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Series GSE235154 Query DataSets for GSE235154
Status Public on Jun 15, 2024
Title Analysis of chromosomal structual aberratons in NB-4 cell line
Organism Homo sapiens
Experiment type Other
Summary This Hi-C experiment was a part of a research which analyzed chromosomal structural aberrations in hematological malignancies. First, the author conducted comprehensive detection of fusion transcripts in RNA-seq data of DSMZ’s 99 cell lines, and then picked up cell lines with characteristic complex karyotype. NB-4 cell line is one of them, which shows characteristic fusion cluster in 8q24 region in the fusion detection step. This Hi-C experiment revealed amplifications of MYC, PVT1, and CCDC26 in 8q24 region. Additionally, several structural aberrations were found by scanning the whole genome.
Overall design in situ Hi-C of DSMZ’s NB-4 cell line with no treatment
Contributor(s) Kobayashi T, Watabe K, Motoko N
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Submission date Jun 16, 2023
Last update date Jun 15, 2024
Contact name Tetsuko Kobayashi
Organization name Kyorin University
Street address Shimorenjaku5-4-1
City Mitaka-shi
State/province Tokyo
ZIP/Postal code 181-8612
Country Japan
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (1)
GSM7496018 in situ Hi-C of DSMZ’s NB-4 cell line with no stimulation
BioProject PRJNA984680

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE235154_RAW.tar 4.1 Gb (http)(custom) TAR (of BED, BEDPE, HIC, TBI, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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