|
| Status |
Public on Aug 29, 2019 |
| Title |
Transcriptonal and epigenetic changes of adult liver cells in vivo and in vitro |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Other
|
| Summary |
RNA profile, TET1 and H3K4me3 occupancy in adult ductal cells grown as organoids in vitro; RNA profile, 5mC and 5hmC sites at single base resolution in adult ductal cells in vivo upon damage
|
| |
|
| Overall design |
RNA profile, TET1 and H3K4me3 occupancy in adult ductal cells grown as organoids in vitro; RNA profile, 5mC and 5hmC sites at single base resolution in adult ductal cells in vivo upon damage
|
| |
|
| Contributor(s) |
Aloia L, Vernaz G, Huch M |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Nov 29, 2018 |
| Last update date |
Aug 30, 2019 |
| Contact name |
Charles Bradshaw |
| Organization name |
University of Cambridge
|
| Department |
Gurdon Institute
|
| Street address |
Tennis Court Road
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 1QN |
| Country |
United Kingdom |
| |
|
| Platforms (2) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
|
| Samples (42)
|
|
| Relations |
| BioProject |
PRJNA507616 |
| SRA |
SRP171165 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE123133_H3K4me3_broadpeak_FDR2.bed.gz |
196.3 Kb |
(ftp)(http) |
BED |
| GSE123133_H3K4me3_peaks.xlsx |
574.7 Kb |
(ftp)(http) |
XLSX |
| GSE123133_SLX-15741.NEBNext01.HV3KVBBXX.CCGG.bed.txt.gz |
11.8 Mb |
(ftp)(http) |
TXT |
| GSE123133_SLX-15741.NEBNext02.HV3KVBBXX.CCGG.bed.txt.gz |
9.8 Mb |
(ftp)(http) |
TXT |
| GSE123133_SLX-15741.NEBNext04.HV3KVBBXX.CCGG.bed.txt.gz |
10.4 Mb |
(ftp)(http) |
TXT |
| GSE123133_SLX-15741.NEBNext05.HV3KVBBXX.CCGG.bed.txt.gz |
10.7 Mb |
(ftp)(http) |
TXT |
| GSE123133_SLX-15741.NEBNext06.HV3KVBBXX.CCGG.bed.txt.gz |
11.1 Mb |
(ftp)(http) |
TXT |
| GSE123133_SLX-15741.NEBNext09.HV3KVBBXX.CCGG.bed.txt.gz |
11.3 Mb |
(ftp)(http) |
TXT |
| GSE123133_TET1Dam_peaks.xlsx |
164.4 Kb |
(ftp)(http) |
XLSX |
| GSE123133_TPM_RNAseq_vitro.txt.gz |
1.6 Mb |
(ftp)(http) |
TXT |
| GSE123133_TPM_RNAseq_vivo.txt.gz |
751.4 Kb |
(ftp)(http) |
TXT |
| GSE123133_Tet1-vs-Dam_average_unlog.gatc.bedgraph.gz |
55.9 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE123133_Tet1DamID_broadpeak_FDR2.bed.gz |
45.4 Kb |
(ftp)(http) |
BED |
| GSE123133_allCG_D3_merge.tsv.gz |
127.4 Mb |
(ftp)(http) |
TSV |
| GSE123133_allCG_D5_merge.tsv.gz |
137.7 Mb |
(ftp)(http) |
TSV |
| GSE123133_allCG_T0merge.tsv.gz |
134.9 Mb |
(ftp)(http) |
TSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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