|
subjectkey |
GUID |
|
Required |
|
The NDAR Global Unique Identifier (GUID) for research subject |
NDAR*
|
|
candidateguid, guid, pseudo_guid, subject_key |
|
src_subject_id |
String |
20
|
Required |
|
Subject ID how it's defined in lab/project |
|
|
child_id_full, cibsr_id_ndar, clinical_barcode, demo_study_id, ibisid, participant_id, participantid, pid, record_id, subject_id, subjid |
|
interview_date |
Date |
|
Required |
|
Date on which the interview/genetic test/sampling/imaging/biospecimen was completed. MM/DD/YYYY |
|
|
ScanDate, assessment_dt, bl_visit_date, consentdate, consented_study, date_demographics, date_interview_ses, date_taken, fmri002, fmridt, interviewdate, intvdate, pfmridt, pp_date, profile_date, scan_date, scan_date_ndar, studydate, testing_date, visit_date |
|
interview_age |
Integer |
|
Required |
|
Age in months at the time of the interview/test/sampling/imaging. |
0 :: 1260
|
Age is rounded to chronological month. If the research participant is 15-days-old at time of interview, the appropriate value would be 0 months. If the participant is 16-days-old, the value would be 1 month.
|
age_at_imgexam, age_m_consent, age_mri_ndar, candidate_age_in_months, intvage, scan_age, test_age, total_age_in_months |
|
sex |
String |
20
|
Required |
|
Sex of subject at birth |
|
M = Male; F = Female; O=Other; NR = Not reported
|
gender, gender_mri_ndar, sex |
|
comments_misc |
String |
4,000
|
Recommended |
|
Miscellaneous comments on study, interview, methodology relevant to this form data |
|
|
Site, fspgod, scanner_ndar, site |
|
image_file |
File |
|
Conditional |
isNull(manifest) |
Data file (image, behavioral, anatomical, etc) |
|
|
file_source |
|
image_thumbnail_file |
Thumbnail |
|
Recommended |
|
Thumbnail |
|
|
|
Query
|
image_description |
String |
512
|
Required |
|
Image description, i.e. DTI, fMRI, Fast SPGR, phantom, EEG, dynamic PET |
|
|
|
Query
|
experiment_id |
Integer |
|
Conditional |
scan_type == 'fMRI' |
ID for the Experiment/settings/run |
|
|
|
Query
|
scan_type |
String |
50
|
Required |
|
Type of Scan |
|
|
|
Query
|
scan_object |
String |
50
|
Required |
|
The Object of the Scan (e.g. Live, Post-mortem, or Phantom |
Live; Post-mortem; Phantom
|
|
|
Query
|
image_file_format |
String |
50
|
Conditional |
isNull(manifest) |
Image file format |
AFNI; ANALYZE; AVI; BIORAD; BMP; BRIK; BRUKER; CHESHIRE; COR; DICOM; DM3; FITS; GE GENESIS; GE SIGNA4X; GIF; HEAD; ICO; ICS; INTERFILE; JPEG; LSM; MAGNETOM VISION; MEDIVISION; MGH; MICRO CAT; MINC; MIPAV XML; MRC; NIFTI; NRRD; OSM; PCX; PIC; PICT; PNG; QT; RAW; SPM; STK; TIFF; TGA; TMG; XBM; XPM; PARREC; MINC HDF; LIFF; BFLOAT; SIEMENS TEXT; ZVI; JP2; MATLAB; VISTA; ecat6; ecat7; PAR/REC; FIF; NIRS
|
|
|
|
data_file2 |
File |
255
|
Recommended |
|
data file 2 |
|
|
|
Query
|
data_file2_type |
String |
100
|
Recommended |
|
data file 2 type/description |
|
|
|
Query
|
image_modality |
String |
20
|
Required |
|
Image modality |
MRI; PET; CT; SPECT; ultrasound; FA; X-Ray; spectroscopy; microscopy; DEXA; fNIRS
|
Computed Radiography; Computed Tomography; External Camera Photography; FA; General Microscopy; MRI; Magnetic Resonance; Magnetic Resonance Spectroscopy; Nuclear Medicine; Single Photon Emission Computed Tomography; Ultrasound
|
|
Query
|
scanner_manufacturer_pd |
String |
30
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Equipment Manufacturer |
|
|
camera_make, manufacturer, scanner_manufacturer |
|
