Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Amplicon DNA-sequencing of time series of pooled-CRISPR knock-out screens of cell lines using a dual-guide CRISPR library

ABSTRACT: Amplicon DNA-sequencing of time series of pooled-CRISPR knock-out screens of cell lines using a dual-guide CRISPR library

PROVIDER: PRJEB74454 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR12815607_1.fastq.gz	Fastqsanger.gz
	ERR12815607_2.fastq.gz	Fastqsanger.gz
	ERR12815608_1.fastq.gz	Fastqsanger.gz
	ERR12815608_2.fastq.gz	Fastqsanger.gz
	ERR12815609_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 84

Similar Datasets

Pooled CRISPR screens in human intestinal organoids [CRISPR screens]

Project description:Pooled CRISPR screens in human intestinal organoids [CRISPR screens]

| PRJNA608420 | ENA

Amplicon DNA-sequencing of time series of pooled-CRISPR knock-out screens of Osimertinib and DMSO-treated cell lines using a dual-guide CRISPR library

Project description:This project is a drug-gene interaction dual-guide CRISPR screen using a 3-guide pairs per gene library design.

2025-02-12 | E-MTAB-13980 | biostudies-arrayexpress

Optimized CRISPR guide RNA library cloning reduces skew and enables more compact genetic screens

Project description:The development of CRISPR genetic screening tools has improved functional genomics, as these tools enable precise genomic editing, provide broad access to genomic regions beyond protein-coding genes, and have fewer off-target effects than other functional genomics modalities, allowing for novel applications with smaller library sizes compared to prior technologies. Pooled functional genomics screens require high cellular coverage per perturbation to accurately quantify phenotypes and average out phenotype-independent variability across the population. While more compact libraries have decreased the number of cells needed for a given screen, the cell coverage required for large-scale CRISPR screens still poses technical hurdles to screen in more challenging systems, such as iPSC-derived and primary cells. A major factor that influences cell coverage is screening library uniformity, as larger variation in individual guide RNA abundance requires higher cell coverage to reliably measure low-abundance guides. In this work, we have systematically optimized guide RNA cloning procedures to decrease bias. We implement these protocols to demonstrate that CRISPRi screens using 10-fold fewer cells than the current standard provides equivalent statistically significant hit-calling results to screens run at higher coverage, opening the possibility of conducting genome-wide and other large-scale CRISPR screens in technically challenging models.

2023-01-10 | GSE222531 | GEO

Pooled CRISPR screens in human macrophages

Project description:Pooled CRISPR screens in human macrophages

| PRJNA893203 | ENA

CRISPR-MIP replaces PCR and reveals GC and oversampling bias in pooled CRISPR screens

Project description:This is data for the evaluation of a new way of counting sgRNAs in CRISPR screens using padlock probes and UMIs. It is compared to the typical PCR-based approach. In particular, a dropout screen was performed in MiaPaCa-2 cells using the Human Kinome CRISPR pooled library (Addgene #75314)

2024-08-18 | E-MTAB-14379 | biostudies-arrayexpress

Pooled CRISPR screens in human intestinal organoids

Project description:Pooled CRISPR screens in human intestinal organoids

| PRJNA608374 | ENA

Amplicon DNA-sequencing of time series of pooled-CRISPR knock-out screens of cell lines using a dual-guide CRISPR library

Project description:This project aims to compare gRNA design algorithms and single- versus dual-targeting using a benchmark CRISPR-knockout library composed of gRNAs targeting essential and non-essential genes.

2025-02-12 | E-MTAB-13981 | biostudies-arrayexpress

Amplicon DNA-sequencing of time series of pooled-CRISPR knock-out screens of Osimertinib and DMSO-treated cell lines using a dual-guide CRISPR library

Project description:Amplicon DNA-sequencing of time series of pooled-CRISPR knock-out screens of Osimertinib and DMSO-treated cell lines using a dual-guide CRISPR library

| PRJEB74453 | ENA

Pooled CRISPR screens in human intestinal organoids [RNA-seq]

Project description:Pooled CRISPR screens in human intestinal organoids [RNA-seq]

| PRJNA608809 | ENA

Pooled CRISPR screens in human intestinal organoids [CUT&RUN]

Project description:Pooled CRISPR screens in human intestinal organoids [CUT&RUN]

| PRJNA608810 | ENA