Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Pitfalls in Single Clone CRISPR-Cas9 Mutagenesis to Fine-map Regulatory Intervals

ABSTRACT: Pitfalls in Single Clone CRISPR-Cas9 Mutagenesis to Fine-map Regulatory Intervals

PROVIDER: PRJNA559145 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Pitfalls in Single Clone CRISPR-Cas9 Mutagenesis to Fine-map Regulatory Intervals.

Project description: Not available

| S-EPMC7288657 | biostudies-literature

Pitfalls in Single Clone CRISPR-Cas9 Mutagenesis to Fine-map Regulatory Intervals

Project description:We report gene expression of four and three single-cell derived clones from HL60 and HL60/S4 cell lines, respectively, and the gene expression of bulk parental lines. We also report gene expression of control and mnocyte-derived HL60 (n=2, n=2, respectively) and HL60/S4 (n=2, n=2, respectively) single-cell clones, and control and neutrophil-derived HL60 (n=4, n=4, respectively) and HL60/S4 (n=4, n=4, respectively) single-cell clones.

2019-08-19 | GSE135507 | GEO

Saturating mutagenesis with assembled CRISPR-Cas9 ribonucleoprotein complexes.

Project description:The CRISPR-Cas9 system enables efficient sequence-specific mutagenesis for creating germline mutants of model organisms. Key constraints in vivo remain the expression and delivery of active Cas9-guideRNA ribonucleoprotein complexes (RNPs) with minimal toxicity, variable mutagenesis efficiencies depending on targeting sequence, and high mutation mosaicism. Here, we established in vitro-assembled, fluorescent Cas9-sgRNA RNPs in stabilizing salt solution to achieve maximal mutagenesis efficiency in zebrafish embryos. Sequence analysis of targeted loci in individual embryos reveals highly efficient bi-allelic mutagenesis that reaches saturation at several tested gene loci. Such virtually complete mutagenesis reveals preliminary loss-of-function phenotypes for candidate genes in somatic mutant embryos for subsequent generation of stable germline mutants. We further show efficient targeting of functional non-coding elements in gene-regulatory regions using saturating mutagenesis towards uncovering functional control elements in transgenic reporters and endogenous genes. Our results suggest that in vitro assembled, fluorescent Cas9-sgRNA RNPs provide a rapid reverse-genetics tool for direct and scalable loss-of-function studies beyond zebrafish applications.

2016-05-01 | E-MTAB-4143 | biostudies-arrayexpress

Fine-mapping within eQTL Credible Intervals by E-CROPseq

Project description:Fine-mapping within eQTL Credible Intervals by E-CROPseq

| PRJNA590167 | ENA

Fine-mapping within eQTL Credible Intervals by E-CROPseq

Project description:Precise identification of causal variants within credible intervals of eQTL associations is needed to identify regulatory GWAS variants. We show that CROPseq, namely multiplex CRISPR-Cas9 genome editing combined with single cell RNAseq, is a viable strategy for fine mapping regulatory SNPs. Mutations were induced nearby 67 SNPs in three genes, two of which, rs2251039 and rs17523802, significantly altered CISD1 and PARK7 expression, respectively, and overlap with chromatin accessibility peaks.

2019-11-28 | GSE140553 | GEO

Saturating mutagenesis with assembled CRISPR-Cas9 ribonucleoprotein complexes.

Project description:Saturating mutagenesis with assembled CRISPR-Cas9 ribonucleoprotein complexes.

| PRJEB12161 | ENA

Clone C

Project description:Pseudomonas aeruginosa Clone C complete genome

| PRJEB5222 | ENA

Daphnia magna CRISPR/Cas9 TRH gene knock downs transciptomic profilling

Project description:Transcriptomic profilling of 4 daphnia magna clones. One laboratory clone (Clone F +/+), one heterozygotic Clone (Clone 13 +/-) , two homozygotic Clones (Clone 16 and 17 -/-)

2018-07-31 | GSE101858 | GEO

RNA-Seq of Metastatic Clone versus Non-Metastatic Clone in Sarcoma

Project description:RNA-Seq of Metastatic Clone versus Non-Metastatic Clone in Sarcoma

| PRJNA485780 | ENA

freshwater sediment clone ensemble

Project description:freshwater sediment clone ensemble overview

| PRJNA192183 | ENA