scanner_type_pd |
String |
50
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Equipment Type/name |
|
|
ScannerID, camera_model, manufacturersmodelname, scanner_type |
|
scanner_software_versions_pd |
String |
100
|
Conditional |
image_file_format != 'DICOM' |
Aquisition/analysis Software Versions |
|
!=DICOM means not equal DICOM
|
acquisiton_software, mmps_version, scanner_soft_versions_pd |
Query
|
magnetic_field_strength |
String |
50
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Magnetic field strength |
|
|
magneticfieldstrength |
Query
|
mri_repetition_time_pd |
Float |
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Repetition Time (seconds) |
|
!=DICOM means not equal DICOM
|
mri_repetition_time |
Query
|
mri_echo_time_pd |
String |
100
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Echo Time (seconds) |
|
!=DICOM means not equal DICOM
|
mri_echo_time |
|
flip_angle |
String |
30
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Flip angle |
|
!=DICOM means not equal DICOM
|
|
|
acquisition_matrix |
String |
30
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Acquisition matrix |
|
!=DICOM means not equal DICOM
|
|
|
mri_field_of_view_pd |
String |
50
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Field of View |
|
!=DICOM means not equal DICOM
|
|
Query
|
patient_position |
String |
50
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Patient position |
|
!=DICOM means not equal DICOM
|
patientposition |
Query
|
photomet_interpret |
String |
50
|
Conditional |
image_file_format != 'DICOM' && image_modality == 'MRI' |
Photometric interpretation |
|
!=DICOM means not equal DICOM
|
|
Query
|
receive_coil |
String |
50
|
Recommended |
|
Receive coil name |
|
|
|
Query
|
transmit_coil |
String |
50
|
Recommended |
|
Transmit coil name |
|
|
|
Query
|
transformation_performed |
String |
4
|
Required |
|
Performed transformation |
|
|
|
Query
|
transformation_type |
String |
50
|
Conditional |
transformation_performed == 'Yes' |
Type of transformation |
|
|
|
Query
|
image_history |
String |
1,024
|
Recommended |
|
Image history,f.e. transformations steps and other modifications. |
|
|
|
Query
|
image_num_dimensions |
Integer |
|
Conditional |
image_file_format != 'DICOM' |
Number of dimensions |
1 :: 5
|
!=DICOM means not equal DICOM
|
ndim |
Query
|
image_extent1 |
Integer |
|
Conditional |
image_file_format != 'DICOM' |
Extent [1] X dimension |
1+
|
!=DICOM means not equal DICOM
|
|
Query
|
image_extent2 |
Integer |
|
Conditional |
image_num_dimensions > 1 |
Extent [2] Y dimension |
1+
|
|
|
Query
|
image_extent3 |
Integer |
|
Conditional |
image_num_dimensions > 2 |
Extent [3] Z dimension |
1+
|
|
|
Query
|
image_extent4 |
Integer |
|
Conditional |
image_num_dimensions > 3 |
Extent [4] |
|
|
|
Query
|
extent4_type |
String |
50
|
Conditional |
image_num_dimensions > 3 |
Description of extent [4] |
|
|
|
Query
|
image_extent5 |
Integer |
|
Conditional |
image_num_dimensions > 4 |
Extent [5] |
1+
|
|
|
|
extent5_type |
String |
50
|
Conditional |
image_num_dimensions > 4 |
Description of extent [5] |
|
|
|
Query
|
image_unit1 |
String |
20
|
Conditional |
image_file_format != 'DICOM' |
Units [1] X dimension |
Inches; Centimeters; Angstroms; Nanometers; Micrometers; Millimeters; Meters; Kilometers; Miles; Nanoseconds; Microseconds; Milliseconds; Seconds; Minutes; Hours; Hertz; frame number
|
!=DICOM means not equal DICOM
|
|
Query
|
image_unit2 |
String |
20
|
