{"_id":"58decc91493bf60f004ea277","version":{"_id":"55faf11ba62ba1170021a9aa","project":"55faf11ba62ba1170021a9a7","__v":38,"createdAt":"2015-09-17T16:58:03.490Z","releaseDate":"2015-09-17T16:58:03.490Z","categories":["55faf11ca62ba1170021a9ab","55faf8f4d0e22017005b8272","55faf91aa62ba1170021a9b5","55faf929a8a7770d00c2c0bd","55faf932a8a7770d00c2c0bf","55faf94b17b9d00d00969f47","55faf958d0e22017005b8274","55faf95fa8a7770d00c2c0c0","55faf96917b9d00d00969f48","55faf970a8a7770d00c2c0c1","55faf98c825d5f19001fa3a6","55faf99aa62ba1170021a9b8","55faf99fa62ba1170021a9b9","55faf9aa17b9d00d00969f49","55faf9b6a8a7770d00c2c0c3","55faf9bda62ba1170021a9ba","5604570090ee490d00440551","5637e8b2fbe1c50d008cb078","5649bb624fa1460d00780add","5671974d1b6b730d008b4823","5671979d60c8e70d006c9760","568e8eef70ca1f0d0035808e","56d0a2081ecc471500f1795e","56d4a0adde40c70b00823ea3","56d96b03dd90610b00270849","56fbb83d8f21c817002af880","573c811bee2b3b2200422be1","576bc92afb62dd20001cda85","5771811e27a5c20e00030dcd","5785191af3a10c0e009b75b0","57bdf84d5d48411900cd8dc0","57ff5c5dc135231700aed806","5804caf792398f0f00e77521","58458b4fba4f1c0f009692bb","586d3c287c6b5b2300c05055","58ef66d88646742f009a0216","58f5d52d7891630f00fe4e77","59a555bccdbd85001bfb1442"],"is_deprecated":false,"is_hidden":false,"is_beta":true,"is_stable":true,"codename":"","version_clean":"1.0.0","version":"1.0"},"parentDoc":null,"category":{"_id":"58458b4fba4f1c0f009692bb","project":"55faf11ba62ba1170021a9a7","version":"55faf11ba62ba1170021a9aa","__v":0,"sync":{"url":"","isSync":false},"reference":false,"createdAt":"2016-12-05T15:44:15.650Z","from_sync":false,"order":6,"slug":"datasets-hub","title":"DATASETS HUB"},"project":"55faf11ba62ba1170021a9a7","__v":0,"user":"5613e4f8fdd08f2b00437620","updates":[],"next":{"pages":[],"description":""},"createdAt":"2017-03-31T21:39:29.169Z","link_external":false,"link_url":"","githubsync":"","sync_unique":"","hidden":false,"api":{"settings":"","results":{"codes":[]},"auth":"required","params":[],"url":""},"isReference":false,"order":4,"body":"[block:callout]\n{\n  \"type\": \"info\",\n  \"body\": \"The CGC is committed to providing its users with the most up-to-date version of the TCGA GRCh38 dataset that is available from the NCI [Genomic Data Commons](https://gdc.cancer.gov/) (GDC). In keeping with this commitment, the CGC transitioned from hosting version 5.0 of this dataset to version 7.0 on August 17, 2017. (See the [GDC Release Notes](https://docs.gdc.cancer.gov/Data/Release_Notes/Data_Release_Notes/) for details of the changes). As of this date, all files accessible via the Data Browser, the API, and SPARQL queries correspond to Data Release 7.0. Files that were added to individual projects before this date correspond to Data Release 5.0 and will continue to be accessible via those projects.\"\n}\n[/block]\nThe Cancer Genome Atlas (TCGA) is one of the richest and most complete genomics datasets and was compiled to understand the molecular basis of cancers. Data collection for TCGA began in 2006 as a joint effort by the <a href=\"https://www.cancer.gov/\" target=\"blank\">National Cancer Institute (NCI)</a>, <a href=\"https://www.genome.gov/\" target=\"blank\">National Human Genome Research Institute (NHGRI)</a>, <a href=\"https://www.nih.gov/\" target=\"blank\">the National Institutes of Health (NIH)</a>, and the <a href=\"http://www.hhs.gov/\" target=\"blank\">U.S. Department of Health and Human Services</a>.\n\nOver the past decade, TCGA has grown to contain data on 33 different tumor types and over 11,000 cases (patients). Between 50 and 1500 cases have been sampled for each tumor type. For each case, multiple samples were analyzed, using microarray technology for genome characterization, and next-generation technology for sequencing. TCGA data currently represents more than 2.5 petabytes of information and is expected to grow as new samples are processed.\n\nThis page details data within TCGA GRCh38. Nomenclature for TCGA GRCh38 is in accordance with GDC. For instance, the category Data type for legacy TCGA data is renamed Data Category for harmonized TCGA GRCh38 data. Similarly, Data subtype in legacy TCGA data is Data type in harmonized GRCh38 data. For a full list of TCGA GRCh38 data available on the CGC, see the table below. The table details data categories and types, the data format of data subtypes, and the access level of each data type.\n[block:image]\n{\n  \"images\": [\n    {\n      \"image\": [\n        \"https://files.readme.io/3fc18eb-Screen_Shot_2017-04-11_at_3.30.21_AM.png\",\n        \"Screen Shot 2017-04-11 at 3.30.21 AM.png\",\n        669,\n        496,\n        \"#434c64\"\n      ]\n    }\n  ]\n}\n[/block]","excerpt":"<a href=\"about-datasets\" style=\"color:#132c56\">ABOUT DATASETS</a> > TCGA GRCh38 data","slug":"tcga-grch38-data","type":"basic","title":"TCGA GRCh38 data"}

