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Description

This dataset contains DICOM-SEG (DSO) conversions of the  Segmentation Labels and Radiomic Features for the Pre-operative Scans of the TCGA-LGG collection and  and  Segmentation Labels and Radiomic Features for the Pre-operative Scans of the TCGA-GBM collection analysis  analysis datasets.
 
The MR volumes and segmentations provided in the original segmentation datasets (T1 pre-contrast, T1 post-contrast, T2, FLAIR) are in NIfTI format, co-registered to an atlas space, and re-sampled to 1mm isotropic resolution. This dataset contains DICOM-SEG versions of the same segmentations, transformed back into the original patient resolutions and orientations found in the TCIA’s TCIA’s TCGA-GBM and  and TCGA-LGG  datasetsdatasets. This allows users to extract features from MR sequences without introducing interpolation artifacts from isotropic resampling.
 
The process for creating these DSO objects is as follows. Patient data from the original NIfTI datasets were registered and resampled from isotropic space to patient space and resolution using  3DSlicer’s BRAINSFit module . The affine transformation files from these registrations are used to register and resample both the semi-automatic and automatic NIfTI segmentations into the spaces of each original MR DICOM dataset. These transformed NIfTI segmentations are then converted into DICOM-SEG datasets using the software package  dcmqi . Because each MR sequence has a unique patient space and resolution, the resulting dataset contains four DSO segmentations for each original NIfTI segmentation.

