GM Suite

Information
Accession	GMS-65-1 URL copied to the clipboard
Title	Intra-chromosomal Hi-C contacts (mESC Rep1)
Submit date	2022-01-31 12:21:48
Last update date	2023-09-11 13:16:53
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)	ESC
Protocol
Data processing	HiCExplorer â€” HiCExplorer 3.7.2 documentation

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Analysis
[1]	H1 cell line (SRR2977621) H1_human_RNA.bam (429.08 MB) Human (hg38); RNA-Seq
[2]	Transcriptome at E16.5 E16.5_Rep1.bam (558.05 MB) Mouse (mm10); RNA-Seq
[3]	Mouse ESC RNA-seq (GSM4647545) ESC1_RNA.bam (1.65 GB) Mouse (mm10); RNA-Seq
[4]	Intra-chromosomal Hi-C contacts (mESC Rep1) JuiceBox mESC1.intra.hic (1.69 GB) Mouse (mm10); Hi-C	mCool Cooler-Tree PHi-C2 (polymer dynamics modeling) failed chr1:1-195471971 (250Kb) chr1:113073000-126292000 (25Kb) chr1:113073000-1254292000 (25Kb) chr2:1-182113224 (250Kb) chr4:1-156508116 (250Kb) chr5:1-151834684 (250Kb) chrX:1-171031299 (250Kb) chrX:115000001-125000000 (25Kb)
[5]	no description Chr8_PhiC.png (455.24 KB)

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Supplements
[172] H1_human_RNA.bam H1 cell line (SRR2977621) application/octet-stream 429.08 MB MD5: ac69edf8538390c4bd1ed9fca4626ebd
[190] E16.5_Rep1.bam Transcriptome at E16.5 application/octet-stream 558.05 MB MD5: 4e3099b4c10f7719b321b0fe982c7224
[171] ESC1_RNA.bam Mouse ESC RNA-seq (GSM4647545) application/octet-stream 1.65 GB MD5: 71958136fa9af43d30d25754b85399dc
[228] mESC1.intra.hic Intra-chromosomal Hi-C contacts (mESC Rep1) application/octet-stream 1.69 GB MD5: 1c07ac5d23e49a94a82fdd46e7547738
[393] Chr8_PhiC.png no description image/png 455.24 KB MD5: dee83cdefe92ada06b9a2bfdaad3e5f4