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Series GSE120666 Query DataSets for GSE120666
Status Public on Oct 18, 2018
Title Characterisation by Next generation Capture-C of Pax6 locus in three mouse cell lines (MV+, RAG and β-TC3 cells).
Organism Mus musculus
Experiment type Other
Summary NG-Capture-C profiling of chromatin interactions (using DpnII 3C and Oligo nucleotide sequence capture followed by Next generation sequencing) of enhancers, promoters and CTCF/Rad21 binding sites throughout a ~600kb region of the mouse Pax6 locus in three expression states, High (β-TC3), On (MV+) and OFF (RAG). β-TC3 cell are a mouse pancreatic β cell derived from mouse insulinoma, MV+ a lens epithelium cell line and RAG a mouse kidney adenocarcinoma cell line.
Overall design Three cell lines where analysed and two biological replicates generated for each, with two separte panels of capture oligos.
Contributor(s) Buckle A, Brackley C, Boyle S, Marenduzzo D, Gilbert N
Citation(s) 30344096, 37537334
Submission date Sep 30, 2018
Last update date Sep 20, 2023
Contact name nick gilbert
Phone 00 44 131 651 8551
Organization name University of Edinburgh
Department MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine
Street address Crewe Rd
City Edinburgh
ZIP/Postal code EH4 2XU
Country United Kingdom
Platforms (2)
GPL16417 Illumina MiSeq (Mus musculus)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (20)
GSM3408009 BTC3_CTCF_1
GSM3408010 BTC3_CTCF_2
GSM3408011 BTC3_PROM_1
BioProject PRJNA494025
SRA SRP162962

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Supplementary file Size Download File type/resource
GSE120666_RAW.tar 17.7 Mb (http)(custom) TAR (of BEDGRAPH)
GSE120666_README.txt 1.6 Kb (ftp)(http) TXT
GSE120666_normalizations_BTC3.dat.txt.gz 362 b (ftp)(http) TXT
GSE120666_normalizations_MV.dat.txt.gz 343 b (ftp)(http) TXT
GSE120666_normalizations_RAG.dat.txt.gz 319 b (ftp)(http) TXT
GSE120666_targets_POOL1.bed.gz 158 b (ftp)(http) BED
GSE120666_targets_POOL2.bed.gz 162 b (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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