4 kB |
|
|
| EGAF50000975764 | vcf.gz | 120.6 kB |
|
|
| EGAF50000975766 | vcf.gz | 7.4 kB |
|
|
| EGAF50000975767 | vcf.gz | 243.0 kB |
|
|
| EGAF50000975769 | vcf.gz | 6.1 kB |
|
|
| EGAF50000975770 | vcf.gz | 116.9 kB |
|
|
| EGAF50000975772 | vcf.gz | 3.8 kB |
|
|
| EGAF50000975773 | vcf.gz | 427.2 kB |
|
|
| EGAF50000975775 | vcf.gz | 15.0 kB |
|
|
| EGAF50000975776 | vcf.gz | 188.2 kB |
|
|
| EGAF50000975778 | vcf.gz | 7.3 kB |
|
|
| EGAF50000975779 | vcf.gz | 224.7 kB |
|
|
| EGAF50000975781 | vcf.gz | 8.8 kB |
|
|
| EGAF50000975782 | vcf.gz | 303.6 kB |
|
|
| EGAF50000975784 | vcf.gz | 7.9 kB |
|
|
| EGAF50000975785 | vcf.gz | 102.2 kB |
|
|
| EGAF50000975787 | vcf.gz | 8.2 kB |
|
|
| EGAF50000975788 | vcf.gz | 104.0 kB |
|
|
| EGAF50000975790 | vcf.gz | 6.9 kB |
|
|
| EGAF50000975791 | vcf.gz | 329.7 kB |
|
|
| EGAF50000975793 | vcf.gz | 8.8 kB |
|
|
| EGAF50000975794 | vcf.gz | 165.7 kB |
|
|
| EGAF50000975796 | vcf.gz | 7.5 kB |
|
|
| EGAF50000975797 | vcf.gz | 141.1 kB |
|
|
| EGAF50000975799 | vcf.gz | 11.2 kB |
|
|
| EGAF50000975800 | vcf.gz | 147.2 kB |
|
|
| EGAF50000975802 | vcf.gz | 11.7 kB |
|
|
| EGAF50000975803 | vcf.gz | 178.2 kB |
|
|
| EGAF50000975805 | vcf.gz | 6.4 kB |
|
|
| EGAF50000975806 | vcf.gz | 254.8 kB |
|
|
| EGAF50000975808 | vcf.gz | 6.8 kB |
|
|
| EGAF50000975809 | vcf.gz | 355.7 kB |
|
|
| EGAF50000975812 | vcf.gz | 8.4 kB |
|
|
| EGAF50000975813 | vcf.gz | 233.4 kB |
|
|
| EGAF50000975815 | vcf.gz | 17.5 kB |
|
|
| EGAF50000975816 | vcf.gz | 83.6 kB |
|
|
| EGAF50000975818 | vcf.gz | 9.2 kB |
|
|
| EGAF50000975819 | vcf.gz | 260.6 kB |
|
|
| EGAF50000975821 | vcf.gz | 5.8 kB |
|
|
| EGAF50000975822 | vcf.gz | 160.3 kB |
|
|
| EGAF50000975824 | vcf.gz | 6.1 kB |
|
|
| EGAF50000975825 | vcf.gz | 387.1 kB |
|
|
| EGAF50000975827 | vcf.gz | 10.2 kB |
|
|
| EGAF50000975828 | vcf.gz | 121.4 kB |
|
|
| EGAF50000975830 | vcf.gz | 8.6 kB |
|
|
| EGAF50000975831 | vcf.gz | 116.5 kB |
|
|
| EGAF50000975833 | vcf.gz | 9.3 kB |
|
|
| EGAF50000975834 | vcf.gz | 153.1 kB |
|
|
| EGAF50000975836 | vcf.gz | 11.0 kB |
|
|
| EGAF50000975837 | vcf.gz | 214.1 kB |
|
|
| EGAF50000975840 | vcf.gz | 15.9 kB |
|
|
| EGAF50000975841 | vcf.gz | 101.2 kB |
|
|
| EGAF50000975843 | vcf.gz | 16.7 kB |
|
|
| EGAF50000975844 | vcf.gz | 180.0 kB |
|
|
| EGAF50000975846 | vcf.gz | 7.6 kB |
|
|
| EGAF50000975847 | vcf.gz | 199.1 kB |
|
|
| EGAF50000975849 | vcf.gz | 7.0 kB |
|
|
| EGAF50000975850 | vcf.gz | 102.9 kB |
|
|
| EGAF50000975852 | vcf.gz | 8.3 kB |
|
|
| EGAF50000975853 | vcf.gz | 206.6 kB |
|
|
| EGAF50000975855 | vcf.gz | 9.0 kB |
|
|
| EGAF50000975856 | vcf.gz | 125.0 kB |
|
|
| EGAF50000975858 | vcf.gz | 5.4 kB |
|
|
| EGAF50000975859 | vcf.gz | 101.2 kB |
|
|
| EGAF50000975862 | vcf.gz | 10.7 kB |
|
|
| EGAF50000975863 | vcf.gz | 219.5 kB |
|
|
| EGAF50000975865 | vcf.gz | 7.0 kB |
|
|
| EGAF50000975866 | vcf.gz | 351.2 kB |
|
|
| EGAF50000975868 | vcf.gz | 7.8 kB |
|
|
| EGAF50000975869 | vcf.gz | 733.1 kB |
|
|
| EGAF50000975871 | vcf.gz | 12.5 kB |
|
|
| EGAF50000975872 | vcf.gz | 398.9 kB |
|
|
| EGAF50000975874 | vcf.gz | 3.4 kB |
|
|
| EGAF50000975875 | vcf.gz | 3.8 MB |
|
|
| EGAF50000975877 | vcf.gz | 6.6 kB |
|
|
| EGAF50000975878 | vcf.gz | 117.0 kB |
|
|
| EGAF50000975880 | vcf.gz | 6.2 kB |
|
|
| EGAF50000975881 | vcf.gz | 262.8 kB |
|
|
| EGAF50000975883 | vcf.gz | 5.6 kB |
|
|
| EGAF50000975884 | vcf.gz | 106.0 kB |
|
|
| EGAF50000975992 | fastq.gz | 4.6 GB |
|
|
| EGAF50000975993 | fastq.gz | 4.6 GB |
|
|
| EGAF50000975994 | fastq.gz | 4.8 GB |
|
|
| EGAF50000975995 | fastq.gz | 4.5 GB |
|
|
| EGAF50000975996 | fastq.gz | 3.8 GB |
|
|
| EGAF50000975997 | fastq.gz | 4.5 GB |
|
|
| EGAF50000975998 | fastq.gz | 4.5 GB |
|
|
| EGAF50000975999 | fastq.gz | 3.3 GB |
|
|
| EGAF50000976000 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976001 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976002 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976003 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976004 | fastq.gz | 3.6 GB |
|
|
| EGAF50000976005 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976006 | fastq.gz | 3.5 GB |
|
|
| EGAF50000976007 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976008 | fastq.gz | 3.5 GB |
|
|
| EGAF50000976009 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976010 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976011 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976012 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976013 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976014 | fastq.gz | 4.4 GB |
|
|
| EGAF50000976015 | fastq.gz | 3.6 GB |
|
|