Conditional |
image_num_dimensions > 1 |
Units [2] Y dimension |
Inches; Centimeters; Angstroms; Nanometers; Micrometers; Millimeters; Meters; Kilometers; Miles; Nanoseconds; Microseconds; Milliseconds; Seconds; Minutes; Hours; Hertz; frame number
|
|
|
Query
|
image_unit3 |
String |
20
|
Conditional |
image_num_dimensions > 2 |
Units [3] Z dimension |
Inches; Centimeters; Angstroms; Nanometers; Micrometers; Millimeters; Meters; Kilometers; Miles; Nanoseconds; Microseconds; Milliseconds; Seconds; Minutes; Hours; Hertz; frame number
|
|
|
Query
|
image_unit4 |
String |
50
|
Conditional |
image_num_dimensions > 3 |
Units [4] |
Inches; Centimeters; Angstroms; Nanometers; Micrometers; Millimeters; Meters; Kilometers; Miles; Nanoseconds; Microseconds; Milliseconds; Seconds; Minutes; Hours; Hertz; Diffusion gradient; frame number; number of Volumes (across time)
|
|
|
Query
|
image_unit5 |
String |
20
|
Conditional |
image_num_dimensions > 4 |
Units [5] |
Inches; Centimeters; Angstroms; Nanometers; Micrometers; Millimeters; Meters; Kilometers; Miles; Nanoseconds; Microseconds; Milliseconds; Seconds; Minutes; Hours; Hertz; Diffusion gradient; frame number
|
|
|
Query
|
image_resolution1 |
Float |
|
Conditional |
image_file_format != 'DICOM' |
Resolution [1] X dimension |
|
!=DICOM means not equal DICOM
|
|
Query
|
image_resolution2 |
Float |
|
Conditional |
image_num_dimensions > 1 |
Resolution [2] Y dimension |
|
|
|
Query
|
image_resolution3 |
Float |
|
Conditional |
image_num_dimensions > 2 |
Resolution [3] Z dimension |
|
|
|
Query
|
image_resolution4 |
Float |
|
Conditional |
image_num_dimensions > 3 |
Resolution [4] |
|
|
|
Query
|
image_resolution5 |
Float |
|
Conditional |
image_num_dimensions > 4 |
Resolution [5] |
|
|
|
Query
|
image_slice_thickness |
Float |
|
Conditional |
image_file_format != 'DICOM' |
Slice thickness |
|
!=DICOM means not equal DICOM
|
|
Query
|
image_orientation |
String |
20
|
Conditional |
image_file_format != 'DICOM' |
Orientation |
Axial; Coronal; Sagittal
|
!=DICOM means not equal DICOM
|
|
Query
|
qc_outcome |
String |
25
|
Recommended |
|
Provide information on the conclusion of the quality control methods regarding the quality of the image |
pass;fail;questionable; undetermined; obsolete
|
|
|
Query
|
qc_description |
String |
255
|
Recommended |
|
Provide information on the methods used to perform quality control checks on the image |
|
|
|
Query
|
qc_fail_quest_reason |
String |
255
|
Recommended |
|
Provide a reason that the image was determined to fail a quality control check or if the quality control check determined that the image was questionable |
|
|
|
Query
|
decay_correction |
String |
10
|
Recommended |
|
Decay correction |
|
|
|
|
frame_end_times |
String |
50
|
Recommended |
|
Frame end times |
|
|
|
|
frame_end_unit |
String |
10
|
Recommended |
|
Frame end unit |
|
|
|
|
frame_start_times |
String |
50
|
Recommended |
|
Frame start times |
|
|
|
|
frame_start_unit |
String |
10
|
Recommended |
|
Frame start unit |
|
|
|
Query
|
pet_isotope |
String |
50
|
Recommended |
|
PET isotope |
|
|
|
Query
|
pet_tracer |
String |
100
|
Recommended |
|
PET tracer |
|
|
|
Query
|
time_diff_inject_to_image |
Integer |
|
Recommended |
|
Time difference injection to image |
|
|
|
Query
|
time_diff_units |
String |
10
|
Recommended |
|
Time difference units |
|
|
|
Query
|
pulse_seq |
String |
250
|
Recommended |
|
Information regarding the pulse sequence |
|
|
|
Query
