ipfs resolve -r /ipfs/bafybeicob773uu2fkaqx4tk7kcfe7vydxz6h6fgentsstkwq2aayszofem/midas/collection/view/190: no link named "midas" under bafybeicob773uu2fkaqx4tk7kcfe7vydxz6h6fgentsstkwq2aayszofem

[hanahh080601]

When I click to download Brain: Multi-modality (sMRI, DTI, fMRI) from Schizophrenia Study, it directed me to this link: https://insight-journal.org/midas/collection/view/190

[jcfr]

The data have been archived and saved locally and will be uploaded after we are done transitioning the current slicer.org and na-mic.org domains.

For example, here is what we have for that specific study (to illustrate):

$ pwd
/path/to/Data/insight-journal.org - midas (mirror)/NA-MIC/NAMIC: Brain Mutlimodality

$ ls -1
Administration
case01011
case01015
case01017
case01018
case01019
case01020
'case01020 (1)'
case01025
case01026
case01028
case01029
case01033
case01034
case01035
case01039
case01041
case01042
case01044

$ (cd case01011; fd .)
000008.SER-anon.tgz
01011-FA.nrrd
01011-WM.nrrd
01011-dwi-filt-Ed.nhdr
01011-dwi-filt-Ed.raw.gz
01011-dwi.nhdr
01011-dwi.raw.gz
01011-freesurferseg-def.nrrd
01011-t1w.nrrd
01011-t2w.nrrd
01011-t2w_mask.nrrd
aparc+aseg.mgz
brainmask.mgz

Note that for each study, we created a curated markdown document with metadata, historical download counts, former URLs .....

For example, here is the one for this study:

# NAMIC: Brain Mutlimodality

## History & Acknowledgments

This folder is a snapshot of the data historically associated with the `NAMIC: Brain Mutlimodality` collection served from `[http://insight-journal.org/midas/collection/view/190`](http://insight-journal.org/midas/collection/view/190).

Datasets originally published in February 2010 by Sylvain Bouix, Doug Terry and Marek Kubicki from Harvard.

## Description

There are 20 cases; ten are Normal Controls and ten are Schizophrenic.
In each case folder, there are 10 files, described here:

* 01###-t1w.nrrd is the weighted T1 scan.
* 01###-t2w.nrrd is the weighted T2 scan.
* 01###-t2w_mask.nrrd is a labelmap of the ICC based on the T2.
* 000008.SER-anon.tgz is the fMRI scan (zipped tar ball) - - Note: there in no fMRI scan for case01073
* 01###-dwi.nhdr (references 01###-dwi.raw.gz) is the raw DTI scan.
* 01###-dwi-filt-Ed.nhdr (references 01###-dwi-filt-Ed.raw.gz) is the dwi scan after noise filtering and eddy current and head motion correction.
* brainmask.mgz is a T1 grayscale image that has the skull & dura-matter stripped.
* aparc+aseg.mgz is a freesurfer segmentation of the t1w image.

Data Description:

* Structural MRI (sMRI) For the Structural MRI volume measurements, images will be acquired using a 3T GE) at BWH in Boston, MA. We will use an 8 Channel coil in order to perform parallel imaging using ASSET (Array Spatial Sensitivity Encoding techniques, GE) with a SENSE-factor (speed-up) of 2. The structural MRI acquisition protocol will include two MRI pulse sequences. The first results in contiguous spoiled gradient-recalled acquisition (fastSPGR) with the following parameters; TR=7.4ms, TE=3ms, TI=600, 10 degree flip angle, 25.6cm^2 field of view, matrix=256x256. The voxel dimensions are 1x1x1 mm. The second- XETA (eXtended Echo Train Acquisition) produces a series of contiguous T2-weighted images (TR=2500ms, TE=80ms, 25.6 cm^2 field of view, 1 mm slice thickness). Voxel dimensions are 1x1x1 mm.

* Diffusion Tensor Imaging (DTI) DTI scans will be acquired on a 3 Tesla GE system using an echo planar imaging (EPI) DTI Tensor sequence. We will use a double echo option to reduce eddy-current related distortions (Heid 2000; Alexander 1997). To reduce impact of EPI spatial distortion, we will use an 8 Channel coil that will allow us to perform parallel imaging using ASSET (Array Spatial Sensitivity Encoding Techniques, GE) with a SENSE-factor (speed-up) of 2. We will acquire 51 directions with b=*9*00, 8 baseline scans with b=0. The following scan parameters will be used: TR 17000 ms, TE 78 ms, FOV 24 cm, 144x144 encoding steps, 1.7 mm slice thickness. We will acquire 85 axial slices parallel to the AC-PC line covering the whole brain. In addition, Bo field inhomogeneity maps will be collected.

