audit_inconsistent_sequencing_kit

audit_missing_seqspec

audit_item_status

audit_missing_auxiliary_set

Jesse Engreitz

Stanford Center for Connecting DNA Variants to Function and Phenotype

Jesse Engreitz, Stanford

Variant-EFFECTS

guide (sgRNA) library targeting sequence variants in a genomic locus

Jurkat cell line, male, Homo sapiens (sorting details: FACS bin for 76-100% expression of IL2RA) treated with 100 ng/mL phorbol 13-acetate 12-myristate for 24 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 24 hours, modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library

CRISPR prime editing Variant-EFFECTS integrating a guide (sgRNA) library targeting sequence variants in a genomic locus

audit_analysis_set_files_missing_analysis_step_version

Analysis of IL2RA promoter 5-bp tiling mutagenesis edit effects on IL2RA expression that were measured by Variant-EFFECTS (formerly known as Variant-FlowFISH) in Jurkat cells stimulated for 24h with PMA and anti-CD3 antibody.

Jurkat cell line, stimulated with treatment(s), modified with CRISPR modifications, transfected with a guide library, sorted on expression of IL2RA

Jurkat cell line, male, Homo sapiens (sorting details: FACS bin for 26-50% expression of IL2RA) treated with 100 ng/mL phorbol 13-acetate 12-myristate for 24 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 24 hours, modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library

Jurkat cell line, male, Homo sapiens (sorting details: FACS bin for 51-75% expression of IL2RA) treated with 100 ng/mL phorbol 13-acetate 12-myristate for 24 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 24 hours, modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library

Jurkat cell line, male, Homo sapiens (sorting details: FACS bin for 0-25% expression of IL2RA) treated with 100 ng/mL phorbol 13-acetate 12-myristate for 24 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 24 hours, modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library

Jurkat cell line, male, Homo sapiens treated with 100 ng/mL phorbol 13-acetate 12-myristate for 24 hours, 5 μg/mL T-cell surface glycoprotein CD3 gamma chain for 24 hours, modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2)

prime editing Variant-EFFECTS targeting IL2RA: variant effects

Accession

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Alternate Accessions

Assay Term

Assemblies

Assessed Genes

Associated Phenotypes

Award

Description

Donors

Taxa

File Set Type

Functional Assay Mechanisms

Input File Sets

Measurement Sets

Model Name

Prediction Objects

Preferred Assay Title

Protocols

Sample Summary

Samples

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Genes

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Summary

Assay Targeted Genes

Transcriptome Annotations

UUID

FileSet

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Sample

Files

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Quality

Object Type

Classification

Modification

Treatment

File Type

File Format

Audit category: NOT COMPLIANT

Audit category: WARNING

Audit Category: Internal Action

Externally Hosted

samples.@id

Report