|
slice_acquisition |
Integer |
|
Recommended |
|
fMRI slice acquisition |
1::4
|
1=ascending; 2=descending; 3=interleaved-even first; 4=interleaved-odd first
|
|
Query
|
software_preproc |
String |
250
|
Recommended |
|
Software used for preprocessing/transformation of images (include version number) |
|
|
|
|
study |
String |
100
|
Recommended |
|
Study; The code for each individual study |
|
|
group |
Query
|
week |
Float |
|
Recommended |
|
Week in level/study |
|
99=week 10-week 14
|
|
|
experiment_description |
String |
4,000
|
Recommended |
|
Description of experiment/sequence/event |
|
|
name |
Query
|
visit |
String |
60
|
Recommended |
|
Visit name |
|
|
assessment, visitid |
|
slice_timing |
String |
2,000
|
Conditional |
scan_type == 'fMRI' && image_file_format != 'DICOM' |
The time at which each slice was acquired during the acquisition. Slice timing is not slice order - it describes the time (sec) of each slice acquisition in relation to the beginning of volume acquisition. It is described using a list of times (in JSON format) referring to the acquisition time for each slice. The list goes through slices along the slice axis in the slice encoding dimension |
|
!=DICOM means not equal DICOM
|
|
Query
|
bvek_bval_files |
String |
5
|
Conditional |
scan_type == 'MR diffusion' || scan_type == 'multi-shell DTI' || scan_type == 'single-shell DTI' |
bvec and bval files provided as part of image_file or manifest |
Yes; No
|
|
|
|
bvecfile |
File |
|
Conditional |
bvek_bval_files=='No' |
Bvec file. The bvec files contain 3 rows with n space-delimited floating-point 5 numbers (corresponding to the n volumes in the relevant Nifti file). The first row contains the x elements, the second row contains the y elements and third row contains the z elements of a unit vector in the direction of the applied diffusion gradient, where the i-th elements in each row correspond together to the i-th volume with [0,0,0] for non-diffusion-weighted volumes |
|
|
bvec |
|
bvalfile |
File |
|
Conditional |
bvek_bval_files=='No' |
Bval file. The bval file contains the b-values (in s/mm2) corresponding to the volumes in the relevant Nifti file), with 0
designating non-diffusion-weighted volumes, space-delimited |
|
|
bval |
Query
|
deviceserialnumber |
String |
200
|
Recommended |
|
device serial number/ID |
|
|
|
|
procdate |
Date |
|
Recommended |
|
data processed date |
|
|
|
Query
|
visnum |
Float |
|
Recommended |
|
Numeric Visit Number |
|
-1.5 = Pre-Screening; -1 = Screening; 0 = Baseline; ## = Visit ## (from 1 to 10); Whole numbers = standard monthly visits; #.001 - #.009 = Unscheduled; #.1 = End of Phase 1; #.2 = End of Phase 2; #.3 = End of Phase 3; #.4 = End of Open Choice Phase; #.5 = End of Study; #.6 = Genetic Analysis; 1000=all visits
|
|
|
manifest |
Manifest |
|
Conditional |
isNull(image_file) |
|
|
|
|
|
emission_wavelingth |
Integer |
|
Conditional |
image_modality=='microscopy' && image_num_dimensions==2 |
emission wavelength in nanometers |
100::1200
|
|
|
|
objective_magnification |
Float |
|
Conditional |
in_stack==1 |
magnification |
|
|
|
|
objective_na |
Float |
|
Conditional |
in_stack==1 |
numerical aperture of objective lens |
0.00::2.00
|
|
|
|
immersion |
Integer |
|
Conditional |
in_stack==1 |
immersion medium |
0::3
|
0=none; 1=oil; 2=water; 3=glycerol
|
|
|
exposure_time |
Float |
|
Conditional |
in_stack==1 |
exposure time in seconds |
|
|
|
|
camera_sn |
String |
50
|
Conditional |
