IGVFDS4825MNUM

released

File Set Type

experimental data

Control Type

unsorted FACS input

Summary

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

Assay Term

in vitro CRISPR screen using flow cytometry

Sample Summaries

THP-1 cell line, male, Homo sapiens modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library

Protocols

https://www.protocols.io/view/flowfish-with-primeflow-36wgq3q4olk5/v1

Aliases

jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-BioRep2-FFrep4-FACS_Input_AmpliconSequencing

Sequencing Results (Illumina)

9 items

Read Names

IGVFFI0978ELWU

fastq

reads

Illumina NextSeq 550

AGGATCTA:TTGT

11 MB

Jesse Engreitz, Stanford

validated

IGVFFI5173XFDT

fastq

reads

Illumina NextSeq 550

AGGATCTA:TTGT

9.0 MB

Jesse Engreitz, Stanford

validated

IGVFFI5644QJBS

fastq

reads

Illumina NextSeq 550

AACTTGAC:TGAC

11 MB

Jesse Engreitz, Stanford

validated

IGVFFI6507HAJH

fastq

reads

Illumina NextSeq 550

TCTGGCGA:TTGT

2.0 MB

Jesse Engreitz, Stanford

validated

IGVFFI6599VIPD

fastq

reads

Illumina NextSeq 550

AGGATCTA:TTGT

2.0 MB

Jesse Engreitz, Stanford

validated

IGVFFI6690YXSR

fastq

reads

Illumina NextSeq 550

TCTGGCGA:TTGT

2.1 MB

Jesse Engreitz, Stanford

validated

IGVFFI7678UERO

fastq

reads

Illumina NextSeq 550

AGGATCTA:TTGT

2.1 MB

Jesse Engreitz, Stanford

validated

IGVFFI8284JCZP

fastq

reads

Illumina NextSeq 550

TCTGGCGA:TTGT

12 MB

Jesse Engreitz, Stanford

validated

IGVFFI8971NQIE

fastq

reads

Illumina NextSeq 550

TCTGGCGA:TTGT

9.3 MB

Jesse Engreitz, Stanford

validated

Samples

1 item

Accession

Type

Sample Terms

Associated Construct Library Sets

Summary

IGVFSM5533UPOD

InVitroSystem

THP-1

IGVFDS2385DHZO

THP-1 cell line, male, Homo sapiens modified with CRISPR prime editing Sp-nCas9-M-MLV RT (PE2), transfected with a guide library

Donors

1 item

Accession

Aliases

Sex

Taxa

IGVFDO7359LVPI

igvf:donor_of_THP1

male

Homo sapiens

Associated Construct Library Sets

1 item

Accession

Summary

Library Design Files

IGVFDS2385DHZO

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

Control File Sets

1 item

Accession

Type

Summary

Aliases

Lab

IGVFDS5128CXIS

MeasurementSet

untransfected prime editing Variant-EFFECTS

jesse-engreitz:230523pPPIFEnformer-THP1-Amp_PPIF_promoter-THP1-PE2_Exp4_NegControl_AmpliconSequencing

Jesse Engreitz, Stanford

File Sets Using This Measurement Set as an Input

1 item

Accession

Type

Summary

Aliases

Lab

IGVFDS4359OODY

AnalysisSet

prime editing Variant-EFFECTS targeting PPIF: variant effects

jesse-engreitz:PPIF_promoter_Enformer_edits_THP1_Variant-FlowFISH_analysis

Jesse Engreitz, Stanford

Attribution

Award

HG011972

Principal Investigator(s)

Anshul Kundaje, Jesse Engreitz, Marlene Rabinovitch, Lars Steinmetz, Michael Bassik, Thomas Quertermous, Will Greenleaf

Contact P.I.

Jesse Engreitz

Lab

Jesse Engreitz, Stanford