Analysis Set

Title

Analysis Set

Description

A file set for analyses. Analysis sets represent the results of a computational analysis of raw genomic data or other analyses.

Required

award, file_set_type, lab

Identifying Properties

accession, aliases, alternate_accessions, uuid

Search Schema Properties

Highlight properties with matching names, “title” attributes, or an enum of those properties. Matching properties might be non-submittable.

Include non-submittable properties

array[string]

Lab specific identifiers to reference an object.

string

The type of analysis product represented by this analysis set.

linkto

Grant associated with the submission.

string

Cell type the analysis was performed in. Usable by any annotation_type with per-cell-type results (DE, peaks, signal tracks, cRE-target links).

array[string]

Identifiers from external resources that may have 1-to-1 or 1-to-many relationships with IGVF file sets.

string

The kind of variable a differential expression analysis tests.

string

The two groups compared, written as 'A vs B' in the direction of the reported fold change. Use for explicit group comparisons; use de_trait for association tests.

string

Statistical design of the differential expression analysis.

string

The variable tested for association with gene expression (clinical variable, disease status, autoantibody presence, or islet function trait code).

string

Plain-language description of de_trait, e.g. decoding an islet function trait code.

string

A plain text description of the object.

array[linkto]

Documents that provide additional information (not data file).

string

The level of this analysis set. An intermediate analysis cannot be interpreted on its own and is part of a principal analysis. A principal analysis is the core analysis for an experimental design, the results of which can be interpretable on their own. A resource analysis is a resource used to perform a principal analysis such as a donor x gene count matrix.

array[linkto]

The file set(s) required for this analysis.

linkto

Lab associated with the submission.

string

Islet glucagon content expressed per cell volume or DNA content (e.g., ng/100 IEQ; pg/IEQ; ng/DNA)

string

Units used to report dynamic or static glucagon secretion (e.g., pg/100 IEQs/min; % glucagon content/min; pg/DNA/min)

string

Islet insulin content expressed per cell volume or DNA content (e.g., ng/100 IEQ; pg/IEQ; ng/DNA)

string

Units used to report dynamic or static insulin secretion (e.g., ng/100 IEQs/min; % insulin content/min; ng/DNA/min)

array[string]

The publication identifiers that provide more information about the object.

array[linkto]

The sample(s) associated with this file set.

string

Additional information specified by the submitter to be displayed as a comment on the portal.

string

Total islet DNA content with unit, used for data normalization (e.g., μg)

string

Total islet glucagon content with unit, used for data normalization (e.g., pg, pg/ml)

string

Total islet insulin content with unit, used for data normalization (e.g., ng, ng/ml)

number

Total islet equivalents (IEQ) used for data normalization, if available. 1 IEQ = 1 islet with a diameter of 150 μm.