Child pages
  • ACRIN-FMISO-Brain

Versions Compared

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.

...

Localtab Group


Localtab
activetrue
titleData Access

Data Access

This is a limited access data set and is only available to members of NCI's Quantitative Imaging Network (QIN) until 8/31/2019. If you are a member of the QIN and would like to request access, please submit a CCP proposal to the QIN Coordinating Committee. Once access is granted, click the DownloadClick the Download button to save a ".tcia" manifest file to your computer, which you must open with the NBIA Data Retriever. Click theSearch Search button to open our Data Portal, where you can browse the data collection and/or download a subset of its contents.

Available upon request (see Detailed Description tab)
Data TypeDownload all or Query/Filter
Images (DICOM, 96GB)

 

( Download requires the NBIA Data Retriever.)

Clinical (XLS, zip)

Click the Versions tab for more info about data releases.


Localtab
titleDetailed Description

Detailed Description

Collection Statistics


Modalities

CT, MR, PET

Number of Patients

45

Number of Studies

423

Number of Series

4728

Number of Images

670,828

Image Size (GB)96.1

Participant Eligibility and Enrollment:

Adult patients newly diagnosed with pathologically confirmedGBM (World Health Organization [WHO] grade IV) that had visible residual disease after surgical resection, and planned for initial treatment with radiation therapy (RT) and temozolomide (TMZ), with or without additional agents, were enrolled. Amount of residual tumor did not impact eligibility and visible residual disease included T2/FLAIR hyperintensity. The study enrolled the first patient in March 2010 and the last in August 2013, with follow up ending 1 year later (July 2014). Final accrual to the study was 50 patients, of which 42 were evaluable for the primary aim analysis as reported by  Gerstner et al. 2016.

Date Offsets:

All dates, like the visit date, are protected by presenting just the year; however, dates are also listed as offset days from the base date. The offset dates are used as a means of protecting patient information provided by the local sites in the original data, while allowing users to determine intervals between events. The standard DICOM date tags (i.e. birth dates, imaging study dates, etc.) have been de-identified so that all patients have a baseline study date of January 1, 1960.  This falsified date represents the day patients were entered into trial database. The number of days between a subject’s longitudinal imaging studies are accurately preserved.  A patient with a study performed on January 4, 1960 means the images were collected 3 days after the base date.  For convenience, this calculation has been performed for all scans with the results inserted in DICOM tag (0012,0050) Clinical Trial Time Point ID.  This means an imaging study that took place on January 4, 1960 would contain a value of "3" in tag (0012,0050). 

ACRIN 6684 MR Imaging

Of the 50 patients enrolled, 42 had evaluable imaging MR studies and 38 patients had evaluable 18F-FMISO PET scans relating to the primary aim. Additionally, 37 patients had evaluable DSC imaging, 31 had evaluable DCE imaging, 39 had evaluable diffusion tensor imaging (DTI) data, 17 had evaluable spectroscopy (MRS) data and 13 patients had BOLD imaging that has never been analyzed. For each MR imaging session, patient scans were completed on 1.5 or 3 T scanners (Philips 3T (12 patients), GE 3T (12 patients), Siemens 3T (2 patients), and Siemens 1.5T (five patients) magnets). The sequence of acquisition for each MR imaging session were as follows:

  • Scout
  • T1 Pre-contrast Spin Echo
  • 3D T2 Rare
  • FLAIR
  • OPTIONAL: BOLD MRI 2D-EPI during transient inhalation of oxygen, minimum requirement 7 L/min using nasal cannula, 2 saturation levels were collected during this sequence.
  • DCE (Dynamic contrast enhanced) 3D-T1 GRE imaging beginning with T1 mapping using 5 flip angles (2,10,15, 20, 30°). 1st injection of Gd.
  • DWI/DTI (Diffusion weighted or diffusion tensor imaging) 2D EPI
  • DSC (Dynamic susceptibility contrast) 2D EPI imaging following 2nd Gd Injection
  • T1 Post-contrast 3D SPGR (MPRAGE)
  • T1 Post-contrast Spin Echo
  • MRS (magnetic resonance spectroscopy) 3D volumetric

The complete protocol for MR imaging can be found on the ACRIN website (MRI Parameters_062010.pdf).

ACRIN 6684 PET Imaging

Each FMISO PET imaging session consisted of acquiring a low-dose CT transmission scan used for attenuation correction and a PET emission scan at approximately 2 hours after injection of 18FMISO. During the emission scan, blood samples were acquired to determine the maximal tumor-to-blood ratio (TBmax) and the hypoxic volume (HV).  Of the 42 patients with FMISO scans, 4 had no blood sampling performed. Patients were scanned using GE Discovery (31 patients), Siemens ECAT (6 patients) or Siemens Biograph (2 patients) PET scanners. Three patients (Cases 2, 3 and 5) were imaged on a Siemens prototype brain MR/PET scanner, that could not be calibrated to known activity units, such as Bq/cc.