image_modality=='microscopy' |
serial number of camera |
|
|
|
|
block_number |
Integer |
|
Recommended |
|
Block Number |
|
|
|
|
level |
String |
10
|
Recommended |
|
Treatment level |
|
|
|
|
cut_thickness |
Float |
|
Conditional |
image_modality=='microscopy' |
cut thickness |
|
|
|
|
stain |
String |
50
|
Conditional |
image_modality=='microscopy' |
Stain used |
|
|
|
|
stain_details |
String |
200
|
Recommended |
|
Critical details of stainingi method, e.g. source and dilution of antibody for immunohistochemistry. |
|
|
|
|
pipeline_stage |
Integer |
|
Conditional |
image_modality=='microscopy' |
Stage of image in processing pipeline. |
1::3
|
1 = original; 2 = intermediate; 3 = final
|
|
|
deconvolved |
Integer |
|
Conditional |
image_modality=='microscopy' |
Was deconvolution used to obtain the image? |
0::2
|
0 = no; 1 = yes; 2 = unknown
|
|
|
decon_software |
String |
50
|
Conditional |
image_modality=='microscopy' |
deconvolution software |
|
|
|
|
decon_method |
String |
50
|
Conditional |
image_modality=='microscopy' |
Method of deconvolution. |
|
|
|
|
psf_type |
String |
1
|
Conditional |
image_modality=='microscopy' |
Type of point spread function used for deconvolution |
E; T
|
E = empirical; T = theoretical
|
|
|
psf_file |
String |
50
|
Conditional |
image_modality=='microscopy' |
Name of empirical point spread function file. |
|
|
|
|
decon_snr |
Float |
|
Conditional |
image_modality=='microscopy' |
Signal to noise ratio used for deconvolution |
|
|
|
|
decon_iterations |
Integer |
|
Conditional |
image_modality=='microscopy' |
Number of iterations used for deconvolution |
|
|
|
|
micro_temmplate_name |
String |
50
|
Conditional |
image_modality=='microscopy' |
Name of microscope template used for deconvolution |
|
|
|
|
in_stack |
Integer |
|
Conditional |
image_modality=='microscopy' |
2D image is part of 3D stack |
0;1
|
0 = no; 1 = yes
|
|
|
decon_template_name |
String |
50
|
Conditional |
image_modality=='microscopy' |
Name of deconvolution template used for deconvolution. |
|
|
|
|
stack |
String |
100
|
Conditional |
image_modality=='microscopy' |
Name of stack |
|
|
|
|
slices |
Integer |
|
Conditional |
deconvolved == 1 |
Number of images in entire stack |
2::2000
|
|
|
|
slice_number |
Integer |
|
Conditional |
deconvolved == 1 |
Sequence in stack |
1::2000
|
|
|
|
slice_thickness |
Float |
|
Conditional |
deconvolved == 1 |
spacing between image planes, in microns |
|
|
|
|
type_of_microscopy |
String |
3
|
Conditional |
psf_type=='E' |
type of microscopy |
BF; WFF; CFF; 2P
|
bright field, wide field fluorescensce, confocal fluorescensce, 2-photon
|
|
|
excitation_wavelength |
Integer |
|
Conditional |
deconvolved == 1 |
excitation wavelength in nanometers |
100::1200
|
|
|
|
year_mta |
Integer |
|
Recommended |
|
Year in study |
|
|
visit_year |
|
timepoint_label |
String |
50
|
Recommended |
|
Timepoint/visit label |
|
|
|
|
aqi |
Float |
|
Recommended |
|
AFNI?s quality index |
0::1
|
|
|
|
fd_mean |
Float |
|
Recommended |
|
Mean frame wise displacement in mm |
0::1
|
|
|
|
dvars_std |
Float |
|
Recommended |
|
Index the rate of change of BOLD signal across the entire brain at each frame of data |
0::1.5
|
Higher value indicate higher variability
|
|
|
tsnr |
Float |
|
Recommended |
|
Temporal signal to noise ratio |
0::100
|
0=Most noisy; 100=noise free signal
|
|
|
fetal_age |
Integer |
|
Recommended |
|
Age of the fetus (i.e., gestational age) in days |
