TCD Schizophrenia Neuroimaging Genetics
A structural and functional MRI investigation of genetics, cognition and emotion in schizophrenia (Trinity College Institute of Neuroscience, Dublin)
3T brain MRI (T1-weighted, diffusion, resting-state fMRI) of patients with schizophrenia and healthy controls from a Science Foundation Ireland neuroimaging genetics study at Trinity College Dublin. A PSYSCAN legacy dataset; images are not shared.
Overview
This entry covers the brain MRI sample of a neuroimaging genetics study of schizophrenia run at the Trinity College Institute of Neuroscience in Dublin and funded by Science Foundation Ireland. The study's title was "A structural and functional MRI investigation of genetics, cognition and emotion in schizophrenia". The images later became one of the legacy datasets of the EU PSYSCAN project and were used in multi-cohort work on cortical morphometric similarity and on machine-learning classification of schizophrenia.
Composition
Patients came through local clinical services in Dublin, and controls with no psychiatric history were recruited by local advertisement in the same area. Pregnancy, neurological disease, intellectual disability and recent substance misuse were exclusion criteria. Morgan et al. (2019) started from 184 people with both T1-weighted and diffusion scans. After removing 9 for head motion and 60 for poor diffusion data, 115 remained: 33 patients (30 schizophrenia, 3 schizoaffective disorder) and 82 controls. Patients were older on average (42.2 vs 33.5 years) and more often male (73% vs 43%). Lei et al. (2020) used 32 patients and 83 controls with structural and resting-state functional scans. How the two subsets overlap is not reported.
Acquisition
All scans were made on one 3T Philips Intera Achieva system. The T1-weighted scan used TR/TE 8.4/3.8 ms and 0.9 mm isotropic voxels. Resting-state fMRI had 180 volumes at TR 2 s with 3.5 mm isotropic voxels. Diffusion-weighted imaging was also acquired, but its protocol is not described in the open sources. Symptoms were rated with SAPS and SANS for 24 of the 33 analysed patients.
Annotations
No image annotations. Labels are diagnosis, age, sex and symptom scores.
Known limitations
- Images are not shared. Lei et al. (2020) state the data are unavailable for confidentiality reasons, and no terms are published.
- Only derived regional cortical measures (thickness, volume, area, curvature, FA, MD) with age, sex and group for the 115 analysed participants are public, on Figshare under CC BY 4.0.
- The full study enrolment is not reported; the counts here cover the subsets used in two papers.
- Many controls were lost to diffusion quality control, so the analysed sample is unbalanced in age and sex.
Cohort
Aggregate numbers from the sources below. Bars are relative to the 184 subjects.
Sex
- Male 59 51%
- Female 56 49%
Covers 115 of 184 subjects.
Age
ยท range 19 to 64Modality
subjects
- MRI 184 100%
Contrast / sequence
subjects, values can overlap
- T1-weighted 184 100%
- Diffusion-weighted 184 100%
- BOLD fMRI 115 63%
Condition
subjects, values can overlap
- Healthy control 82 45%
- Schizophrenia 30 16%
- Schizoaffective disorder 3 2%
Scanner vendor
subjects
- Philips 184 100%
Field strength
subjects
- 3 T 184 100%
Country
subjects
- Ireland 184 100%
License and access
Our reading of the license, not legal advice. Before you use the data, read the original license and confirm that your use is allowed. We take no responsibility for how you use a dataset. Full disclaimer
The data are not available outside the institution or study that holds them
The data availability statement of Lei et al. (2020), where the sample is Dataset 4, says the data are unavailable due to research data confidentiality. Morgan et al. (2019) used the sample as a PSYSCAN legacy dataset and published only derived regional cortical measures with age, sex and group on Figshare under CC BY 4.0.
No published license or data use terms
The data holder has published no license and no data use terms. Any use, sharing or commercial right has to be agreed with the data holder, and nothing can be assumed to be allowed. Default copyright and data protection law still apply.
Neither Morgan et al. (2019) nor Lei et al. (2020) states a license or data use terms for the images. The CC BY 4.0 Figshare deposit covers derived regional measures only.
