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Sample GSM5320049 Query DataSets for GSM5320049
Status Public on May 18, 2021
Title Ba/F3, SPAG9-JAK2(+), rep2
Sample type RNA
Source name SPAG9-JAK2-expressing Ba/F3 cells induced by doxycycline (Ba/F3-SPAG9-JAK2)
Organism Mus musculus
Characteristics cell line: Ba/F3
cell type: interleukin-3-dependent murine pro-B cell line
Treatment protocol Ba/F3 cells expressing SPAG9-JAK2 under doxycycline dependent manner were established, and SPAG9-JAK2 protein expression was induced using 500 ng/ml doxycycline.
Growth protocol Ba/F3 cells transduced with SPAG9-JAK2 fusion protein by the Retro-X Tet-on Advanced Inducible System (Takara Bio) were washed twice with phosphate-buffered saline and seeded in triplicate with or without 500 ng/ml doxycycline.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted 48 hours later from Ba/F3 cells with or without expression of SPAG9-JAK2 using an RNeasy Mini Kit (Qiagen, Hilden, Germany), and the quality was checked on a NanoDrop 2000 (Thermo Fisher Scientific) and a 2100 Bioanalyzer (Agilent, Santa Clara, CA, USA).
Label biotin
Label protocol cRNA target synthesis was carried out using a GeneChip 3’IVT PLUS Reagent Kit (Thermo Fisher Scientific).
Hybridization protocol Biotin-labeled cRNA was hybridized to a GeneChip Mouse Genome 430 2.0 Array (Thermo Fisher Scientific) following the standard protocols.
Scan protocol Hybridized arrays were stained and scanned with a Genechip 3000 7G Scanner (Thermo Fisher Scientific) at the default settings.
Description Gene expression data from SPAG9-JAK2-expressing Ba/F3 cells induced by doxycycline (Ba/F3-SPAG9-JAK2)
Data processing Data were analyzed using Affymetrix Expression Console Software 1.4.1.
Submission date May 17, 2021
Last update date May 18, 2021
Contact name Azusa Mayumi
Organization name Kyoto Prefectural University of Medicine
Department Pediatrics
Street address 465, Kajii-cho, Kawaramachi-Hirokoji, Kamigyo-ku
City Kyoto
ZIP/Postal code 602-8566
Country Japan
Platform ID GPL1261
Series (1)
GSE174578 SPAG9-JAK2 gene expression array in Ba/F3 cells

Data table header descriptions
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)

Data table
AFFX-BioB-5_at 884.377 P 0.00012664
AFFX-BioB-M_at 1115.14 P 4.42873e-05
AFFX-BioB-3_at 732.694 P 4.42873e-05
AFFX-BioC-5_at 2576.69 P 4.42873e-05
AFFX-BioC-3_at 2929.29 P 4.42873e-05
AFFX-BioDn-5_at 5206.92 P 4.42873e-05
AFFX-BioDn-3_at 9100.33 P 7.00668e-05
AFFX-CreX-5_at 23226.5 P 5.16732e-05
AFFX-CreX-3_at 24872.6 P 4.42873e-05
AFFX-DapX-5_at 776.149 P 4.42873e-05
AFFX-DapX-M_at 1883.78 P 0.000126798
AFFX-DapX-3_at 2278.64 P 4.42873e-05
AFFX-LysX-5_at 109.43 P 4.42873e-05
AFFX-LysX-M_at 186.07 P 0.00499819
AFFX-LysX-3_at 306.495 P 8.14279e-05
AFFX-PheX-5_at 117.832 P 0.000339937
AFFX-PheX-M_at 224.141 P 7.00668e-05
AFFX-PheX-3_at 236.736 P 7.00668e-05
AFFX-ThrX-5_at 121.028 P 0.00179591
AFFX-ThrX-M_at 262.273 P 0.000258358

Total number of rows: 45101

Table truncated, full table size 1374 Kbytes.

Supplementary file Size Download File type/resource
GSM5320049_BaF3_SPAG9_JAK2_EA1935_01.CEL.gz 3.5 Mb (ftp)(http) CEL
GSM5320049_BaF3_SPAG9_JAK2_EA1935_01_scale.CHP.gz 398.1 Kb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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