Skip to content
bedrock.bio

open_targets.evidence_crispr_screen

import bedrock_bio as bb

rel = bb.load_table('open_targets.evidence_crispr_screen')

df = rel.limit(5).pl()  # Polars
df = rel.limit(5).df()  # Pandas
df.head()
id targetFromSourceId diseaseFromSourceMappedId studyId datatypeId datasourceId projectId crisprScreenLibrary studyOverview cellType ... resourceScore statisticalTestTail log2FoldChangeValue qualityControls diseaseId targetId publicationDate evidenceDate score version
0 11641a5c309e45c8bf14286035a07fb770b10630 ABHD11 MONDO_0005559 Glutamatergic Neuron-Liperfluo-CRISPRi affected_pathway crispr_screen crispr_brain Genome-wide CRISPRi-v2 Description Glutamatergic Neuron ... 0.004911 upper tail 4.532442 [] MONDO_0005559 ENSG00000106077 2021-05-24 2021-05-24 1.000000 26.09
1 121655cdc506b8a1605188560c7008d0126919f7 MRPS17 MONDO_0005559 Glutamatergic Neuron-Survival-CRISPRi affected_pathway crispr_screen crispr_brain Genome-wide CRISPRi-v2 Description Glutamatergic Neuron ... 0.045924 lower tail -4.371229 [] MONDO_0005559 ENSG00000239789 2021-05-24 2021-05-24 0.518467 26.09
2 1d048d149be526539168607fe80159a91acd1b15 PKN1 MONDO_0002561 iAstrocyte-LAMP1-Veh-CRISPRi affected_pathway crispr_screen crispr_brain hCRISPRi_v2 H1 and H4 Description Astrocyte ... 0.012556 upper tail 2.322041 [] MONDO_0002561 ENSG00000123143 2021-09-12 2021-09-12 0.800053 26.09
3 1f18729594273a91db414845ab2335ca2d7b9b04 WDR20 MONDO_0005559 Glutamatergic Neuron-PSAP KO-Survival-CRISPRa affected_pathway crispr_screen crispr_brain Genome-wide CRISPRa-v2 Description Glutamatergic Neuron ... 0.003033 upper tail 3.819621 [] MONDO_0005559 ENSG00000140153 2021-05-24 2021-05-24 1.000000 26.09
4 2398686f550965e8d5071a4b3abca2fe8580b653 KCNH8 MONDO_0005559 Glutamatergic Neuron-No Antioxidants-Survival-... affected_pathway crispr_screen crispr_brain Genome-wide CRISPRi-v2 Description Glutamatergic Neuron ... 0.007392 lower tail -2.352059 [] MONDO_0005559 ENSG00000183960 2021-05-24 2021-05-24 0.915109 26.09

Description

Section titled “Description”

Disease-target evidence derived from systematic gene perturation assays of CRISPR knock-out screens [Target-Disease]

Partitions

Section titled “Partitions”

Not partitioned.

Schema

Section titled “Schema”
Column Type Description
id TEXT Identifer of the disease/target evidence
targetFromSourceId TEXT Target ID in resource of origin (accepted sources include Ensembl gene ID, Uniprot ID, gene symbol), only capital letters are accepted
diseaseFromSourceMappedId TEXT Mapped Open Targets disease identifier
studyId TEXT Identifier of the study generating the data
datatypeId TEXT Type of the evidence
datasourceId TEXT Identifer of the evidence source
projectId TEXT The identifer of the project that generated the data
crisprScreenLibrary TEXT Applied screening library in the CRISPR/Cas9 project
studyOverview TEXT Description of the study
cellType TEXT The studied cell type. Preferably the cell line ontology label
geneticBackground TEXT Additional genetic background of the applied cell line in the CRISPR screen
literature TEXT[] List of PubMed or preprint reference identifiers
diseaseFromSource TEXT Disease label from the original source
contrast TEXT Experiment contrast
resourceScore DOUBLE Score provided by datasource indicating strength of target-disease association
statisticalTestTail TEXT End of the distribution the target was picked from
log2FoldChangeValue DOUBLE Log 2 fold expression change in contrast experiment
qualityControls TEXT[] Evidence quality flags
diseaseId TEXT Open Targets disease identifier
targetId TEXT Open Targets target identifier
publicationDate TEXT Date of the earliest publication supporting the evidence
evidenceDate TEXT Earliest data for the evidence
score DOUBLE Score of the evidence reflecting the strength of the disease/target relationship
version TEXT Open Targets Platform release version (major.minor), e.g. 26.09. Added during ingest.