GEO series

Pathogenicity of genomic duplications is determined by formation of novel chromatin domains (neo-TADs) [Hi-C]

GSE78072 Mus musculus (mouse) Other 6 samples Submitted 2016/10/06 Platform GPL17021

At a glance

mouse · 6 samples

Organism: Mus musculus (mouse)
Samples: 6 samples
Data you can get: A processed table (series matrix) and supplementary files from NCBI.

Summary (written by the submitters)

Genome-scale methods have identified subchromosomal structures so-called topologically associated domains (TADs) that subdivide the genome into discrete regulatory units, establish with their target genes. By re-engineering human duplications at the SOX9 locus in mice combined with 4C-seq and Capture Hi-C experiments, we show that genomic duplications can result in the formation of novel chromatin domains (neo-TADs) and that this process determines their molecular pathology.

This dataset

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Download · which file do I need?

Direct links to NCBI, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE78072_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

Also filed as BioProject PRJNA312607 and SRA study SRP070565. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 27706140) ↗

Samples in this study

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+ 6 more — browse all 6 samples with per-sample file links →

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