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Sample GSM811 Query DataSets for GSM811
Status Public on Feb 12, 2002
Title CGH_Albertson_HT29
Sample type genomic
 
Channel 1
Source name Cell line HT29
Organism Homo sapiens
Extracted molecule genomic DNA
 
Channel 2
Source name normal male reference genomic DNA
Organism Homo sapiens
Extracted molecule genomic DNA
 
 
Description ATCC cell line <a href="http://www.atcc.org/SearchCatalogs/longview.cfm?view=ce,4949223,HTB-38&text=HTB%2D38">HTB-38</a>.
Colorectal adenocarcinoma in a 44 year old female.
Ultrastructural features include microvilli, microfilaments, large vacuolated mitochondria with dark granules, smooth and rough ER with free ribosomes, lipid droplets, few primary and many secondary lysosomes. No virus particles.
HT-29 cells express urokinase receptors, but do not have detectable plasminogen activator activity. There is a G -> A mutation in codon 273 of the p53 gene resulting in an Arg -> His substitution. The p53 antigen is overproduced. The cells are negative for CD4, but there is cell surface expression of galactose ceramide (a possible alternative receptor for HIV). The line is positive for expression of c-myc, K-ras, H-ras, N-ras. Myb, sis and fos oncogenes. N-myc oncogene expression was not detected.
The stemline chromosome number is hypertriploid with the 2S component occurring at 2.4%. Seventeen marker chromosomes are found in most metaphases, generally in single copy per chromosome. The marker designations are: M1p-(=t(3p-;?) with a deleted short arm), t(7q;?), t(10q;?), i(13q), 19q+a; M6, ?t(8q;9q-), ?Xp, M9, 6q+, t(13;?)a, t(13;?)b, 19q+b, M14, M15, 15p+, and Xq-. Chromosome 13 is nullisomic and chromosomes 8 and 14 are generally monosomic. No Y chromosome was detected by QM band analysis.
 
Submission date Jan 17, 2002
Last update date May 27, 2005
Contact name Donna G Albertson
E-mail(s) albertson@cc.ucsf.edu
Phone 415 502-8463
Organization name University of California San Francisco
Department Comprehensive Cancer Center
Street address
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
 
Platform ID GPL28
Series (1)
GSE16 Microarray-based CGH in human cancer cell lines

Data table header descriptions
ID_REF Unique row identifier, genome position order
VALUE aka LOG2RATIO, mean of log base 2 of LINEAR_RATIO
LINEAR_RATIO Mean of replicate Cy3/Cy5 ratios
LOG2STDDEV Standard deviation of VALUE
NO_REPLICATES Number of replicate spot measurements

Data table
ID_REF VALUE LINEAR_RATIO LOG2STDDEV NO_REPLICATES
1 -0.099883 0.933109 0.00242 3
2 0
3 0.004903 1.003404 0.024685 3
4 -0.094614 0.936523 0.008288 3
5 -0.106179 0.929045 0.026862 3
6 -0.044523 0.96961 0.013688 3
7 -0.067207 0.954484 0.003905 3
8 -0.03902 0.973316 0.01545 3
9 0.02934 1.020545 0.013603 3
10 -0.046171 0.968504 0.010091 3
11 -0.115178 0.923268 0.013619 3
12 0.04937 1.034813 0.053334 3
13 -0.089779 0.939666 0.040349 3
14 -0.062461 0.957629 0.006307 3
15 -0.081237 0.945247 0.020758 3
16 0.036252 1.025447 0.011829 3
17 -0.059232 0.959775 0.018794 3
18 -0.005299 0.996334 0.02633 3
19 0.041142 1.028928 0.045128 3
20 -0.083998 0.94344 0.024795 3

Total number of rows: 2463

Table truncated, full table size 76 Kbytes.




Supplementary data files not provided

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