C Supplement to Chapter 4

Table C.1: Acquisition parameters for the T1-weighted scans acquired across all three datasets.
T1w scan parameter	ID1000	PIOP1	PIOP2
Number of scans	3	1	1
Scan technique	3D MPRAGE	3D MPRAGE	3D MPRAGE
Number of signals (repetitions)	1	2	2
Fat suppression	Yes	Yes	Yes
Coverage	Whole-brain*	Whole-brain*	Whole-brain*
FOV (RL / AP / FH; mm)	160×256×256	188×240×220	188×240×220
Voxel size (mm)	1×1×1	1×1×1	1×1×1
TR / TE (ms)	8.1 / 3.7	8.5 / 3.9	8.5 / 3.9
Water-fat shift (pix)	2.268	2.268	2.268
Bandwidth (Hz/pix)	191.5	191.5	191.5
Flip angle (deg)	8	8	8
Phase accell. factor (SENSE)	1.5 (RL)	2.5 (RL) / 2 (FH)	2.5 (RL) / 2 (FH)
Acquisition direction	Sagittal	Axial	Axial
Duration	5 min 58 sec	6 min 3 sec	6 min 3
Note: MPRAGE: Magnetization Prepared Rapid Gradient Echo, FOV: field-of-view, RL: right-left, AP: anterior-posterior, FH: feet-head, TR: time to repetition, TE: time to echo, n/a: not applicable. * Whole-brain coverage included the brain-stem and cerebellum, unless otherwise stated.

Table C.2: Acquisition parameters for the phase-difference fieldmap scans acquired across all three datasets.
Phase-difference fieldmap parameters	ID1000	PIOP1	PIOP2
Scan technique	n/a	n/a	3D MPRAGE
Fat suppression	n/a	n/a	No
Coverage	n/a	n/a	Whole-brain
FOV (RL / AP / FH; mm)	n/a	n/a	208×256×256
Voxel size (mm)	n/a	n/a	2×2×2
TR / TE (ms)	n/a	n/a	3-Nov
Delta TE (ms)	n/a	n/a	5
Water-fat shift (pix)	n/a	n/a	1.134
Bandwidth (Hz/pix)	n/a	n/a	383
Flip angle (deg)	n/a	n/a	8
Phase accell. factor (SENSE)	n/a	n/a	2.5 (RL) / 2 (FH)
Acquisition direction	n/a	n/a	Axial
Duration	n/a	n/a	1 min 44
Note: MPRAGE: Magnetization Prepared Rapid Gradient Echo, FOV: field-of-view, RL: right-left, AP: anterior-posterior, FH: feet-head, TR: time to repetition, TE: time to echo.

Table C.3: Acquisition parameters for the fMRI scans acquired across all three datasets.
fMRI scan parameters	ID1000	PIOP1 (MB)*	PIOP1 (seq)*	PIOP2
Number of scans	1	2	3	4
Scan technique	GE-EPI	GE-EPI	GE-EPI	GE-EPI
Coverage	Whole-brain	Whole-brain	Whole-brain
FOV (RL / AP / FH)	138×192×192	240×240×118	240x240x122	240x240x122
Voxel size (mm.)	3×3×3	3×3×3	3×3×3	3×3×3
Matrix size	64x64	80x80	80x80	80x80
Nr. of slices	40	36	37	37
Slice gap (mm.)	0.3	0.3	0.3	0.3
TR / TE (ms.)	2200 / 28	750 / 28	2000	28
Water-fat shift (pix.)	11.575	11.001	11.502	11.502
Bandwidth (Hz/Pix)	34.6	39.5	37.8	37.8
Flip angle (deg.)	90	60	76.1	76.1
Phase accell. factor (SENSE)	0	2 (AP)	2 (AP)	2 (AP)
Phase encoding direction	P >> A	P >> A	P >> A	P >> A
Multiband acceleration factor	n/a	3	n/a	n/a
Multiband FOV shift	n/a	None	n/a	n/a
Slice encoding direction	L >> R (sequential)	F >> H (sequential)	F >> H (sequential)	F >> H (sequential)
Nr. of dummy scans	2	2	2	2
Dynamic stabilization	none	enhanced	enhanced	enhanced
Note: MPRAGE: Magnetization Prepared Rapid Gradient Echo, GE-EPI: gradient-echo echo-planar imaging, FOV: field-of-view, RL: right-left, AP: anterior-posterior, FH: feet-head, TR: time to repetition, TE: time to echo, Seq.: sequential (non-multiband), MB: multiband (i.e., simultaneous slice excitation). * MB scans were acquired for the face perception and resting-state paradigms of PIOP2. Sequential scans were acquired for the movie watching (ID1000), working memory, emotion matching, gender stroop, emotion anticipation, stop signal paradigms (PIOP1 and PIOP2).

