EXPERIMENT_TITLE: GSM5543366: HK1 DMSO treated (control); Homo sapiens; Hi-C
EXPERIMENT_DESIGN_LIBRARY_DESCRIPTOR_LIBRARY_CONSTRUCTION_PROTOC: The clinical samples were collected by needle biopsy in a 1.5µL microtube from different sites; liver, pelvic and posterier nasal space using a needle size of 16/18G Biopsy samples were falsh frozen in liquid nitogen follwod by pulverization using pre-cooled mortar and pestle. Biop-C library was generated using the Arima-HiC kit.
STUDY_DESCRIPTOR_STUDY_ABSTRACT: Our results demonstrate the utility of our Biop-C method in investigating the 3D genome organization in solid cancers, and the importance of 3D genome organization in regulating oncogenes in nasopharyngeal cancer. Overall design: We have analysed 3 nasopharyngeal cancer biopsy samples using our novel Biop-C method as well as 2 replicates of NPC cell line HK1 using arima Hi-C kit protocol. To test the reproducibility of the method, we performed Biop-C on 2 replicates of a biopsy samples. For comparision with healthy tissue, we performed hic on near normal epithelial cell line NP-69. >>>Raw data not provided for human biopsy samples due to patient privacy concerns<<<
SAMPLE_TITLE: HK1 DMSO treated (control)
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "source_name", "VALUE": "HK1 cell line"}, {"TAG": "cell type", "VALUE": "nasopharyngeal cancer"}, {"TAG": "gender", "VALUE": "male"}]
Pool_Member_@attributes_sample_title: HK1 DMSO treated (control)
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