Study
Cancer and germline exomes, and cancer RNA-seq consisiting of FASTQ paired-end reads from melanoma, lung and colon cancer samples
| Study ID | Alternative Stable ID | Type |
|---|---|---|
| EGAS00001005513 | Other |
Study Description
Discovery of patient-specific tumor antigens usually requires in vitro-expanded autologous tumor infiltrating lymphocytes (TILs), among which tumor antigen-specific T cells are however often rare, thus limiting sensitivity. We designed in vitro culture conditions to improve the identification of rare tumor antigen-specific CD8 TILs. This innovative yet accessible pipeline allows highly-sensitive identification of tumor antigens and cognate T cell receptors (TCRs), greatly improving the selection of candidates for personalized cancer vaccines and TCR-based cellular immunotherapies.
Study Datasets 3 datasets.
Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data
| Dataset ID | Description | Technology | Samples |
|---|---|---|---|
| EGAD00001007949 |
Cancer RNA-seq consisting of FASTQ single-end reads from 1 colon-cancer individual
RNA-seq was performed on illumina
This dataset contains reads from a single region.
|
Illumina HiSeq 3000 | 1 |
| EGAD00001007950 |
Cancer and germline exomes consisting of FASTQ reads from 6 individuals (4 melanoma, 1 lung and 1 colon cancer).
Exome sequencing was performed on illumina with a depth of 100x to 200x.
2 Melanoma datasets contain reads from 2 different tumor regions
2 Melanoma datasets contain reads from 1 tumor region and from a tumor derived cell line
1 Melanoma dataset contains reads from 2 healthy tissues
Colon and lung datasets contain both 1 matched germline-tumor pair
|
Illumina HiSeq 4000 | 17 |
| EGAD00001007951 |
Cancer RNA-seq consisting of FASTQ paired-end reads from 6 individuals (4 melanoma, 1 lung cancer).
RNASEQ was performed on illumina, Truseq capture kit, 40M-80M clusters.
2 Melanoma datasets contain reads from 1 tumor region and from a tumor derived cell line
2 Melanoma, 1 Colon and 1 lung datasets contain each reads from a single region.
|
Illumina HiSeq 4000 | 6 |
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