NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM7031942 Query DataSets for GSM7031942
Status Public on Feb 07, 2023
Title Chordoma 98
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 2398.42652282272
1053_at 120.414847915925
117_at 140.568864797922
121_at 118.244875424236
1255_g_at 3.62711770827758
1294_at 378.057030790618
1316_at 636.591010582478
1320_at 157.468413458405
1405_i_at 226.015574892417
1431_at 73.4177809342181
1438_at 3.31921668725228
1487_at 131.134620701289
1494_f_at 25.7255015171403
1552256_a_at 71.3993118632256
1552257_a_at 246.813265509375
1552258_at 59.0551697399453
1552261_at 165.515420196841
1552263_at 20.6603559668403
1552264_a_at 163.097933556768
1552266_at 94.0373246244054

Total number of rows: 54675

Table truncated, full table size 1286 Kbytes.




Supplementary file Size Download File type/resource
GSM7031942_Ch_98-1_1590C.CEL.gz 4.6 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap