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Sample GSM7031940 Query DataSets for GSM7031940
Status Public on Feb 07, 2023
Title Chordoma 3
Sample type RNA
 
Source name Chordoma Tumor
Organism Homo sapiens
Characteristics tissue: Chordoma Tumor
Treatment protocol None
Growth protocol None
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions. Notochord samples were prepared by laser capture microdissection and RNA extracted using Arcturus PicoPure RNA Isolation kit.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
 
Hybridization protocol cRNA was hybridized on GeneChip Human Genome U133 Plus 2.0 Array according to manufacturer directions. GeneChips were washed and stained in the Affymetrix Fluidics Station 450
Scan protocol GeneChips were scanned using GeneChip Scanner 3000
Data processing CEL files were read into R using the bioconductor affy package. Expression values were calculated using the mas5 algorithm in the affy package.
 
Submission date Feb 07, 2023
Last update date Feb 07, 2023
Contact name Stefan Halvorsen
E-mail(s) shalvorsen@ccib.mgh.harvard.edu
Organization name Massachusetts General Hospital
Department Center for Computational and Integrative Biology
Lab Seed Lab
Street address 185 Cambridge Street
City Boston
State/province MA
ZIP/Postal code 02114
Country USA
 
Platform ID GPL570
Series (2)
GSE205458 Expression data from chordoma and notochord
GSE224776 Expression data from chordoma and notochord (microarray)

Data table header descriptions
ID_REF
VALUE mas5 normalized expression values.

Data table
ID_REF VALUE
1007_s_at 1125.88740804243
1053_at 217.653456501169
117_at 507.242427479649
121_at 125.411258293787
1255_g_at 2.99359029785494
1294_at 423.891400869264
1316_at 318.990154649768
1320_at 274.263013771952
1405_i_at 2241.29923010269
1431_at 151.09775977956
1438_at 2.24235221601264
1487_at 142.965039698919
1494_f_at 22.3788118477538
1552256_a_at 48.0142242657602
1552257_a_at 134.115114683959
1552258_at 200.903969613225
1552261_at 85.2131199745269
1552263_at 185.450230256599
1552264_a_at 304.10083252131
1552266_at 45.6822710373581

Total number of rows: 54675

Table truncated, full table size 1286 Kbytes.




Supplementary file Size Download File type/resource
GSM7031940_Ch3_1590A.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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