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Sample GSM5085948 Query DataSets for GSM5085948
Status Public on Aug 24, 2021
Title SJRHB015721_X1_shDBX1_A_Rep 1
Sample type RNA
 
Source name SJRHB015721_X1 FN-RMS cells
Organism Homo sapiens
Characteristics cell line: SJRHB015721_X1
treatment: shDBX1-A
Treatment protocol Cells were transduced with pLKO.3G.Scr or pLKO.3G.shDBX1-A (or B) overnight. The virus was removed the next morning. RNA was harvested 72 hours post-transduction.
Growth protocol SJRHB015721_X1 cells are maintained in complete neurobasal medium as described in (Drummond et al., (2018) Cancer Cell).
Extracted molecule total RNA
Extraction protocol RNA harvested with Qiagen't miRNeasy RNA protocol.
Label biotin
Label protocol Samples were labeled with the WT Plus Assay Kit (#902280, ThermoScientific) according to manufacturer's protocol.
 
Hybridization protocol Samples were hybridized with the WT Plus Assay Kit (#902280, ThermoScientific) according to manufacturer's protocol.
Scan protocol Samples were scanned on a Gene Chip Scanner 3000 7G.
Description MEH190
SJRHB015721_X1_shDBX1_A_R1
Data processing The scanned images are then analyzed with Expression Console software (Affymetrix) to obtain raw data and metrics for Quality Controls. The distribution of raw data show no outlier experiment. Affymetrix probe-set data were normalized using the robust multi-array average (RMA) method.
 
Submission date Feb 16, 2021
Last update date Aug 24, 2021
Contact name Hongjian Jin
E-mail(s) hongjian.jin@STJUDE.ORG
Organization name St Jude Children's Research Hospital
Department Center for Applied Bioinformatics
Street address 262 Danny Thomas Place
City Memphis
State/province TN
ZIP/Postal code 38015
Country USA
 
Platform ID GPL23159
Series (2)
GSE166810 Transcriptomic changes in SJRHB015721_X1 human FN-RMS following DBX1 knock-down
GSE166906 Synthetic essentiality between PTEN and core dependency factor PAX7 dictates rhabdomyosarcoma identity

Data table header descriptions
ID_REF
VALUE RMA

Data table
ID_REF VALUE
23064070 9.492077506
23064071 8.378237751
23064072 5.344452607
23064073 9.162626236
23064074 5.345372885
23064075 9.276659584
23064076 7.031332678
23064077 9.49366726
23064078 8.647747157
23064079 6.13635024
23064080 4.52713496
23064081 4.584877647
23064083 7.379569334
23064084 3.815384454
23064085 5.206592201
23064086 3.950063754
23064087 6.008003674
23064088 6.326955859
23064089 3.301924888
23064090 7.702441718

Total number of rows: 27189

Table truncated, full table size 792 Kbytes.




Supplementary file Size Download File type/resource
GSM5085948_MEH190_1921012_ClariomShuman.CEL.gz 1.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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