Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 37
Release date: Nov 13 2018
Last update date: Nov 21 2018
Access: Public
Diseases: Cerebellar Neoplasms, Neoplasms
Genes: KMT2D, Setd7, Kmt2d, DNMT3A, BCL6
Taxon: Mus musculus
Dataset link MLL4 establishes super-enhancers and broad H3K4me3 for tumor-suppressive function

Experimental Protocol


Expression profiling by RNA-seq, profiling of Mll4f/f (Mll4_WT) and Mll4 BSKO (Mll4 KO) from one month and 4 months mice cerebellum, and histone modifications (H3K4me1/3, H3K27ac, and Mll4) by ChIP-seq, at four months cerebellum. ChIP assays were performed as a modification of the previously described methods (Dhar et al., 2016; Dhar et al., 2012). In brief, cerebellar (4-month-old) tissues were isolated. DNA was purified from chromatin immunoprecipitates for MLL4 or IgG using the phenol/chloroform extraction. IgG was used as a negative control for ChIP (samples not included here). Then, DNA was amplified by quantitative PCR and normalized to input. To compare H3K4me1, H3K27ac, and H3K4me3 levels between Mll4f/f and Mll4 BSKO cerebellum, ChIP with reference exogenous genome (ChIP-Rx) was carried out as previously described (Li et al., 2016; Orlando et al., 2014). This series includes H3K4me1, H3K27ac, and H3K4me3 ChIP-seq data of cerebellar neurospheres.

Repositories


GEO

GSE95626

ENA

SRP101279

BioProject

PRJNA377724

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Contact


JIE Lv