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Sample GSM803631 Query DataSets for GSM803631
Status Public on Sep 29, 2011
Title CNS:SNB_75 [113400hp133a11]
Sample type RNA
 
Source name Astrocytoma
Organism Homo sapiens
Characteristics tissue of origin: CNS
cell line: SNB_75
Sex: F
prior treatment: None
epithelial: no
ploidy: 2n+, Hyperdiploid (47-57)
p53 mutation: MT
doubling time: 62.8
contributing institute: NINCDS
contributing person: P.L. Kornblith
Treatment protocol No treatment
Growth protocol Cells grown in RPMI 1640 with 5% FBS (Bio Whittaker, not heat inactivated) and 1% L-glutamine. Cells not grown past 80% confluencey for attached cells, or 0,5 x 10-6 cells for suspended. Trypsinize (for attached cells) cells with 5 ml trypsin-EDTA per T162, for 15 min., at 370C. Spin down suspended cells, and resuspend in ~3ml growth media. Count cells. Pass 1x10-6 cells into new T162’s w 30 ml media. Repeat growth cycle until desired amount of cells are available. Cells are not grown past passage 20.
Extracted molecule total RNA
Extraction protocol Growth schedule prior to harvest: Grow cells to ~80 confluencey. Re-feed cells the day prior to harvest. Draw off media from attached cells, or spin down suspended cells. Rinse cells with ~10 ml 1x PBS. Purify using Quiagen Midi Kit (Cat # 75144) per instructions. In brief, lyse cells in 15 ml lysis buffer (w 10 ul fresh BME per ml) per 4 T162s. Scrape (attached) cells. Pipet into a 50 ml tube. Repeat with the next set of 4 flasks. When done, vortex 10 sec.. Draw lysate thru a 20 guage needle 12x’s. Freeze lysate at -80 deg C. Use a maximum of 100 x 10-6 cells per column.
Label biotin
Label protocol Done by Genelogic according to manufacturer's recommendations
 
Hybridization protocol Done by Genelogic according to manufacturer's recommendations
Scan protocol Affymetrix MicroArraySuite
Description Astrocytoma
Data processing Probes were normalized using RMA in Partek Genomics Suite version 6.2
 
Submission date Sep 29, 2011
Last update date Sep 29, 2011
Contact name Sudhir Varma
E-mail(s) sudhirv4rma@gmail.com
Organization name HiThru Analytics
Street address 1215 Wessex Pl
City Princeton
State/province NJ
ZIP/Postal code 08540
Country USA
 
Platform ID GPL570
Series (1)
GSE32474 Comparison between cell lines from 9 different cancer tissue (NCI-60) (Affymetrix U133 Plus 2.0)

Data table header descriptions
ID_REF
VALUE Probeset expression is in log2 units

Data table
ID_REF VALUE
1007_s_at 9.63593483
1053_at 8.360326767
117_at 4.981295109
121_at 7.262982845
1255_g_at 2.730542898
1294_at 6.695580006
1316_at 5.04628706
1320_at 5.351358891
1405_i_at 4.349580765
1431_at 3.148682117
1438_at 6.09416914
1487_at 6.77669096
1494_f_at 5.272391796
1552256_a_at 7.944314957
1552257_a_at 7.823193073
1552258_at 4.327486992
1552261_at 4.227292061
1552263_at 5.228397846
1552264_a_at 7.866563797
1552266_at 2.89932394

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM803631_113400hp133a11.cel.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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