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GEO accession:
Series GSE124463
Query DataSets for GSE124463
Status
Public on Jan 01, 2020
Title
Promoter capture Hi-C identifies long-range promoter contact dynamics in response to diet and the development of non-alcoholic fatty liver disease
Organism
Mus musculus
Experiment type
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
Summary
We profiled the chromatin interactions in liver from mice fed either an obesogenic or control diet.
Overall design
Examination of chromatin interactions, histone modification, gene expression and transcription factors binding in mice liver samples
Contributor(s)
Qin Y
,
Roberts JD
,
Grimm SA
,
Chrysovergis K
,
Wade PA
Citation(s)
32075973
Submission date
Dec 28, 2018
Last update date
Mar 09, 2020
Contact name
Paul A Wade
E-mail(s)
wadep2@niehs.nih.gov
Phone
919-541-3392
Organization name
NIEHS
Department
Laboratory of Molecular Carcinogenesis
Street address
111 TW Alexander Drive
City
Research Triangle Park
State/province
NC
ZIP/Postal code
27709
Country
USA
Platforms (2)
GPL19057
Illumina NextSeq 500 (Mus musculus)
GPL24247
Illumina NovaSeq 6000 (Mus musculus)
Samples (46)
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GSM3534484
HFD_H3K27ac_ChIPSeq_replicate1
GSM3534485
HFD_H3K27ac_ChIPSeq_replicate2
GSM3534486
HFD_H3K27ac_ChIPSeq_replicate3
GSM3534487
LFD_H3K27ac_ChIPSeq_replicate1
GSM3534488
LFD_H3K27ac_ChIPSeq_replicate2
GSM3534489
LFD_H3K27ac_ChIPSeq_replicate3
GSM3534490
HFD_H3K27ac_ChIPSeq_replicate1_input
GSM3534491
HFD_H3K27ac_ChIPSeq_replicate2_input
GSM3534492
HFD_H3K27ac_ChIPSeq_replicate3_input
GSM3534493
LFD_H3K27ac_ChIPSeq_replicate1_input
GSM3534494
LFD_H3K27ac_ChIPSeq_replicate2_input
GSM3534495
LFD_H3K27ac_ChIPSeq_replicate3_input
GSM3534496
HFD_HNF4a_ChIPSeq_replicate1
GSM3534497
HFD_HNF4a_ChIPSeq_replicate2
GSM3534498
LFD_HNF4a_ChIPSeq_replicate1
GSM3534499
LFD_HNF4a_ChIPSeq_replicate2
GSM3534500
HFD_HNF4a_ChIPSeq_replicate1_input
GSM3534501
HFD_HNF4a_ChIPSeq_replicate2_input
GSM3534502
LFD_HNF4a_ChIPSeq_replicate1_input
GSM3534503
LFD_HNF4a_ChIPSeq_replicate2_input
GSM3534504
HFD_C/EBPa_ChIPSeq_replicate1
GSM3534505
HFD_C/EBPa_ChIPSeq_replicate2
GSM3534506
LFD_C/EBPa_ChIPSeq_replicate1
GSM3534507
LFD_C/EBPa_ChIPSeq_replicate2
GSM3534508
HFD_C/EBPa_ChIPSeq_replicate1_input
GSM3534509
HFD_C/EBPa_ChIPSeq_replicate2_input
GSM3534510
LFD_C/EBPa_ChIPSeq_replicate1_input
GSM3534511
LFD_C/EBPa_ChIPSeq_replicate2_input
GSM3534512
HFD_Hi-C_replicate1
GSM3534513
HFD_Hi-C_replicate2
GSM3534514
LFD_Hi-C_replicate1
GSM3534515
LFD_Hi-C_replicate2
GSM3534516
HFD_PCHi-C_replicate1
GSM3534517
HFD_PCHi-C_replicate2
GSM3534518
LFD_PCHi-C_replicate1
GSM3534519
LFD_PCHi-C_replicate2
GSM3534520
HFD_RNAseq_replicate1
GSM3534521
HFD_RNAseq_replicate2
GSM3534522
HFD_RNAseq_replicate3
GSM3534523
HFD_RNAseq_replicate4
GSM3534524
HFD_RNAseq_replicate5
GSM3534525
LFD_RNAseq_replicate1
GSM3534526
LFD_RNAseq_replicate2
GSM3534527
LFD_RNAseq_replicate3
GSM3534528
LFD_RNAseq_replicate4
GSM3534529
LFD_RNAseq_replicate5
Relations
BioProject
PRJNA512094
SRA
SRP174637
Download family
Format
SOFT formatted family file(s)
SOFT
MINiML formatted family file(s)
MINiML
Series Matrix File(s)
TXT
Supplementary file
Size
Download
File type/resource
GSE124463_HF.minScore_5.maxDist_1Mb.txt.gz
1.8 Mb
(ftp)
(http)
TXT
GSE124463_HF_TADs.txt.gz
81.8 Kb
(ftp)
(http)
TXT
GSE124463_LF.minScore_5.maxDist_1Mb.txt.gz
1.8 Mb
(ftp)
(http)
TXT
GSE124463_LF_TADs.txt.gz
79.8 Kb
(ftp)
(http)
TXT
GSE124463_RAW.tar
4.3 Gb
(http)
(custom)
TAR (of BED, BIGWIG, TXT)
GSE124463_RNAseq_TPM_per_gene_DEseq2.txt.gz
1.3 Mb
(ftp)
(http)
TXT
GSE124463_RNAseq_counts_per_gene.txt.gz
742.8 Kb
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record
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