| EGAF50000976016 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976017 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976018 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976019 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976020 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976021 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976022 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976023 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976024 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976025 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976026 | fastq.gz | 3.7 GB |
|
|
| EGAF50000976027 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976028 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976029 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976030 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976031 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976032 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976033 | fastq.gz | 4.4 GB |
|
|
| EGAF50000976034 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976035 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976036 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976037 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976038 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976039 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976040 | fastq.gz | 3.6 GB |
|
|
| EGAF50000976041 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976042 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976043 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976044 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976045 | fastq.gz | 3.5 GB |
|
|
| EGAF50000976046 | fastq.gz | 4.0 GB |
|
|
| EGAF50000976047 | fastq.gz | 3.5 GB |
|
|
| EGAF50000976048 | fastq.gz | 3.6 GB |
|
|
| EGAF50000976049 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976050 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976051 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976052 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976053 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976054 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976055 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976056 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976057 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976058 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976059 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976060 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976061 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976062 | fastq.gz | 4.0 GB |
|
|
| EGAF50000976063 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976064 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976065 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976066 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976067 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976068 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976069 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976070 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976071 | fastq.gz | 3.5 GB |
|
|
| EGAF50000976072 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976073 | fastq.gz | 3.3 GB |
|
|
| EGAF50000976074 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976075 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976076 | fastq.gz | 3.7 GB |
|
|
| EGAF50000976077 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976078 | fastq.gz | 3.6 GB |
|
|
| EGAF50000976079 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976080 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976081 | fastq.gz | 4.7 GB |
|
|
| EGAF50000976082 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976083 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976084 | fastq.gz | 3.5 GB |
|
|
| EGAF50000976085 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976086 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976087 | fastq.gz | 3.5 GB |
|
|
| EGAF50000976088 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976089 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976090 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976091 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976092 | fastq.gz | 4.5 GB |
|
|
| EGAF50000976093 | fastq.gz | 3.6 GB |
|
|
| EGAF50000976094 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976095 | fastq.gz | 4.6 GB |
|
|
| EGAF50000976096 | vcf.gz | 191.5 kB |
|
|
| EGAF50000976097 | vcf.gz | 126.7 kB |
|
|
| EGAF50000976098 | vcf.gz | 8.9 kB |
|
|
| EGAF50000976099 | vcf.gz | 12.6 kB |
|
|
| 208 Files (454.4 GB) | ||||