Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 8
Release date: Aug 31 2018
Last update date: Sep 1 2018
Access: Public
Genes: Setdb1, PCGF6, PRC1, SETDB1
Taxon: Mus musculus
Dataset link DNMTs and SETDB1 function as co-repressors in MAX-mediated repression of germ cell-related genes in mouse embryonic stem cells

Experimental Protocol


L3mbtl2-KD was performed in VV3 ESCs. Total RNA (100 ng) was isolated and purified using an RNeasy micro kit (Qiagen). The quality and quantity of purified total RNA were verified by Agilent 2100 Bioanalyzer (Agilent) and NanoDrop ND-1000 (Thermo Fischer Scientific), respectively. DNA microarray analysis was carried out according to manufacturer’s instruction. In brief, cyanine3-labelled cRNA was obtained from 100 ng of purified total RNA using a Low Input Quick Amp Labeling kit (Agilent). The cRNA was purified, fragmented and then hybridized to an Agilent Whole Mouse Genome Oligo DNA Microarray kit, Ver 2.0 (Agilent) containing over 44,000 probe sets for mouse genes. Following hybridization at 65°C for 17h, the arrays were washed and fluorescence signals were scanned using an Agilent DNA microarray scanner. Agilent Feature Extraction software was used to reduce the array images to the intensity of each probe (TXT files). Each cell type was analyzed in four biological replicates.

Repositories


GEO

GSE102610

BioProject

PRJNA398205

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Contact


Yohei Hayashi