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Localtab Group

Localtab active true title Data Access Data Access Tcia head license access Be sure to "request dataset" with these : DICOM-Glioma-SEG, TCGA-GBM, and TCGA-LGG in your Agreement on page 1 so that we can process your request efficiently. Complete all pages.Click the Download button to save a ".tcia" manifest file to your computer, which you must open with the NBIA Data Retriever Data Type Download all or Query/Filter TCGA-LGG images - 65 subjects License Segmentations (DICOM, 17 4 GB) Image RemovedImage Removed TCGA-GBM images - 102 subjects (DICOM, 32 GB) Image RemovedImage Removed Segmentations -  (DICOM, 4 GB) Image RemovedImage Removed Tcia button generator url https://wiki.cancerimagingarchive.net/download/attachments/41517733/TCGA-GBM%20MR%20Images%20DICOM%20Seg%20Conversions%20NBIA-manifest%20April%202020.tcia?api=v2 Tcia button generator label Search url https://nbia.cancerimagingarchive.net/nbia-search/?CollectionCriteria=TCGA-GBM,TCGA-LGG?text-search=ow6ce3ml (Download requires the NBIA Data Retriever and permission) Tcia restricted license DCMQI Metadata (JSON , TXT, DCMQI Metadata ( ZIP, 3.1 MB) Image Removed Tcia button generator url https://wiki.cancerimagingarchive.net/download/attachments/41517733/TCGA_Segmentation%20DCMQI%20Metadata.zip?api=v2 Tcia cc by 4 TCGA key mapping (CSV) Image Removed Tcia button generator url https://wiki.cancerimagingarchive.net/download/attachments/41517733/TCGA_DSO_Key.csv?api=v2 Tcia cc by 4 Please contact help@cancerimagingarchive.net  with any questions regarding usage. Collections Used in this Third Party Analysis Below is a list of the Collections used in these analyses: Tcia head license access Data Type Download all or Query/Filter License Corresponding Original MR Images from TCGA-LGG images 65 subjects (DICOM, MR, 17 GB) Tcia button generator url https://wiki.cancerimagingarchive.net/download/attachments/41517733/doiJNLP-JAMS4RFq.tcia?api=v2 Tcia button generator label Search url https://nbia.cancerimagingarchive.net/nbia-search/?ImageModalityCriteria=MR&MinNumberOfStudiesCriteria=1&PatientCriteria=TCGA-CS-4942,TCGA-CS-4944,TCGA-CS-5393,TCGA-CS-5396,TCGA-CS-5397,TCGA-CS-6186,TCGA-CS-6188,TCGA-CS-6665,TCGA-CS-6666,TCGA-CS-6668,TCGA-CS-6669,TCGA-DU-5851,TCGA-DU-5854,TCGA-DU-5855,TCGA-DU-5872,TCGA-DU-5874,TCGA-DU-6404,TCGA-DU-6542,TCGA-DU-7008,TCGA-DU-7010,TCGA-DU-7014,TCGA-DU-7015,TCGA-DU-7018,TCGA-DU-7019,TCGA-DU-7294,TCGA-DU-7298,TCGA-DU-7299,TCGA-DU-7300,TCGA-DU-7301,TCGA-DU-7302,TCGA-DU-7304,TCGA-DU-7306,TCGA-DU-7309,TCGA-DU-8162,TCGA-DU-8164,TCGA-DU-8166,TCGA-DU-8167,TCGA-DU-8168,TCGA-DU-A5TR,TCGA-DU-A5TS,TCGA-DU-A5TT,TCGA-DU-A5TU,TCGA-DU-A5TW,TCGA-DU-A5TY,TCGA-DU-A6S7,TCGA-DU-A6S8,TCGA-FG-5964,TCGA-FG-6689,TCGA-FG-6691,TCGA-FG-6692,TCGA-FG-7634,TCGA-FG-A4MT,TCGA-HT-7473,TCGA-HT-7602,TCGA-HT-7680,TCGA-HT-7686,TCGA-HT-7690,TCGA-HT-7694,TCGA-HT-7879,TCGA-HT-7884,TCGA-HT-8018,TCGA-HT-8111,TCGA-HT-8114,TCGA-HT-8563,TCGA-HT-A61A (Download requires the NBIA Data Retriever and permission) Tcia restricted license Corresponding Original MR Images from TCGA-GBM images 102 subjects (DICOM, MR, 32 GB) Tcia button generator url https://wiki.cancerimagingarchive.net/download/attachments/41517733/doiJNLP-QoOaKUdn.tcia?api=v2 Tcia button generator label Search url https://nbia.cancerimagingarchive.net/nbia-search/?ImageModalityCriteria=MR&MinNumberOfStudiesCriteria=1&PatientCriteria=TCGA-02-0006,TCGA-02-0009,TCGA-02-0011,TCGA-02-0027,TCGA-02-0033,TCGA-02-0034,TCGA-02-0037,TCGA-02-0046,TCGA-02-0047,TCGA-02-0054,TCGA-02-0059,TCGA-02-0064,TCGA-02-0068,TCGA-02-0069,TCGA-02-0070,TCGA-02-0075,TCGA-02-0085,TCGA-02-0086,TCGA-02-0087,TCGA-02-0102,TCGA-02-0106,TCGA-02-0116,TCGA-06-0119,TCGA-06-0122,TCGA-06-0130,TCGA-06-0137,TCGA-06-0138,TCGA-06-0139,TCGA-06-0142,TCGA-06-0145,TCGA-06-0149,TCGA-06-0154,TCGA-06-0158,TCGA-06-0162,TCGA-06-0164,TCGA-06-0176,TCGA-06-0177,TCGA-06-0179,TCGA-06-0182,TCGA-06-0184,TCGA-06-0185,TCGA-06-0187,TCGA-06-0188,TCGA-06-0190,TCGA-06-0192,TCGA-06-0238,TCGA-06-0240,TCGA-06-0644,TCGA-06-0646,TCGA-06-1084,TCGA-06-1802,TCGA-06-2570,TCGA-06-5408,TCGA-06-5413,TCGA-06-5417,TCGA-06-6389,TCGA-08-0355,TCGA-08-0356,TCGA-08-0359,TCGA-08-0360,TCGA-08-0385,TCGA-08-0389,TCGA-08-0390,TCGA-08-0392,TCGA-08-0509,TCGA-08-0512,TCGA-08-0520,TCGA-08-0522,TCGA-12-0616,TCGA-12-0776,TCGA-12-0829,TCGA-12-1094,TCGA-12-1098,TCGA-12-1598,TCGA-12-1601,TCGA-12-3650,TCGA-14-1456,TCGA-14-1794,TCGA-14-1825,TCGA-14-3477,TCGA-19-0963,TCGA-19-1789,TCGA-19-2624,TCGA-19-2631,TCGA-19-5951,TCGA-19-5954,TCGA-19-5958,TCGA-19-5960,TCGA-76-4932,TCGA-76-4934,TCGA-76-4935,TCGA-76-6191,TCGA-76-6193,TCGA-76-6280,TCGA-76-6282,TCGA-76-6285,TCGA-76-6656,TCGA-76-6657,TCGA-76-6661,TCGA-76-6662,TCGA-76-6663,TCGA-76-6664 (Download requires the NBIA Data Retriever and permission) Tcia restricted license TCGA-LGG TCGA-GBM

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