Table C.4: Acquisition parameters for the DWI scans acquired across all three datasets.
DWI scan parameters	ID1000	PIOP1	PIOP2
Number of scans	3	1	1
Scan technique	SE-DWI	SE-DWI	SE-DWI
Shell	Single	Single	Single
Nr. of b0 images	1	1	1
Nr. of diffusion-weighted dirs.	32	32	32
Sampling scheme	Half sphere	Half sphere	Half sphere
DWI b-value	1000 s/mm2	1000 s/mm2	1000 s/mm2
Coverage	Whole-brain (partial cerebellum)	Whole-brain (partial cerebellum)	Whole-brain (partial cerebellum)
FOV (RL / AP / FH)	224×224×120	224×224×120	224×224×120
Voxel size (mm.)	2×2×2	2×2×2	2×2×2
Matrix size	112×112	112×112	112×112
Nr. of slices	60	60	60
Slice gap (mm.)	0	0	0
TR / TE (ms.)	6312* / 74	7387* / 86	7387* / 86
Water-fat shift (pix.)	13.539	18.926	18.926
Bandwidth (Hz/pix.)	33.8	22.9	22.9
Flip angle (deg.)	90	90	90
Phase accell. (SENSE)	3 (AP)	2 (AP)	2 (AP)
Phase encoding dir.	P >> A	P >> A	P >> A
Slice encoding direction	F >> H	F >> H	F >> H
Duration	4 min 49 sec	5 min 27 sec	5 min 27 sec
Note: SE-DWI: Spin-Echo Diffusion-Weighted Imaging,, FOV: field-of-view, RL: right-left, AP: anterior-posterior, FH: feet-head, TR: time to repetition, TE: time to echo. *DWI scans were acquired with the shortest possible TR (“shortest” setting on Philips scanners), causing the actual TR values to vary from scan to scan. The TRs reported in this table reflect the median TR across all DWI scans per dataset (see the Raw data standardization section for more information.

Table C.5: Description of the subject variables and psychometric variables.
Variable name	Description	Levels / range	Units	Included in
age	Subject age at day of measurement		Quantiles	All
sex	(Biological) sex	male, female		All
gender_identity_F	To what degree the subject felt female	1-7	A.U.	ID1000
gender_identity_M	To what degree the subject felt male	1-7	A.U.	ID1000
sexual_attraction_M	To what degree the subject was attracted to males	1-7	A.U.	ID1000
sexual_attraction_F	To what degree the subject was attracted to females	1-7	A.U.	ID1000
BMI	Body-mass-index		kg/m2	All
handedness	Dominant hand	left, right		ID1000
handedness	Dominant hand	left, right, ambidextrous		PIOP1&2
background_SES	Social economical status of family in which the subject was raised.	2-6	A.U.	ID1000
educational_level	Highest achieved (or current) educational level	low, medium, high		ID1000
educational_category	Highest achieved (or current) education type	applied, academic		PIOP1&2
religious	Whether the subject is religious or not	no, yes		PIOP1
religious_upbringing	Whether the subject was raised religiously or not	no, yes		ID1000
religious_now	Whether the subject is religious now	no, yes		ID1000
religious_importance	To what degree religion plays a role in the subject’s daily life	1-5	A.U.	ID1000
IST_fluid	IST fluid intelligence subscale		A.U.	ID1000
IST_memory	IST memory subscale		A.U.	ID1000
IST_crystallised	IST crystallised intelligence subscale		A.U.	ID1000
IST_total_intelligence	IST total intelligence scale		A.U.	ID1000
BAS_drive	BAS drive scale		A.U.	ID1000
BAS_fun	BAS fun scale		A.U.	ID1000
BAS_reward	BAS reward scale		A.U.	ID1000
BIS	BIS scale		A.U.	ID1000
NEO_N	Neuroticism scale (sum score)		A.U.	All
NEO_E	Extraversion scale (sum score)		A.U.	All
NEO_O	Openness scale (sum score)		A.U.	All
NEO_A	Agreeableness scale (sum score)		A.U.	All
NEO_C	Conscientiousness scale (sum score)		A.U.	All
STAI_T	Trait anxiety (from the STAI) (sum score)		A.U.	ID1000
Note: The “variable name” coincides with the column name for that variable in the participants.tsv file. Note that missing values in this file are coded with “n/a”. A.U.: arbitrary units.

