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Series GSE63890 Query DataSets for GSE63890
Status Public on Jul 20, 2015
Title Characterization of mouse histone H3 variants
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary The selective incorporation of appropriate histone variants into chromatin is critical for the regulation of genome function. Although many histone variants have been identified, a complete list has not been compiled. We screened human and mouse genomes by in silico hybridization using canonical histone sequences, and found 14 uncharacterized H3-related genes in mouse. Most were similar to the H3.3 variant; their 3′ untranslated regions lacked a stem-loop structure but did have a poly- adenylation signal. Transcriptome analysis revealed tissue-specific expression of these variants. When expressed as GFP-tagged versions in mouse C2C12 cells, some variants were stably incorporated into chromatin and the genome distributions of most variants were similar to that of H3.3. Over-expression of some variants altered gene expression patterns in differentiated C2C12 cells, suggesting that these new H3 variants have specific and distinct functions.
Overall design RNA-Seq and ChIP-Seq for GFP fused Histone H3 variants of C2C12 cells in growth or differentiated conditions; 3'-seq analysis for C2C12 cells and mouse tissues
Contributor(s) Ohkawa Y, Maehara K, Harada A
Citation(s) 26388943
BioProject PRJDB3075
Submission date Dec 05, 2014
Last update date May 15, 2019
Contact name Yasuyuki Ohkawa
Organization name Kyushu University
Department Medical Institute of Bioregulation, Medical Institute of Bioregulation
Street address 3-1-1 Maidashi, Higashi-ku, Fukuoka
City Fukuoka
ZIP/Postal code 812-8582
Country Japan
Platforms (1)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (66)
GSM1559479 mRNA C2C12-WT-G
GSM1559480 mRNA C2C12-H3.1-G
GSM1559481 mRNA C2C12-H3t-G

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE63890_3primeSeq_RPMTable_rep1.txt.gz 816 b (ftp)(http) TXT
GSE63890_3primeSeq_RPMTable_rep2.txt.gz 884 b (ftp)(http) TXT
GSE63890_ChIP-seq.bigwig_files.tar.gz 1.8 Gb (ftp)(http) TAR
GSE63890_mRNASeq_FPKMTable.txt.gz 1.2 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data provided as supplementary file
Processed data are available on Series record

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