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Jun 26, 2012 12:06 AM | Kayhan Batmanghelich
Public Imaging Genomics dataset
Dear All,
Does anybody know any public-domain Imaging-Genomic (similar to ADNI)? A dataset with structural or functional neuroImage and genotype data?
Thanks,
Kayhan
Does anybody know any public-domain Imaging-Genomic (similar to ADNI)? A dataset with structural or functional neuroImage and genotype data?
Thanks,
Kayhan
Jun 26, 2012 11:06 AM | Moriah Thomason
RE: Public Imaging Genomics dataset
I suggest you look at http://enigma.loni.ucla.edu/about/ to learn who may be helpful to you.
Cheers,
Moriah
Cheers,
Moriah
Jun 26, 2012 01:06 PM | Justin Kirby
RE: Public Imaging Genomics dataset
Check out The Cancer Imaging Archive (TCIA - http://cancerimagingarchive.net) and The Cancer Genome Atlas (TCGA - https://tcga-data.nci.nih.gov/).
TCGA is collecting 500 subjects worth of data from institutes all over the world on 25+ different cancer types. The tissue specimens are being genetically analyzed at sequencing centers and then combined with clinical and pathology data. All of the data is being made freely available in their Data Portal. They have data sets for both glioblastomas and low grade gliomas. GBM has almost 600 subjects last I checked, and LGG is approaching 200. I'm not sure why they went past the originally stated 500 subject goal but who can complain about extra data!
TCIA (a separate initiative) is seeking to build an open/free image archive of cancer related medical images. There are a wide variety of data sets hosted there, but one of the major focuses is on collecting the matching DICOM imaging that were sent to the TCGA project. Subject identifiers are managed in a consistent manner with those in the TCGA Data Portal so that you can correlate findings from the images with the genetics/clinical/pathology.
There is an ad-hoc research team that has popped up which anyone is free to join. They have weekly t-cons where they discuss the various projects that group members are working on. More information about the TCGA Glioma Phenotype Research Group can be found here: https://wiki.cancerimagingarchive.net/di...
In addition to TCGA there is also an image collection in TCIA called REMBRANDT which consists of glio/astro/oligo data. There is corresponding 'omics data hosted in separate data portal. There is also some feature characterization and image markup data available in XLS format. More information on this can be found here: https://wiki.cancerimagingarchive.net/di...
Justin
TCGA is collecting 500 subjects worth of data from institutes all over the world on 25+ different cancer types. The tissue specimens are being genetically analyzed at sequencing centers and then combined with clinical and pathology data. All of the data is being made freely available in their Data Portal. They have data sets for both glioblastomas and low grade gliomas. GBM has almost 600 subjects last I checked, and LGG is approaching 200. I'm not sure why they went past the originally stated 500 subject goal but who can complain about extra data!
TCIA (a separate initiative) is seeking to build an open/free image archive of cancer related medical images. There are a wide variety of data sets hosted there, but one of the major focuses is on collecting the matching DICOM imaging that were sent to the TCGA project. Subject identifiers are managed in a consistent manner with those in the TCGA Data Portal so that you can correlate findings from the images with the genetics/clinical/pathology.
There is an ad-hoc research team that has popped up which anyone is free to join. They have weekly t-cons where they discuss the various projects that group members are working on. More information about the TCGA Glioma Phenotype Research Group can be found here: https://wiki.cancerimagingarchive.net/di...
In addition to TCGA there is also an image collection in TCIA called REMBRANDT which consists of glio/astro/oligo data. There is corresponding 'omics data hosted in separate data portal. There is also some feature characterization and image markup data available in XLS format. More information on this can be found here: https://wiki.cancerimagingarchive.net/di...
Justin