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Human Reproduction is Regulated by Retrotransposons derived from Ancient Hominindae-Specific Viral Infections [RNA-seq]

ABSTRACT: Here, we report the transcriptome profile for dCAS9-KRAB CRISPRi targeting LTR5Hs in human primordial germ cell-like cells.

ORGANISM(S): Homo sapiens

PROVIDER: GSE182217 | GEO | 2021/11/09

REPOSITORIES: GEO

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Human Reproduction is Regulated by Retrotransposons derived from Ancient Hominindae-Specific Viral Infections [ChIP-seq]

Project description:Here, we report the genomic binding profile of NANOG and SOX17 in human embryonic stem cells and human primordial germ cell-like cells.

2021-11-09 | GSE182216 | GEO

Human Reproduction is Regulated by Retrotransposons derived from Ancient Hominidae-Specific Viral Infections

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-11-07 | GSE182218 | GEO

RNA-seq of CSMD1 enhancer CRISPRi in LUHMES cells and differentiated neurons

Project description:we performed lentiviral CRISPR interference (CRISPRi) by recruiting dCas9 fused with the KRAB domain to the CSMD1 enhancer (fam3) in the neuronal precursor cell line – Lund human mesencephalic (LUHMES). Given that the expression of CSMD1 was not detectable in LUHMES cells we differentiated these cells into neurons. Differentiated neurons with CRISPRi of CSMD1 enhancer showed significantly higher expression of CSMD1 than control.

2022-06-30 | E-MTAB-8027 | biostudies-arrayexpress

Synthetic epigenetic reprogramming of mesenchymal to epithelial states using the CRISPR/dCas9 platform in triple negative breast cancer [methylation array]

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2023-04-17 | GSE210273 | GEO

Genome-wide gene expression analysis for CRISPRi targeting a human SFTPB locus bound by NKX2-1

Project description:RNA-seq was performed to identify genes affected by CRISPRi (dCas9-KRAB) with sgRNA (sgSFTPB#2) targeting the first intronic region of human SFTPB bound by NKX2-1 in an unbiased genome-wide fashion using A549 lung carcinoma cells that constitutively express dCas9-KRAB and NKX2-1.

2021-03-25 | GSE162186 | GEO

CRISPRi-mediated functional analysis of lung disease-associated loci at non-coding regions [RNA-seq]

Project description:RNA-seq was performed to identify genes affected by CRISPRi (dCas9-KRAB) with sgRNA (sgTGFB1_B9D2) targeting a region that contains rs1800469 in an unbiased genome-wide fashion using H441 lung papillary adenocarcinoma cells.

2020-05-05 | GSE145529 | GEO

Identification of a novel enhancer of CEBPE essential for granulocytic differentiation

Project description:RNA-Seq of Control, dCas9-KRAB-EV, dCas9-KRAB-sg2 and dCas9-KRAB-sg5

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Generation and characterization of inducible KRAB-dCas9 iPSCs from primates for cross-species CRISPRi

Project description:Comparisons of molecular phenotypes across primates provide unique information to understand human biology and evolution and single-cell RNA-seq CRISPR interference screens are a powerful approach to analyze them. Here, we generate and validate three human, three gorilla and two cynomolgus iPS cell lines that carry a dox-inducible KRAB-dCas9 construct in the AAVS1 locus. We show that despite variable expression levels of KRAB-dCas9 among lines, comparable downregulation of target genes and comparable phenotypic effects are observed in a single-cell RNA-seq CRISPR interference screen. Hence, we provide valuable resources for performing and further extending CRISPRi screens in human and non-human primates.

2024-02-20 | GSE255980 | GEO

Generation and characterization of inducible KRAB-dCas9 iPSCs from primates for cross-species CRISPRi

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Single-cell profiling of cell cultures during endoMT induction.

Project description:Single-cell RNA sequencing (scRNAseq) data from EndoMT Day 1 dcas9-KRAB-MeCP2 (KRAB Control Day1), EndoMT Day 3 dcas9-KRAB-MeCP2 (KRAB Control Day3), and EndoMT Day 3 dcas9-KRAB-MeCP2 + rs117430032 gRNA (rs117430032i) cells.

2022-12-16 | GSE193206 | GEO

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