* Resting State fMRI This sequence is an additional EPI BOLD sequence that requires Brain Wave software, available only with 8 Channel coil. It's a resting state fMRI that was 10 minutes long, and contains 200 repetitions of a high resolution EPI scan (96x96 in plane, 3mm thickness, TR-3000 ms, TE=30, 39 slices, ASSETT). Subjects closed their eyes and rested while the magnet was running.

If you have any questions about the data, please contact Sylvain Bouix (`[[email protected]](mailto:[email protected])`) or Doug Terry (`[[email protected]](mailto:[email protected])`) at Harvard.

## Historical Details

### Download stats

Listed below are the number of downloads associated with datasets tracked by the original server historically hosted at `[http://insight-journal.org/midas`](http://insight-journal.org/midas).

| Dataset | Downloads |
|--|--|
| case01011 | 9537 |
| case01015 | 5507 |
| case01017 | 2739 |
| case01018 | 3795 |
| case01019 | 3454 |
| case01020 | 2131 |
| case01025 | 2138 |
| case01026 | 3631 |
| case01028 | 1970 |
| case01029 | 2028 |
| case01033 | 1475 |
| case01034 | 2078 |
| case01035 | 1710 |
| case01039 | 1457 |
| case01041 | 1566 |
| case01042 | 1891 |
| case01044 | 2668 |
| case01045 | 2483 |
| case01073 | 2556 |
| case01104 | 2157 |

### Handles

The collection `NAMIC: Lupus White Matter Lesion` was associated with the identifier `[http://hdl.handle.net/1926/1687`](http://hdl.handle.net/1926/1687).

Individual datasets were associated with the following identifiers:

| Dataset | Handle |
|--|--|
| case01011 | `[http://hdl.handle.net/1926/1688`](http://hdl.handle.net/1926/1688) |
| case01015 | `[http://hdl.handle.net/1926/1689`](http://hdl.handle.net/1926/1689) |
| case01017 | `[http://hdl.handle.net/1926/1690`](http://hdl.handle.net/1926/1690) |
| case01018 | `[http://hdl.handle.net/1926/1691`](http://hdl.handle.net/1926/1691) |
| case01019 | `[http://hdl.handle.net/1926/1692`](http://hdl.handle.net/1926/1692) |
| case01020 | `[http://hdl.handle.net/1926/1693`](http://hdl.handle.net/1926/1693) |
| case01025 | `[http://hdl.handle.net/1926/1694`](http://hdl.handle.net/1926/1694) |
| case01026 | `[http://hdl.handle.net/1926/1695`](http://hdl.handle.net/1926/1695) |
| case01028 | `[http://hdl.handle.net/1926/1696`](http://hdl.handle.net/1926/1696) |
| case01029 | `[http://hdl.handle.net/1926/1697`](http://hdl.handle.net/1926/1697) |
| case01033 | `[http://hdl.handle.net/1926/1698`](http://hdl.handle.net/1926/1698) |
| case01034 | `[http://hdl.handle.net/1926/1699`](http://hdl.handle.net/1926/1699) |
| case01035 | `[http://hdl.handle.net/1926/1700`](http://hdl.handle.net/1926/1700) |
| case01039 | `[http://hdl.handle.net/1926/1701`](http://hdl.handle.net/1926/1701) |
| case01041 | `[http://hdl.handle.net/1926/1702`](http://hdl.handle.net/1926/1702) |
| case01042 | `[http://hdl.handle.net/1926/1703`](http://hdl.handle.net/1926/1703) |
| case01044 | `[http://hdl.handle.net/1926/1704`](http://hdl.handle.net/1926/1704) |
| case01045 | `[http://hdl.handle.net/1926/1705`](http://hdl.handle.net/1926/1705) |
| case01073 | `[http://hdl.handle.net/1926/1706`](http://hdl.handle.net/1926/1706) |
| case01104 | `[http://hdl.handle.net/1926/1707`](http://hdl.handle.net/1926/1707) |