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Submission File

Column Name Type Format / Value Checks Additional Comments
ind_id string

Checks:

Must match exactly with Subject Code submitted to Sampled (formerly IBX).

Field is a required field and cannot be left empty.

Values in the field should be unique.

Definition: The unique individual id submitted to Sampled (formerly IBX) with the biosample.

Comments: IMPORTANT —This id is used to verify subject \ NRGR_BIO_ID pairs at Sampled (formerly IBX). Therefore, the id you submit here should match exactly the subject-code submitted to Sampled (formerly IBX).

nrgr_bio_id string(14)

Checks:

Values in the field should be unique.

Definition: Sampled sample id, "NRGR_BIO_ID", formerly RUID

Sample value:  03C19340

For subjects with multiple samples at Sampled (formerly IBX), please include the blood sample in the main submission file. Additional sample IDs can be submitted in the Alternate ID (_id) file. For timepoint studies where multiple blood draws were used in analysis.

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

site_id integer(5)

Definition: Submitting site within a study.

Sample value: 101

This is a required field. Empty strings and "NULL" are both considered invalid values.

study_id integer(3)

Definition: Study number assigned by the NIMH RGR

Sample value: 22

This is a required field. Empty strings and "NULL" are both considered invalid values.

 

father_id string

Checks:

Must match exactly with Subject Code submitted to Sampled (formerly IBX).

Definition: Id for the father of this individual in the specified format

in Sample value: 22-132-90000

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

Comments: IMPORTANT —This id is used to verify subject \ NRGR_BIO_ID pairs at Sampled (formerly IBX). Therefore, the id you submit here should match exactly the subject-code submitted to Sampled (formerly IBX).

mother_id string

Checks:

Must match exactly with Subject Code submitted to Sampled (formerly IBX).

Definition: Id for the mother of this individual in the specified format

Sample value: 22-132-90001

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

Comments: IMPORTANT —This id is used to verify subject \ NRGR_BIO_ID pairs at Sampled (formerly IBX). Therefore, the id you submit here should match exactly the subject-code submitted to Sampled (formerly IBX).

fam_id string

Format:

<unique number>

Field is a required field and cannot be left empty.

Definition: Family id of this individual in the specified format

Sample value: 132

subject_type string(2)

Valid Values:

P=Primary Subject

S=Secondary Subject

C=Control

E=Excluded from Study

L=Linker

Definition: Subject type, including proband and dummy individuals.

Sample value: P

This is a required field. Empty strings and "NULL" are both considered invalid values.

Comments:

P - Primary Subject - Individual is a primary subject for a given study. In family studies this will most often be the proband. Primary subjects typically have a biosample and will be included in most, if not all, applicable clinical assessments.

S - Secondary Subject - Individual is a secondary subject for a given study. In family studies this will most often be non probands. Secondary subjects typically have a biosample and may or may not be included in any applicable clinical assessments.

C - Control - Individual is a control.

L - Linking Subject - Individual needed to construct a pedigree (ex. parents in the case of twin studies), has limited demographic information available and no biosample.

E - Excluded Subject - Individuals who met exclusion criteria from a given study, but still have a biosample, consent, and at least some demographic information available and therefore may be of use to other investigators.

zygosity string(2)

Valid Values:

A=Adopted

S=Singleton

MZ=Monozygotic

DZ=Dizygotic

PZ=Polyzygotic

UZ=Multiple Birth, but unknown zygosity

NULL=Missing or not applicable or unknown

Definition: Zygosity of this individual

Sample value: MZ

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

sex string(1)

Valid Values:

M=Male

F=Female

I=Intersex

NULL=Missing or not applicable or unknown

Definition: Sex

Sample value: F

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

 
race string(1)

Valid Values:

W=White

I=American Indian

A=Asian

B=Black

P=Pacific Islander

M=Mixed

R=Refused

NULL=Missing or not applicable or unknown

Definition: Race according to the NIH Policy on Reporting Race and Ethnicity Data for Subjects In Clinical Research

Sample value: P

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

ethnicity string(1)

Valid Values:

H=Hispanic

N=Not Hispanic

R=Refused

NULL=Missing or not applicable or unknown

Definition: Ethnicity according to the NIH Policy on Reporting Race and Ethnicity Data for Subjects In Clinical Research

Sample value: H

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

Submissions for Autism

age_months integer(4)

Format:

Age (months).