0::322
|
|
|
|
fetal_age_type |
Integer |
|
Recommended |
|
Type of gestational age used for fetal_age |
1;2
|
1 = Postovulatory gestational age, defined as days since the last ovulation, expected term of 266 days; 2 = Postmenstrual gestational age, days since the last menstrual period, expected term of 280 days
|
|
|
accession_number |
String |
20
|
Recommended |
|
Accession number of image analyzed |
|
|
barcode |
|
ageyears |
Integer |
|
Recommended |
|
Age in years |
|
|
|
|
iti_onset |
Integer |
|
Recommended |
|
Time since beginning of experiment (ms) to onset of inter-trial interval at the end of the current trial |
|
|
|
|
stim1 |
String |
200
|
Recommended |
|
Description of stimulus 1 (e.g. cross, triangle, square, circle) |
|
|
|
|
stim2 |
String |
200
|
Recommended |
|
Description of stimulus 2 (e.g. cross, triangle, square, circle) |
|
|
|
|
stim1_side |
Integer |
|
Recommended |
|
On which side was stim1 presented |
1;2
|
1 = Left; 2 = Right
|
|
|
stim1_magnitude |
Integer |
|
Recommended |
|
Magnitude of stim1 |
1 :: 99
|
|
|
|
stim2_magnitude |
Integer |
|
Recommended |
|
Magnitude of stim2 |
1 :: 99
|
|
|
|
choice_side |
Integer |
|
Recommended |
|
On which side was the selected option located? |
1;2
|
1 = Left, chose left shape; 2 = Right, chose right shape
|
|
|
computer_choice |
Integer |
|
Recommended |
|
Response randomly selected by the computer due to timeout |
0;1
|
1 = Computer made the choice; 0 = Participant made the choice
|
|
|
stim1_outcome |
Integer |
|
Recommended |
|
Information whether stim1 is associated with a non-zero outcome on the current trial |
0;1
|
1 = Stim1 results in the non-zero outcome; 0 = Stim2 results in the non-zero outcome. Non-zero outcome = reward or shock receipt
|
|
|
session_fmri |
String |
50
|
Recommended |
|
First or second fMRI session (e.g. fmri1, fmri2) |
|
|
session |
|
choice_fmri |
Integer |
|
Recommended |
|
Selected stimulus option |
0;1
|
1 = stim1; 0 = stim2
|
choice |
|
outcome_fmri |
Integer |
|
Recommended |
|
Final outcome of a trial |
0;1
|
1 = Non-zero outcome (reward/shock received); 0 = Zero outcome (reward/shock not received)
|
outcome |
|
rt_fmri |
Integer |
|
Recommended |
|
Response time (ms) |
0::9999
|
9999 = timeout, i.e. > 4000ms
|
rt |
|
task__version |
Integer |
|
Recommended |
|
Task version |
1;2
|
1 = Shock; 2 = Reward-gain
|
task_version |
|
block_sv |
Integer |
|
Recommended |
|
Did block involve volatile or stable condition? |
1;2
|
1 = Stable; 2 = Volatile; counter-balanced across participants
|
block |
|
trial_num |
Integer |
|
Recommended |
|
Trial number within a block |
1::180
|
|
|
|
options_onset |
Integer |
|
Recommended |
|
Time since beginning of experiment (ms) to presentation of options in the current trial |
|
|
|
|
cue_onset |
Integer |
|
Recommended |
|
Time since beginning of experiment (ms) to onset of response period in the current trial |
|
|
|
|
interval_onset |
Integer |
|
Recommended |
|
Time since beginning of experiment (ms) to response in the current trial |
|
|
|
|
monitor_onset |
Integer |
|
Recommended |
|
Time since beginning of experiment (ms) to outcome presentation in the current trial |
|
|
|
|
session_det |
String |
250
|
Recommended |
|
session details |
|
|
|
|
gbc |
Float |
|
Recommended |
|
Global Brain Connectivity |
|
|
|
|
vtca |
Float |
|
Recommended |
|
Glial oxidative metabolism |
|
|
|
|
vtcan |
Float |
|
Recommended |
|
Glutamate neurotransmission strength |
|
|
|