Table C.6: All data types with associated identifiers, descriptions, and modalities.
Data type	Identifier (ext.)	Description	Modality
Raw	_T1w (nii.gz)	T1-weighted scan	Anatomical MRI
	_bold (nii.gz)	Functional (BOLD) MRI scan	Functional MRI
	_magnitude1 (nii.gz)	Average magnitude image (across two echoes) of B0 fieldmap scan (PIOP2 only)	Fieldmap
	_phasediff (nii.gz)	Difference between two phase images of B0 fieldmap scan	Fieldmap
	_dwi (.nii.gz)	Diffusion-weighted scan	DWI
	_dwi (.bvec)	Diffusion gradient table (plain-text file)	DWI
	_dwi (.bval)	Diffusion b-value sequence (plain-text file)	DWI
	_physio (tsv.gz)	Physiology (cardiac/respiratory traces + volume onsets)	Physiology
	_events (tsv)	Onsets, durations, and other relevant properties of events during task fMRI	Behavior
	(.json)	Metadata associated with a specific file, acquisition type, or file type	All modalities
Deriv.	_T1w (nii.gz)	Preprocessed T1-weighted scan	Functional MRI
	_mask (nii.gz)	Binary brain mask (0: not brain, 1: brain)	Functional / anatomical / diffusion MRI
	_dseg (nii.gz)	Discrete segmentation (0: background, 1: gray matter, 2: white matter, 3: cerebrospinal fluid)	Anatomical MRI
	_probseg (nii.gz)	Probabilistic segmentation (1st volume: gray matter, 2nd volume: white matter
	.surf (.gii)	Reconstructed surfaces (e.g., inflated, midthickness, pial, and smoothwm)	Anatomical MRI
	_xfm (.h5)	Linear + non-linear transformation parameters between two spaces (orig, T1w, MNI152NLin2009cAsym, and fsaverage5)	Functional / anatomica MRI
	_xfm (.txt)	Linear transformation parameters between two spaces (orig, T1w, MNI152NLin2009cAsym, and fsaverage5)	Functional / anatomical MRI
	_bold (nii.gz)	Preprocessed BOLD-MRI scan	Functional MRI
	_boldref (nii.gz)	Reference volume used for computing transformation parameters	Functional MRI
	_regressors (tsv)	Table with confound regressors for BOLD-MRI data	Functional MRI
	(.json)	Metadata from file with the same name (excluding extension)	All modalities
	_dwi (.nii.gz)	Preprocessed diffusion-weighted scan	DWI
	_dwi (.bvec)	Preprocessed gradient table	DWI
	_dwi (.bval)	Preprocessed b-value sequence	DWI
	_mask (.nii.gz)	Binary brain mask (0: not brain, 1: brain)	DWI
	_diffmodel	Estimated parameters from the diffusion tensor model	DWI
	_EVECS	Eigenvectors from the diffusion tensor model	DWI
	_FA	Fractional anisotropy map	DWI
	GMvolume	Estimated voxelwise gray matter volume map	Anatomical MRI
	_stats	Morphological statistics per anatomical region from a particular atlas	Anatomical MRI
	_regressors	Physiology-derived RETROICOR, HRV, and RVT regressors for BOLD-MRI data	Physiology