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Sample GSM5001938 Query DataSets for GSM5001938
Status Public on Jan 05, 2021
Title 006-ctr030: Peripheral Blood_Healthy control
Sample type RNA
 
Source name Peripheral Blood
Organism Homo sapiens
Characteristics gender: Female
age: 42
disease status: normal
tissue: Peripheral Blood
Treatment protocol Blood sample was treated according to the manusfacturer's instructions (PAXgene Blood RNA Tube)
Growth protocol Elbow vein blood sampling and the blood was stored at -20℃ before RNA extraction.
Extracted molecule total RNA
Extraction protocol Peripheral blood of total RNA was performed according to the manufacturer's instructions (PAXgene Blood RNA kit).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 200 ng total RNA (Technical Manual for GeneChip 3’IVT Expression Kit,2013, Affymetrix).
 
Hybridization protocol Following fragmentation, 15 μg cRNA were hybridized for 16 hr at 45℃ on GeneChip 3’IVT Expression Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip® System 3000Dx (GCS 3000Dx).
Description Gene expression data from healthy person with normal colonscopy
Data processing The data were analyzed with Affymetrix Expression Console (ver.1.3.1) using Affymetrix default analysis settings and MAS5 global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
 
Submission date Jan 04, 2021
Last update date Jan 05, 2021
Contact name changming cheng
E-mail(s) cmcheng2005@gmail.com
Organization name National Engineering Center for Biochip at Shanghai China
Street address No. 151, Libing Road
City Shanghai
ZIP/Postal code 201203
Country China
 
Platform ID GPL570
Series (1)
GSE164191 Blood based expression of colorectal cancer and healthy controls

Data table header descriptions
ID_REF
VALUE MAS5 Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 1184.64 P 0.000224668
AFFX-BioB-M_at 2022.16 P 4.42873e-05
AFFX-BioB-3_at 1294.87 P 4.42873e-05
AFFX-BioC-5_at 3100.47 P 5.16732e-05
AFFX-BioC-3_at 4741.22 P 4.42873e-05
AFFX-BioDn-5_at 6997.48 P 4.42873e-05
AFFX-BioDn-3_at 17108.9 P 7.00668e-05
AFFX-CreX-5_at 44696.2 P 5.16732e-05
AFFX-CreX-3_at 57152.3 P 4.42873e-05
AFFX-DapX-5_at 2761.33 P 4.42873e-05
AFFX-DapX-M_at 7131.22 P 0.000169227
AFFX-DapX-3_at 6039.96 P 4.42873e-05
AFFX-LysX-5_at 284.326 P 0.000126798
AFFX-LysX-M_at 475.896 P 0.0032123
AFFX-LysX-3_at 858.924 P 5.16732e-05
AFFX-PheX-5_at 355.166 P 0.000195116
AFFX-PheX-M_at 668.145 P 0.000340305
AFFX-PheX-3_at 610.171 P 5.16732e-05
AFFX-ThrX-5_at 623.787 P 0.000126798
AFFX-ThrX-M_at 938.115 P 0.000224668

Total number of rows: 54675

Table truncated, full table size 1631 Kbytes.




Supplementary file Size Download File type/resource
GSM5001938_006-ctr030.CEL.gz 4.6 Mb (ftp)(http) CEL
GSM5001938_006-ctr030.mas5.CHP.gz 494.0 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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