TCGA GRCh38 data

<a href="about-datasets" style="color:#132c56">ABOUT DATASETS</a> > TCGA GRCh38 data

[block:callout] { "type": "info", "body": "The CGC is committed to providing its users with the most up-to-date version of the TCGA GRCh38 dataset that is available from the NCI [Genomic Data Commons](https://gdc.cancer.gov/) (GDC). In keeping with this commitment, the CGC transitioned from hosting version 5.0 of this dataset to version 7.0 on August 17, 2017. (See the [GDC Release Notes](https://docs.gdc.cancer.gov/Data/Release_Notes/Data_Release_Notes/) for details of the changes). As of this date, all files accessible via the Data Browser, the API, and SPARQL queries correspond to Data Release 7.0. Files that were added to individual projects before this date correspond to Data Release 5.0 and will continue to be accessible via those projects." } [/block] The Cancer Genome Atlas (TCGA) is one of the richest and most complete genomics datasets and was compiled to understand the molecular basis of cancers. Data collection for TCGA began in 2006 as a joint effort by the <a href="https://www.cancer.gov/" target="blank">National Cancer Institute (NCI)</a>, <a href="https://www.genome.gov/" target="blank">National Human Genome Research Institute (NHGRI)</a>, <a href="https://www.nih.gov/" target="blank">the National Institutes of Health (NIH)</a>, and the <a href="http://www.hhs.gov/" target="blank">U.S. Department of Health and Human Services</a>. Over the past decade, TCGA has grown to contain data on 33 different tumor types and over 11,000 cases (patients). Between 50 and 1500 cases have been sampled for each tumor type. For each case, multiple samples were analyzed, using microarray technology for genome characterization, and next-generation technology for sequencing. TCGA data currently represents more than 2.5 petabytes of information and is expected to grow as new samples are processed. This page details data within TCGA GRCh38. Nomenclature for TCGA GRCh38 is in accordance with GDC. For instance, the category Data type for legacy TCGA data is renamed Data Category for harmonized TCGA GRCh38 data. Similarly, Data subtype in legacy TCGA data is Data type in harmonized GRCh38 data. For a full list of TCGA GRCh38 data available on the CGC, see the table below. The table details data categories and types, the data format of data subtypes, and the access level of each data type. [block:image] { "images": [ { "image": [ "https://files.readme.io/3fc18eb-Screen_Shot_2017-04-11_at_3.30.21_AM.png", "Screen Shot 2017-04-11 at 3.30.21 AM.png", 669, 496, "#434c64" ] } ] } [/block]