Overview of Clinical Data

The basic data flow for legacy ACRIN multi-center clinical trials was that all clinical information provided by the local imaging sites were contained in a series of forms.  The form data submitted by local investigators to ACRIN during and after the trial, were manually encoded into the ACRIN CTMS (Clinical Trial Management System), and were cross-checked for accuracy by ECOG-ACRIN personnel. These ACRIN 6684 forms (see the ACRIN 6684 Data Forms page), filled out by the local sites, deliver information on imaging, clinical management of the patient and pathology/outcome variables, like dates of progression and survival, along with other critical information.  The image data was initially anonymized while uploading from the local sites through TRIAD software and archived in a DICOM database at ACRIN.

After the trial accrual had ended, the clinical data was sent to the Brown statistical center, that is funded by NCI to provide support for ECOG-ACRIN clinical trials, specifically for analysis of the primary and sometimes secondary aims of the trial. The statisticians at Brown strip all the actual dates, names and other PHI from the CTMS data and create a .csv file for each form that has selected information useful for analysis of the trial data.  A Form Description file detailing all the forms used in the study accompanies the .csv data files.  Additionally, the accompanying Data Dictionary file lists each element for each form that has been selected for data retention along with a description of each form element.

Extracting clinical (non-imaging) data example:

Beginning with the Form Description.csv file, select the form with the desired information needed, such as form A0.csv the patient Eligibility/Registration form. Next, using the Data Dictionary.csv file, find the form elements listed for A0 (eg., A0exx, where xx is the form element number). The file lists the form number, variable name, its description or label, the type of data, and, when applicable, the option codes and corresponding text values (option code:description pairs like 1=’No’, 2=’Yes’; or 1=’Baseline’, 2=’Post treatment’) for each data element available from the form.  In the example in Figure 2, the A0 form element 31d (A0e31d) reports the days between the base date and the day of surgery for the patient.  In the corresponding A0.csv file column G lists the days between the base date and surgery for each patient. ACRIN 6684 has about 30 forms and about 2000 form element descriptions listed in the Data Dictionary.

 

Figure 2: In this example of extracting clinical data, the first step is to 1) find the form from the form list, 2) Find the desired element and description in the Data Dictionary and finally 3) extract the values from the .csv data file.

The procedure above is basically how the statisticians organized the selected data for export, but the structure of the data dictionaries and individual forms are different for each clinical trial. 


Localtab
titleCitations & Data Usage Policy

Citations & Data Usage Policy 

This is a limited access data set and is only available to members of NCI's Quantitative Imaging Network (QIN) until 8/31/2019. If you are a member of the QIN and would like to request access, please submit a CCP proposal to the QIN Coordinating Committee. Upon receiving access you may only use it for the purposes outlined in your proposal. You are not allowed to redistribute the data or use it for other purposes. See TCIA's

The images for this collection are freely available to browse, download, and use for commercial, scientific and educational purposes as outlined in the Creative Commons Attribution 3.0 Unsupported License. See TCIA's Data Usage Policies and Restrictions for additional details. Questions may be directed to help@cancerimagingarchive.net.

Please be sure to include the following citations in your work if you use this data set:

Info
titleData Citation

Kinahan, Paul; Muzi, Mark; Bialecki, Brian; Coombs, Laura. (2018). Data from ACRIN-FMISO-Brain. The Cancer Imaging Archive. http://doi.org/10.7937/K9/TCIA.2018.vohlekok


Info
titlePublication Citation

Gerstner ER, Zhang Z, Fink JR, Muzi M, Hanna L, Greco E, Prah M, Schmainda KM, Mintz A, Kostakoglu L, Eikman EA, Ellingson BM, Ratai EM, Sorensen AG, Barboriak DP,  Mankoff DA. ACRIN 6684: Assessment of Tumor Hypoxia in Newly Diagnosed Glioblastoma Using 18F-FMISO PET and MRI. Clin Cancer Res 22:5079-5086. 2016. PMC5065740. https://www.ncbi.nlm.nih.gov/pubmed/27185374. 10.1158/1078-0432.CCR-15-2529: 10.1158/1078-0432.CCR-15-2529.


Info
titlePublication Citation

Ratai EM, Zhang Z, Fink J, Muzi M, Hanna L, Greco E, Richards T, Kim D, Andronesi OC, Mintz A, Kostakoglu L, Prah M, Ellingson B, Schmainda K, Sorensen G, Barboriak D, Mankoff D,  Gerstner ER. ACRIN 6684: Multicenter, phase II assessment of tumor hypoxia in newly diagnosed glioblastoma using magnetic resonance spectroscopy. PloS one 13:1-14. 2018. PMC6002091.


Info
titleTCIA Citation

Clark K, Vendt B, Smith K, Freymann J, Kirby J, Koppel P, Moore S, Phillips S, Maffitt D, Pringle M, Tarbox L, Prior F. The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository, Journal of Digital Imaging, Volume 26, Number 6, December, 2013, pp 1045-1057. DOI: 10.1007/s10278-013-9622-7

Other Publications Using This Data

TCIA maintains a list of publications which leverage our data. At this time we are not aware of any publications based on this data. If you have a publication you'd like to add please contact the TCIA Helpdesk.


Localtab
titleVersions

Version 2 (Current): Updated 2019/07/02

Data TypeDownload all or Query/Filter
Images (DICOM, 96GB)

 

(Download requires the NBIA Data Retriever.)

Clinical (XLS, zip)Available upon request (see Detailed Description tab)

Version 1: 2018/02/12

Data TypeDownload all or Query/Filter
Images (DICOM, 96GB)

 




...