GM Suite

Information
Accession	GMS-65-1 URL copied to the clipboard
Submit date	2022-01-31 12:21:48
Last update date	2023-01-11 15:55:23
Contact	GMSuite GENOMEMODALITY gmsuite AT hgc.jp The University of Tokyo
Sharing
Total file size	4.32 GB
Keywords	Chromatin PHi-C Hi-C

Study
Experiment type	Hi-C experiment with mouse ESCs.PHi-C structure modeling.
Summary	Public datasets were used.
Citation(s)

Experiment
Organism	Mouse
Cell (Tissue)	mESCs
Protocol
Data processing	HiCExplorer — HiCExplorer 3.7.2 documentation

Analysis
[1]	H1 cell line (SRR2977621) Browse (All Tracks) H1_human_RNA.bam (429.08 MB) Human (hg38); RNA-Seq
[2]	Transcriptome at E16.5 Browse (All Tracks) E16.5_Rep1.bam (558.05 MB) Mouse (mm10); RNA-Seq
[3]	Mouse ESC RNA-seq (GSM4647545) Browse ESC1_RNA.bam (1.65 GB) Mouse (mm10); RNA-Seq
[4]	Intra-chromosomal Hi-C contacts (mESC Rep1) Browse mESC1.intra.hic (1.69 GB) Mouse (mm10); Hi-C	mCool Cooler-Tree PHi-C2 (polymer dynamics modeling) chr1:113073000-120292000 (25Kb resolution, KR, 289 bins) chr1:113073000-125292000 (25Kb resolution, KR, 489 bins) chr1:113073000-125392000 (25Kb resolution, KR, 493 bins) chr1:113073000-1254292000 (25Kb resolution, KR, 45649 bins) failed chr1:113073000-126292000 (25Kb resolution, KR, 529 bins) failed chr1:68130104-95278988 (50Kb resolution, KR, 543 bins) chr3:33379052-35381277 (25Kb resolution, KR, 81 bins) chr6:120331269-125153871 (25Kb resolution, KR, 193 bins) chr8:104001214-123401213 (50Kb resolution, KR, 388 bins)

Supplements
H1_human_RNA.bam H1 cell line (SRR2977621) application/octet-stream 429.08 MB MD5: ac69edf8538390c4bd1ed9fca4626ebd
E16.5_Rep1.bam Transcriptome at E16.5 application/octet-stream 558.05 MB MD5: 4e3099b4c10f7719b321b0fe982c7224
ESC1_RNA.bam Mouse ESC RNA-seq (GSM4647545) application/octet-stream 1.65 GB MD5: 71958136fa9af43d30d25754b85399dc
mESC1.intra.hic Intra-chromosomal Hi-C contacts (mESC Rep1) application/octet-stream 1.69 GB MD5: 1c07ac5d23e49a94a82fdd46e7547738