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Metabolomics Samples

656 Shared Subjects

Data Structure to link Metabolomics samples to the database they are stored in.
Omics
Omics
11/17/2022
metabolomics_sample01
01/10/2023
View Change History
01
Query Element Name Data Type Size Required Description Value Range Notes Aliases
subjectkey GUID Required The NDAR Global Unique Identifier (GUID) for research subject NDAR*
src_subject_id String 20 Required Subject ID how it's defined in lab/project
interview_date Date Required Date on which the interview/genetic test/sampling/imaging/biospecimen was completed. MM/DD/YYYY
interview_age Integer Required Age in months at the time of the interview/test/sampling/imaging. 0::1440 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.
sex String 20 Required Sex of subject at birth M;F; O; NR M = Male; F = Female; O=Other; NR = Not reported
sample_description String 3,500 Required Sample description: tissue type, i.e. blood, saliva, brain etc. whole blood; saliva; brain; urine; serum; plasma; CSF; IPS; Fibroblast; Neuronal Progenitor; skin biopsy; temporal cortex; lymphoblastoid cell line; unknown; semen; frontal cortex; parietal cortex; basal ganglia; Placenta; hair; occipital visual cortex; cerebellum; spleen; stool; muscle; kidney; liver; heart; cord blood; nasal swab; DNA; RNA; breastmilk; buccal; oral cells; rectal swab; cervicovaginal swab genom_sample_description
sample_id_original String 100 Required Original, user-defined Sample ID genom_sample_id_original
organism String 50 Required Organism genom_organism
sample_amount Float Required Sample amount genom_sample_amount
sample_unit String 50 Required Measurement unit for Sample genom_sample_unit
data_code String 100 Recommended Comments about experiment details
data_file1_type String 300 Required type of data file 1 genom_data_file1_type
data_file1 File 255 Required Data file 1 genom_data_file1
data_file2_type String 100 Recommended data file 2 type/description
data_file2 File 255 Recommended data file 2
data_file3_type String 100 Recommended Data file 3 type
data_file3 File 255 Recommended Data file 3
data_file4_type String 100 Recommended Data file 4 type
data_file4 File 255 Recommended Data file 4
storage_protocol String 255 Required Description of Storage Protocol genom_storage_protocol
data_file_location String 50 Required dbGaP; NDAR; NIMH Genetics; AGRE; Sfari; Proteomics DB name genom_data_file_location
biorepository String 100 Required Sample provider: i.e. NIMH_Genetics; ATP; Correil genom_biorepository
patient_id_biorepository String 100 Required Biorepository Patient ID genom_patient_id_biorepository
sample_id_biorepository String 100 Required Biorepository Sample ID genom_sample_id_biorepository
cell_id_original String 100 Recommended Original, user-defined cell line ID
cell_id_biorepository String 100 Recommended Biorepository cell line ID
comments_misc String 4,000 Recommended Miscellaneous comments on study, interview, methodology relevant to this form data
site String 101 Recommended Site Study Site
sample_prep_batch String 255 Recommended Sample preparation batch OR DNA/RNA Isolation batch OR experimental batch
extraction_kit String 255 Recommended Extraction Kit
mass_spec_instrument String 255 Required Make and model of Mass Spectroscopy Instrument used to collect the data
mass_spec_control_software String 255 Required Name and version number of the software used to collect the data
mass_spec_analysis_software String 255 Required Name and version number of the software used to analyze the data
statistical_analysis_software String 255 Recommended Name and version number of the software used to perform statistical analysis on the results
data_file1_doi String 300 Recommended Database DOI for file 1
data_file2_doi String 300 Recommended Database DOI for file 2
data_file3_doi String 300 Recommended Database DOI for file 3
data_file4_doi String 300 Recommended Database DOI for file 4
Data Structure

This page displays the data structure defined for the measure identified in the title and structure short name. The table below displays a list of data elements in this structure (also called variables) and the following information:

  • Element Name: This is the standard element name
  • Data Type: Which type of data this element is, e.g. String, Float, File location.
  • Size: If applicable, the character limit of this element
  • Required: This column displays whether the element is Required for valid submissions, Recommended for valid submissions, Conditional on other elements, or Optional
  • Description: A basic description
  • Value Range: Which values can appear validly in this element (case sensitive for strings)
  • Notes: Expanded description or notes on coding of values
  • Aliases: A list of currently supported Aliases (alternate element names)
  • For valid elements with shared data, on the far left is a Filter button you can use to view a summary of shared data for that element and apply a query filter to your Cart based on selected value ranges

At the top of this page you can also:

  • Use the search bar to filter the elements displayed. This will not filter on the Size of Required columns
  • Download a copy of this definition in CSV format
  • Download a blank CSV submission template prepopulated with the correct structure header rows ready to fill with subject records and upload

Please email the The NDA Help Desk with any questions.