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Sample GSM6150153 Query DataSets for GSM6150153
Status Public on Aug 31, 2024
Title peripheral blood, colon polyps-r1 (RC1608)
Sample type RNA
 
Source name peripheral blood
Organism Homo sapiens
Characteristics tissue: peripheral blood
gender: F
age: NaN
cancer dx: colon polyps
Treatment protocol Blood plasma was removed after centrifugation and a hypotonic buffer was added at a 3:1 volume ratio to lyse the red blood cells. The mixture was centrifuged to yield a pellet for subsequent total RNA isolation.
Growth protocol NA
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA from the pelleted cells was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (GeneChip Expression Analysis Technical Manual, 701021 Rev. 4, Affymetrix).
 
Hybridization protocol Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on Human U133 Plus 2.0 GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description Human peripheral blood collected in EDTA blood collection tubes, total RNA isolated from remaining cells collected after red blood cell lysis.
Gene expression data from peripheral blood cells collected after red blood cell lysis.
Data processing The data were analyzed with GeneChip Operating Software (GCOS) v1.1.1 using Affymetrix default analysis settings and global scaling (MAS 5.0) as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
 
Submission date May 14, 2022
Last update date Aug 31, 2024
Contact name Adam Dempsey
E-mail(s) [email protected]
Phone 804-655-6595
Organization name StageZero Life Sciences
Street address ​8751 Park Central Drive, Suite 200
City Richmond
State/province VA
ZIP/Postal code 23227
Country USA
 
Platform ID GPL570
Series (1)
GSE203024 Gene Expression Data from Human Peripheral Blood

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 339.786 P 0.00141043
AFFX-BioB-M_at 404.292 P 0.000296708
AFFX-BioB-3_at 264.65 P 0.00141043
AFFX-BioC-5_at 963.959 P 0.000169227
AFFX-BioC-3_at 869.454 P 4.42873e-05
AFFX-BioDn-5_at 2389.98 P 5.16732e-05
AFFX-BioDn-3_at 5753.24 P 0.000389797
AFFX-CreX-5_at 14409.7 P 5.16732e-05
AFFX-CreX-3_at 16083 P 4.42873e-05
AFFX-DapX-5_at 78.384 P 0.036569
AFFX-DapX-M_at 90.3143 A 0.0894781
AFFX-DapX-3_at 11.2806 A 0.9273
AFFX-LysX-5_at 37.6741 A 0.617401
AFFX-LysX-M_at 7.97455 A 0.910522
AFFX-LysX-3_at 50.3214 A 0.116113
AFFX-PheX-5_at 4.65968 A 0.993813
AFFX-PheX-M_at 9.4845 A 0.737191
AFFX-PheX-3_at 25.1833 A 0.760937
AFFX-ThrX-5_at 18.9989 A 0.749204
AFFX-ThrX-M_at 6.54756 A 0.631562

Total number of rows: 54675

Table truncated, full table size 1625 Kbytes.




Supplementary file Size Download File type/resource
GSM6150153_RC1608_20070418_U133Plus2.CEL.gz 5.1 Mb (ftp)(http) CEL
GSM6150153_RC1608_20070418_U133Plus2.mas5.CHP.gz 489.7 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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