Adolescent Health Risk Behavior Study

# Adolescent Health Risk Behavior Study: Monetary Incentive Delay (MID) task data

Structural: T1w and T2w

Functional: Monetary Incentive Delay task BOLD

## Data Published/Curated by
Michael Demidenko in relation to the project on the [analytic impacts on test-retest reliability]( https://doi.org/10.1162/imag_a_00262)

## Provenance
Collected at the University of Michigan under the grant: R01HD075806. Imaging data collected between 2017 and 2021.
Original Owners and curators: Daniel P. Keating, PhD, and Edward D. Huntley, PhD.
Data transferred from University of Michigan to Stanford University July 2022.

Relevant descriptions of datasets:
- [NIH Reporter](https://reporter.nih.gov/project-details/9497809)
- [Pub 1](https://doi.org/10.1007/s10964-019-01057-4)
- [Pub 2](https://doi.org/10.1016/j.dcn.2020.100798)

## Access Restrictions
No specific restrictions but data were shared under the authorization from Dr. Daniel Keating. Associated phenotype/behavioral data for the longitudinal dataset can be accessed from Dr. Keating with BIDS ID to SID file.

## Data Notes
Converted with in-house mids2bids at University of Michigan with the help of Krisanne Litinas

### Preprocessing notes:
- Discarded values for physio: Per Krisanne Litinas at the University of Michigan MRI lab, the MB fMRI protocol collects a 30-second buffer period plus 12 discarded volumes (9.6 seconds). So the physio files contained in each subject's ./func folder have the first 30 seconds (buffer period) + 9.6 (12 additional volumes for calibration) that are already discarded. Hence, the start time in physio files is zero. The calculation used: retained all values after ({30 secs physio buffer} + {9.6 secs calibration vols}) * {Hz}. For example, Hz for respiratory is 25 and Hz for Cardiac is 100. The values after 990 ((30+12)*25) are retained for respiratory .tsv files and after 3960 ((30+ 12)*100) are retained for cardiac .tsv files. Note, in some instances, there was a failure in collecting phyio data so physio files are not present. This occurred for:

- Discarded calibration volumes: the protocol included collection of calibration volumes for each MID run. For fMRI data, an additional 12 volumes were collected. These have been removed from each .nii.gz file, 407 = MID volumes. There is an AP-PA associated fieldmap for each run, in one instance this is missing due to technical error.

- Several participants have missing runs/folders.
- Sub-66 session 1: missing fieldmap

- There are several notable participant notes:
- Sub-103 session 2: participant very particular about vision correction but could see screen. Left to use restroom before resting state scan

Command used for fMRIPrep v23.1.4:

```html
singularity run --cleanenv \
-B ${DATA_DIR}:/data:ro -B ${DATA_OUT}:/out
${SIMG_DIR}/fmriprep-23.1.4.simg
/data /out participant
--participant-label sub-${subj}
--ignore slicetiming
--fs-license-file ${FS_LICENSE}
--fd-spike-threshold .9
--use-syn-sdc
--force-syn
--output-space MNI152NLin2009cAsym:res-2
--project-goodvoxels
--cifti-output 91k
--work-dir ${SCRATCH}
```

Command used for MRIQC v23.1.0:

```html
singularity run --cleanenv
-B $OAK:$OAK
-B $OAK/data/templateflow:/opt/templateflow
-B ${L_SCRATCH}:/tmp ${GROUP_HOME}/singularity_images/mriqc_23.1.0rc0.simg
${BIDS_DIR} ${OUTPUT_DIR} participant
--participant-label ${sub}
--ants-nthreads 8
--nprocs 12
--mem_gb 30
-vv --dsname AHRB
--verbose-reports
-w /tmp/work -m bold T1w T2w
```

Command used for taskdescribe_v1.0:

For each session and run, there is a derivatives folder summarizing the behavioral data in an JSON or PNG image. These were calculated based the associated events.tsv files. The PNG files are meant to be used as a quick summary of the behavioral performance throughout the task/run/session