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Series GSE57222 Query DataSets for GSE57222
Status Public on Aug 01, 2014
Title NSD3-NUT Fusion Oncoprotein in NUT Midline Carcinoma identified in 1221 patient-derived cell line by RNA-seq
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Discarded live tumor tissue from a metastatic focus in the patient’s lung was collected under institutional review board approval through the NUT midline carcinoma registry (www.NMCRegistry.org). From this tissue the first known NUT-variant cell line, 1221, was established. To determine the putative partner gene to NUT, we performed comprehensive RNA-sequencing on RNA purified from 1221. We identified an in-frame transcript fusing the 5’ coding sequence of NSD3 (exons 1-7) to exons 2-7 of NUT. Expression of the NSD3-NUT fusion oncoprotein was verified by immunobloting with an antibody to NUT, revealing an approximately 200kDa band that is similar in size to BRD3-NUT, but smaller than BRD4-NUT
 
Overall design Identification of a NUT fusion partner using RNA extracted from live cultured 1221 cell line derived from a lung metastasis from the index case of a 13 year old female with NUT-positive NMC.
 
Contributor(s) Walsh EM, Lemieux ME, French CA
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Submission date Apr 30, 2014
Last update date May 15, 2019
Contact name Christopher A French
E-mail(s) cfrench@partners.org
Organization name Brigham and Women's Hospita
Department Pathology
Lab French Lab
Street address 77 Avenue Louis Pasteur 630G
City Boston
State/province Massachusetts
ZIP/Postal code 02115
Country USA
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (1)
GSM1377430 1221 cell line
Relations
BioProject PRJNA245923
SRA SRP041594

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
GSE57222_RAW.tar 20.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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