Nat Commun. Volume 6: 10013, 4 December 2016, 10.1038/ncomms10013
Wilms tumor is an embryonal tumor of childhood that closely resembles the developing kidney. Genomic changes responsible for the development of the majority of Wilms tumors remain largely unknown. Here we identify recurrent mutations within Wilms tumors that involve the highly conserved YEATS domain of MLLT1 (ENL), a gene known to be involved in transcriptional elongation during early development. The mutant MLLT1 protein shows altered binding to acetylated histone tails. Moreover, MLLT1-mutant tumors show an increase in MYC gene expression and HOX dysregulation. Patients with MLLT1-mutant tumors present at a younger age and have a high prevalence of precursor intralobar nephrogenic rests. These data support a model whereby activating MLLT1 mutations early in renal development result in the development of Wilms tumor.
This study characterized TARGET cases as described below:
Study cohort (75 cases) |
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75 cases had chip-based GE |
75 cases had mRNA-Seq |
75 cases had miRNA-Seq |
75 cases had CN array |
75 cases had methylation array |
56 cases had WGS |
23 cases had WXS |
75 cases had TCS |
GE=gene expression; CN=copy number, TCS=targeted capture sequencing
In order to access Controlled TARGET WT data using the links below, users must submit an application for Authorized Access via dbGaP as described on dbGaP’s TARGET Study Page. To begin the application process, please view the information and instructions provided on the dbGaP Authorized Access Login Page under “dbGaP Data Download”.
Supplemental Data
- GDC Manifests
- Controlled-Access Data Download Manifest (8 Files)
- Open-Access Data Download Manifest (25 Files)
- WGS CGI Files Download Manifest (82 Files)
- Copy Number Array
- TARGET WT Copy number array Level 1 Data (Controlled)
- TARGET WT Copy number array Level 2 Data (Controlled)
- TARGET WT Copy number array Level 3 Data
- TARGET WT Copy number array Metadata
- Gene Expression Array
- mRNA-Seq
- TARGET WT mRNA-Seq Level 3 data
- TARGET WT mRNA-Seq Level 3 data (Controlled)
- TARGET WT mRNA-Seq Metadata
- miRNA-Seq
- Whole Exome Sequencing
- TARGET WT WXS Level 3 Data
- TARGET WT WXS Level 3 Data (Controlled)
- TARGET WT WXS Design
- TARGET WT WXS Metadata
- Methylation Array
- TARGET WT Methylation array Level 1 Data (Controlled)
- TARGET WT Methylation array Level 2 Data
- TARGET WT Methylation array Level 3 Data
- TARGET WT Methylation array Level 4 Data
- TARGET WT Methylation array Metadata
- Whole Genome Sequencing
- TARGET WT WGS Level 3 Data
- TARGET WT WGS Level 3 Data (Controlled)
- TARGET WT WGS Level 4 Data
- TARGET WT WGS Metadata
- Targeted Capture Sequencing
- TARGET WT Targeted Capture Sequencing Level 3 Data (Controlled)
- TARGET WT Targeted Capture Sequencing Design
- TARGET WT Targeted Capture Sequencing Metadata
- Miscellaneous Files
- TARGET WT Sample Matrices
- TARGET WT CGI Requested Reports (Controlled)
Additional Resources
- TARGET-WT at SRA (link is external) NCBI
Instructions for Data Download
Open Access Data
- Download the appropriate manifest file from the publication page
- Use the manifest file to download data using the GDC Data Transfer Tool (DTT) or the GDC API
- GDC DTT ( Download, User's Guide)
- GDC API ( User’s Guide)
Controlled Access Data
- Download the appropriate manifest file from the publication page
- Download a token from the GDC Data Portal
- GDC Data Portal ( Launch, User’s Guide)
- Use the manifest file and token to download data using the GDC DTT or the GDC API
- GDC DTT ( Download, User’s Guide)
- GDC API ( User’s Guide)
For assistance, please contact the GDC Help Desk: support@nci-gdc.datacommons.io.