SkeletalVis (version 0.1.2)

view_curated_oagenes: View curated osteoarthritis associated genes

Description

Retrieves the OATargets table of literature curated genes associated with osteoarthritis joint damage in animals.

Usage

view_curated_oagenes(skeletalvis)

Value

A data frame with the following columns:

PMID

The PubMed ID of the paper describing the observation.

Gene

The human gene symbol of the gene modulated in the study.

Effect on gene product

The effect of the gene modulation on the gene product.

Model

The type of OA model where the gene has been modulated.

Susceptibility observed

Increase (detrimental) or decrease (protective) in OA severity upon gene modulation.

Inferred gene effect

Based on the modulation effect, whether the gene is protective or detrimental in OA.

Delivery

The tissue specificity of the gene modulation.

Species

The species under study.

pub_date

The date of publication (epub).

LastAuthor

The last author of the publication.

Type

Genetic or exogenous modulation.

Intervention

For exogenous modulations, the method of gene modulation.

simpleModel

The broad type of OA model where the gene has been modulated.

effectConsensus

Consensus inferred gene effect across observations; 'ambiguous' if discrepancies exist.

NumStudies

The number of publications studying each gene.

Arguments

skeletalvis

The path to the SkeletalVis folder.

Examples

skeletalvis <- load_skeletalvis(demo=TRUE)
oatargets <- view_curated_oagenes(skeletalvis)