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GEO accession:
Sample GSM71686
Query DataSets for GSM71686
Status
Public on Aug 25, 2005
Title
501MM
Sample type
RNA
Source name
skin
Organism
Homo sapiens
Characteristics
Nevus
Extracted molecule
total RNA
Extraction protocol
Total RNA was isolated from skin, nevus and melanoma samples according to Standard Trizol protocol or Qiagen RNeasy Mini Kit protocol.
Label
biotin
Label protocol
Approximately 5 µg of total RNA was processed to produce biotinylated cRNA targets.
Hybridization protocol
standard Affymetrix procedures
Scan protocol
standard Affymetrix procedures
Description
Nevus
Data processing
Affymetrix Microarray Suite version 5.0
Submission date
Aug 24, 2005
Last update date
Aug 24, 2005
Contact name
Tim Jatkoe
E-mail(s)
tjatkoe@vrxus.jnj.com
Phone
(858) 320-3315
Organization name
Veridex
Street address
City
San Diego
State/province
CA
ZIP/Postal code
92121
Country
USA
Platform ID
GPL96
Series (1)
GSE3189
Novel genes associated with malignant melanoma but not benign melanocytic lesions
Data table header descriptions
ID_REF
VALUE
MAS5-calculated Signal intensity after global scaling the average intensity to 600.
ABS_CALL
the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE
'detection p-value', p-value that indicates the significance level of the detection call
Data table
ID_REF
VALUE
ABS_CALL
DETECTION P-VALUE
AFFX-BioB-5_at
455.8
P
0.003212
AFFX-BioB-M_at
718.3
P
0.000446
AFFX-BioB-3_at
327.1
P
0.012547
AFFX-BioC-5_at
1123.3
P
0.00011
AFFX-BioC-3_at
702.6
P
0.000195
AFFX-BioDn-5_at
776.1
P
0.000147
AFFX-BioDn-3_at
6562.4
P
0.000169
AFFX-CreX-5_at
9457.8
P
0.000044
AFFX-CreX-3_at
14946.8
P
0.000044
AFFX-DapX-5_at
1.5
A
0.824672
AFFX-DapX-M_at
28.3
A
0.41138
AFFX-DapX-3_at
9.7
A
0.843268
AFFX-LysX-5_at
114.4
P
0.004017
AFFX-LysX-M_at
218.9
P
0.036569
AFFX-LysX-3_at
307.4
P
0.00007
AFFX-PheX-5_at
94.1
A
0.089478
AFFX-PheX-M_at
116.1
M
0.062929
AFFX-PheX-3_at
294.2
P
0.028457
AFFX-ThrX-5_at
163.7
M
0.058444
AFFX-ThrX-M_at
242.8
P
0.013811
Total number of rows:
22283
Table truncated, full table size
596 Kbytes
.
Supplementary data files not provided
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