What you can do
- Commercial use Not stated
- Not stated
- Train ML models Not stated
- Create derived data Not stated
- Publish results Not stated
What you can share
- Share the data Not stated
- Share derived data Not stated
- Share trained models Not stated
What you must do
- Cite or credit Not stated
- Share alike Not stated
- Sign an agreement Not stated
- Ethics approval Not stated
- Manuscript review Not stated
- Release code Not stated
- Return results Not stated
- Delete after use Not stated
Limits
- No re-identification Not stated
- Location limits Not stated
Citation
Morgan SE, Seidlitz J, Whitaker KJ, Romero-Garcia R, Clifton NE, Scarpazza C, van Amelsvoort T, Marcelis M, van Os J, Donohoe G, Mothersill D, Corvin A, Pocklington A, Raznahan A, McGuire P, Vertes PE, Bullmore ET. Cortical patterning of abnormal morphometric similarity in psychosis is associated with brain expression of schizophrenia-related genes. PNAS 116(19):9604-9609 (2019). doi:10.1073/pnas.1820754116
All numbers
Every number on this page, as stored in stats.csv, with its source.
| Measure | Breakdown | Value | Source |
|---|---|---|---|
| Subjects | total participants with T1w and diffusion MRI before quality control: 115 analysed plus 9 excluded for motion (5 patients, 4 controls) and 60 excluded for poor diffusion data (9 patients, 51 controls); sum of disjoint groups. Full study enrolment is not reported | 184 | morgan2019-si Section 1.2 |
| Subjects | modality=MR | 184 | morgan2019-si Section 1.2 |
| Subjects | contrast=T1w only subjects with both T1w and diffusion images were included | 184 | morgan2019-si Section 1 |
| Subjects | contrast=dwi only subjects with both T1w and diffusion images were included | 184 | morgan2019-si Section 1 |
| Subjects | contrast=bold 32 patients and 83 controls with T1w and resting-state fMRI (Dataset 4); overlap with the Morgan et al. sample is not reported | 115 | lei2020 Table 1 |
| Subjects | condition=schizophrenia analysed sample after quality control; Lei et al. (2020) report 32 patients with schizophrenia | 30 | morgan2019-si Section 1.2 |
| Subjects | condition=schizoaffective_disorder analysed sample after quality control | 3 | morgan2019-si Section 1.2 |
| Subjects | condition=healthy analysed sample after quality control; Lei et al. (2020) report 83 controls | 82 | morgan2019-si Table S1 |
| Subjects | sex=male analysed sample of 115; Table S1 gives 35 male controls and 24 male patients | 59 | morgan2019-figshare Dublin/sex.dat (value 1) |
| Subjects | sex=female analysed sample of 115 | 56 | morgan2019-figshare Dublin/sex.dat (value 2) |
| Subjects | condition=healthy;sex=male | 35 | morgan2019-si Table S1 |
| Subjects | condition=healthy;sex=female | 47 | morgan2019-figshare Dublin/group.dat and sex.dat |
| Subjects | age=10-19 analysed sample of 115 | 7 | morgan2019-figshare Dublin/age.dat |
| Subjects | age=20-29 analysed sample of 115 | 39 | morgan2019-figshare Dublin/age.dat |
| Subjects | age=30-39 analysed sample of 115 | 27 | morgan2019-figshare Dublin/age.dat |
| Subjects | age=40-49 analysed sample of 115 | 19 | morgan2019-figshare Dublin/age.dat |
| Subjects | age=50-59 analysed sample of 115 | 19 | morgan2019-figshare Dublin/age.dat |
| Subjects | age=60-69 analysed sample of 115 | 4 | morgan2019-figshare Dublin/age.dat |
| Minimum age | total analysed sample of 115 | 19 | morgan2019-figshare Dublin/age.dat |
| Median age | total analysed sample of 115 | 34 | morgan2019-figshare Dublin/age.dat |
| Maximum age | total analysed sample of 115 | 64 | morgan2019-figshare Dublin/age.dat |
| Mean age | condition=healthy analysed sample | 33.5 | morgan2019-si Table S1 |
| Subjects | field_strength=3 | 184 | morgan2019-si Section 1.2 |
| Subjects | vendor=philips Philips Intera Achieva 3T | 184 | morgan2019-si Section 1.2 |
| Subjects | country=IE | 184 | morgan2019 Materials and Methods: Samples |
Sources
The keys used in the table above.
- morgan2019 Morgan et al. 2019, PNAS (PMC6511038) paper
- morgan2019-si Morgan et al. 2019, PNAS, SI Appendix (pnas.1820754116.sapp.pdf) paper
- morgan2019-figshare Morgan et al. 2019 Figshare deposit Data_MS_SZ.zip (CC BY 4.0), Dublin folder, counted per subject row computed
- lei2020 Lei et al. 2020, Human Brain Mapping (PMC7268084) paper