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| Status |
Public on Apr 04, 2016 |
| Title |
Three-dimensional disorganisation of the cancer genome occurs coincident with long range genetic and epigenetic alterations [Hi-C] |
| Organism |
Homo sapiens |
| Experiment type |
Other
|
| Summary |
A three-dimensional chromatin state underpins the structural and functional basis of the genome by bringing regulatory elements and genes into close spatial proximity to ensure proper, cell-type specific gene expression profiles. Here, we perform Hi-C chromosome conformation to investigate how the three-dimensional organization of the cancer genome is disrupted in the context of epigenetic remodelling and atypical gene expression programs.
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| Overall design |
Hi-C, ChIP-seq and RNA-seq were conducted in three human prostate cell lines: normal prostate epithelial cells (PrEC) and prostate cancer cells (PC3 and LNCaP).
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| Contributor(s) |
Taberlay P, Achinger-Kawecka J |
| Citation(s) |
27053337 |
| |
| Submission date |
Oct 06, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Joanna Achinger-Kawecka |
| E-mail(s) |
joanna.achinger@adelaide.edu.au
|
| Organization name |
South Australian Immunogenomics Cancer Institute
|
| Street address |
AHMS Building, North Terrace
|
| City |
Adelaide |
| State/province |
SA |
| ZIP/Postal code |
5005 |
| Country |
Australia |
| |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
|
| Samples (13)
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| This SubSeries is part of SuperSeries: |
| GSE73785 |
Three-dimensional disorganisation of the cancer genome occurs coincident with long range genetic and epigenetic alterations |
|
| Relations |
| BioProject |
PRJNA297887 |
| SRA |
SRP064524 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE73782_Hi-C_seq_LNCaP_BglII_pooled_100kb.txt.gz |
100.0 Kb |
(ftp)(http) |
TXT |
| GSE73782_Hi-C_seq_LNCaP_BglII_pooled_1Mb.txt.gz |
342.9 Kb |
(ftp)(http) |
TXT |
| GSE73782_Hi-C_seq_PC3_BglII_pooled_100kb.txt.gz |
143.7 Kb |
(ftp)(http) |
TXT |
| GSE73782_Hi-C_seq_PC3_BglII_pooled_1Mb.txt.gz |
1.3 Mb |
(ftp)(http) |
TXT |
| GSE73782_Hi-C_seq_PrEC_BglII_pooled_100kb.txt.gz |
74.4 Kb |
(ftp)(http) |
TXT |
| GSE73782_Hi-C_seq_PrEC_BglII_pooled_1Mb.txt.gz |
1.5 Mb |
(ftp)(http) |
TXT |
| GSE73782_TADs-LNCaP_40kb_domains_final_sorted.bed.gz |
6.4 Kb |
(ftp)(http) |
BED |
| GSE73782_TADs-PC3_40kb_domains_final_sorted.bed.gz |
3.8 Kb |
(ftp)(http) |
BED |
| GSE73782_TADs-PrEC_40kb_domains_final_sorted.bed.gz |
2.0 Kb |
(ftp)(http) |
BED |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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