Information
Accession GMS-64-5 

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TitleTranscriptome and Histones in Germinal Center B Cell
Submit date2023-01-30 11:41:02
Last update date2023-01-31 17:55:53
Contact Sung-Joon PARK
park AT hgc.jp
The University of Tokyo
Sharing
Total file size11.10 GB
Keywords Histone  GC B cell  transcriptome 
 Study
Experiment type ChIP-seq data of Histone Marks in NB and GCB prepared from DeepBlue (https://deepblue.mpi-inf.mpg.de/).
RNA-seq datasets are SRR3743470 (Rep1) and SRR3743471 (Rep2).
Summary
H3K4me3 S00Y9OH1.ERX712722.H3K4me3.bwa.GRCh38.20150527.bed etc.
H3K4me1 S00Y9OH1.ERX712723.H3K4me1.bwa.GRCh38.broad.20150527.bed etc.
H3K27ac S00Y9OH1.ERX712724.H3K27ac.bwa.GRCh38.20150527.bed etc.
H3K36me3 S00Y9OH1.ERX712725.H3K36me3.bwa.GRCh38.broad.20150527.bed etc.
H3K9me3 S00Y9OH1.ERX712726.H3K9me3.bwa.GRCh38.broad.20150527.bed etc.
H3K27me3 S00Y9OH1.ERX712727.H3K27me3.bwa.GRCh38.broad.20150527.bed etc.
GCB_1_RNA (RNA-seq Rep1) SRR3743470
GCB _2_RNA (RNA-seq Rep2) SRR3743471
Citation(s)
 Experiment
OrganismHuman
Cell (Tissue) Germinal Center B Cell
Protocol Histone ChIP-seq 
The protocol will be found from DeepBlue website (https://deepblue.mpi-inf.mpg.de/)
Data processing The ChIP-seq BED files downloaded from DeepBlue were processed by >2 fold-change and < 0.05 q-value.
The RNA-seq FASTQ files were processed by Trimmomatic and Hisat2.
 Analysis
[1] Transcriptome (GCB Rep1)
Browse  Browse (All)
Human (hg38); RNA-Seq
  
CRAM
GCB_1_RNA.cram (4.23 GB)  
[2] Transcriptome (GCB Rep2)
Browse 
Human (hg38); RNA-Seq
  
CRAM
GCB_2_RNA.cram (6.86 GB)  
[3] H3K27ac
Browse 
Human (hg38); ChIP-Seq
  
BW
H3K27ac.bigwig (3.14 MB)  
[4] H3K27me3
Browse 
Human (hg38); ChIP-Seq
  
BW
H3K27me3.bigwig (2.68 MB)  
[5] H3K36me3
Browse 
Human (hg38); ChIP-Seq
  
BW
H3K36me3.bigwig (1.24 MB)  
[6] H3K4me1
Browse 
Human (hg38); ChIP-Seq
  
BW
H3K4me1.bigwig (2.57 MB)  
[7] H3K4me3
Browse 
Human (hg38); ChIP-Seq
  
BW
H3K4me3.bigwig (1.19 MB)  
[8] H3K9me3
Browse 
Human (hg38); ChIP-Seq
  
BW
H3K9me3.bigwig (3.01 MB)  
 Supplements
[320] GCB_1_RNA.cram 
 Transcriptome (GCB Rep1)
 application/octet-stream 4.23 GB MD5: 8d595bbd6a3a32d9c9de6c368f3a7032
[321] GCB_2_RNA.cram 
 Transcriptome (GCB Rep2)
 application/octet-stream 6.86 GB MD5: 01be0a12efdd28608f7277daab8d1edf
[340] H3K27ac.bigwig 
 H3K27ac
 application/octet-stream 3.14 MB MD5: 938cb6592fd15bc0745a38cdaf594d74
[337] H3K27me3.bigwig 
 H3K27me3
 application/octet-stream 2.68 MB MD5: d535c9de7a5ed99541e4c005dac573de
[336] H3K36me3.bigwig 
 H3K36me3
 application/octet-stream 1.24 MB MD5: 1f5d13179ba781a25f3f87f741534376
[338] H3K4me1.bigwig 
 H3K4me1
 application/octet-stream 2.57 MB MD5: 34f941a15a47601faa8651b0cabfe389
[335] H3K4me3.bigwig 
 H3K4me3
 application/octet-stream 1.19 MB MD5: ed844e463c1ddea25da755a845fe30eb
[339] H3K9me3.bigwig 
 H3K9me3
 application/octet-stream 3.01 MB MD5: 10f3ca9d426699bbfcc35f35b1e9176b