GSM5625240: WTLPS_rep2_rnaseq; Mus musculus; RNA-Seq - SRA

SRX12601737: GSM5625240: WTLPS_rep2_rnaseq; Mus musculus; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 22M spots, 3.3G bases, 1.1Gb downloads

Submitted by: NCBI (GEO)

Study: Three-dimensional analysis of genome organization in CTCF-WT and CTCF-KO dendritic cells (RNA-seq)

PRJNA771090 • SRP341301 • All experiments • All runs

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Purpose: The goals of this study are to analyze global transcriptional, epigenetic and topological changes in dendritic cells under LPS treatment condition and to investigate how CTCF regulates three-dimensional chromatin interaction in inflammatory response. Conclusions: Our study provides the detailed analysis of transcriptional, epigenetic and topological genome profiles in mouse dendritic cells under LPS treatment condition. Moreover, our data show how three-dimensional enhancer networks control gene expression during DC activation. Overall design: LPS treated and non-treated RNA profiles of CTCF-WT and CTCF-KO cells with biological triplicates.

Sample: WTLPS_rep2_rnaseq

SAMN22252110 • SRS10556133 • All experiments • All runs

Organism: Mus musculus

Library:

Instrument: Illumina HiSeq 2500

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: PAIRED

Construction protocol: Cells were PBS washed, and RNA was harvested and isolated using Hybrid-R Total RNA kits (Gene All Biotechnology) and rRNAs were depleted by using the NEBNext rRNA Depletion Kit (NEB #E6350). TruSeq RNA sample prep kit (illumina #FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.

Experiment attributes:

GEO Accession: GSM5625240

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 22M spots, 3.3G bases, 1.1Gb

Run	# of Spots	# of Bases	Size	Published
SRR16323920	21,972,221	3.3G	1.1Gb	2023-01-04

ID:: 17105181

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