Checks:

Age should be between 0 and 1560.

Definition: Age of individual in months at time of first study assessment

Sample value: 240

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

age_onset_months integer(4)

Format:

Age of Onset (months).

Checks:

Age should be between 0 and 1560.

Definition: Age of individual in months at time of onset of disorder

Sample value: 200

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

Submissions for Other Disorders

age_years integer(3)

Format:

Age (years).

Checks:

Age should be between 0 and 130.

Definition: Age of individual in years at time of first study assessment

Sample value: 24

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

age_onset_years integer(3)

Format:

Age of Onset (years).

Checks:

Age should be between 0 and 130.

Definition: Age of individual in years at time of onset of disorder

Sample value: 20

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL


yob integer(4)

Checks:

Year of Birth should be between 1800 and <current_year>.

 

Definition: Year of birth

Sample value: 1999

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

deceased string(1)

Valid Values:

Y=Yes

N=No

NULL=Missing or not applicable or unknown

Definition: Whether individual is deceased

Sample value: N

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

yod integer(4)

Valid Values:

0=Not Dead/Not Applicable

Year of Death should be between 1800 and <current_year>.

Definition: Year of Death

Sample value: 2005

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

dx_study string

Valid Values:

Only values specified in the 'dx_study' column of the Diagnosis File Format are allowed here.

A value is required if and only if subject_type is P, S, or C.

Definition: Investigator-provided overall primary diagnosis.

Sample value: SADD

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

Comments: The dx provided in the column is meant to allow future investigators to match the dx's described in corresponding publications with the data stored in the repository. For example, if in your paper you describe 4 dx groups: Schizophrenia, Schizophrenia-spectrum, Bipolar, Bipolar-spectrum, this is where you would indicate how subjects in your study were grouped into those 4 categories. (In this case, the dx_system would be "Other" and a corresponding _dx dictionary would describe what criteria were used in grouping)

dx_confidence integer

A value is required if and only if subject_type is P, S, or C, or subject_type is E and a value for dx_study is specified.

Valid Values:

1=Unknown; diagnosis asserted but completeness of diagnosis and
status of supporting information is unknown

2=Low; only some diagnostic criteria met

3=Medium; all criteria met, no supporting information

4=High; all criteria met and has supporting information

NULL=Not Applicable

Definition: Confidence on the diagnosis in dx field

Sample value: 4

Note: a dx_confidence vale of "4" IS compatible with a dx_external_support value of "E"

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

dx_external_support string(1)

A value is required if and only if subject_type is P, S, or C, or subject_type is E and a value for dx_study is specified.

Valid Values:

I=Submitted to NRGR and/or NDA

E=Not submitted to NRGR or NDA

NULL=Missing or not applicable or unknown

Definition: Diagnosis based on information that is not (or cannot be) submitted to the Center. This missing information overrules some information that was submitted to the Center. For example, medical records, interviews with family members, etc.

Sample value: I

Note: dx based on any source or instrument, even one administered by the study itself, should be coded E=external, if not deposited.  

Empty string is considered an invalid value.

Empty strings should be represented with the value NULL

genetic_dx string

Study-reported genetic variants.

consent string(3)

A value is required if and only if subject_type is not a dummy.

Valid Values:

GRU=General Research Use

REL=Disorder and Related Disorders

DIS=Specific Disorder Only

Definition:  The type of consent granted by the subjects on the use of their data.

Sample value: REL

Detailed definition of "REL": Related Mental Health Conditions - Use of the data must be related to mental health research only. This includes methods development provided there is sufficient evidence that it will contribute to methodology that will further mental health research.


consent_modifier string(3)

A value is required if and only if subject_type is not a dummy.

Valid Values:

IRB=IRB Approval required

PUB=Publication Required

COL=Collaboration required

NPU=Non-profit use only

MDS=Methods

GSO=Genetic Studies Only

NAE=No Animal Engraftment

RPU=Restrictions on for-profit use of samples

NULL=Missing or not applicable or unknown

Additional consent modifiers.

The user can specify more than one value for consent_modifier by separating them using a pipe "|".