GEO help: Mouse over screen elements for information.
Status
Public on Jul 09, 2008
Title
No respiratory symptoms (Viro3P10-008)
Sample type
RNA
Source name
RdABC amplified RNA from Nasal Lavage
Organism
Viruses Characteristics
No respiratory symptoms
Extracted molecule
total RNA
Extraction protocol
RNeasy followed by DNAse treatment
Label
Cy3
Label protocol
Rd C Cy3 incorporation
Hybridization protocol
standard overnight hybridization
Scan protocol
Axon 4000 scanner
Description
RdABC amplified RNA from Nasal Lavage
Data processing
Median feature intensity minus median background intensity. The data analysis software used is E-Predict, which normalizes the data using a variety of measures: sum, quadratic, unit-vector, or no normalization (please see Urisman A, Fischer KF, Chiu CY, Kistler AL, Beck S, Wang D, DeRisi JL.E-Predict: a computational strategy for species identification based on observed DNA microarray hybridization patterns.Genome Biol. 2005;6(9):R78. Epub 2005 Aug 30). E-Predict is public access. For the purposes of this paper, sum-normalized intensities were used in the analysis.
Submission date
Jan 28, 2008
Last update date
Jul 09, 2008
Contact name
Joe DeRisi
E-mail(s)
joe@derisilab.ucsf.edu Phone
415-476-4132
URL
http://derisilab.ucsf.edu Organization name
University of California, San Francisco
Department
Biochemistry and Biophysics
Lab
Joseph DeRisi Laboratory
Street address
City
San Francisco
State/province
CA
ZIP/Postal code
94107
Country
USA
Platform ID
GPL3429 Series (1)
Data table header descriptions ID_REF VALUE same as UNF_VALUE but with flagged values removed
CH1_MEDIAN Channel 1 intensity median
CH1_MEAN Channel 1 intensity mean
CH1_SD Channel 1 intensity standard deviation
CH1_BGD_MEDIAN Channel 1 background intensity median
CH1_BGD_MEAN Channel 1 background intensity mean
CH1_BGD_SD Channel 1 background intensity standard deviation
CH1_NET_MEDIAN Channel 1 net intensity median
CH1_NET_MEAN Channel 1 net intensity median
FLAG GenePix spot flag
UNF_VALUE Channel 1 net intensity median (same as CH1_NET_MEDIAN)
Data table ID_REF VALUE CH1_MEDIAN CH1_MEAN CH1_SD CH1_BGD_MEDIAN CH1_BGD_MEAN CH1_BGD_SD CH1_NET_MEDIAN CH1_NET_MEAN FLAG UNF_VALUE 1
39
86
89
27
47
49
14
39
42
39
2
49
102
104
26
53
54
16
49
51
49
3
80
129
130
34
49
51
14
80
81
80
4
37
83
86
22
46
47
13
37
40
37
5
50
104
104
32
54
56
16
50
50
50
6
42
94
120
111
52
56
19
42
68
42
7
36
87
96
24
51
52
15
36
45
36
8
53
98
105
32
45
47
14
53
60
53
9
47
100
97
23
53
55
15
47
44
47
10
42
88
92
28
46
48
13
42
46
42
11
187
234
227
63
47
49
15
187
180
187
12
601
648
626
197
47
49
13
601
579
601
13
53
106
137
160
53
53
14
53
84
53
14
62
111
116
39
49
50
14
62
67
62
15
27
74
82
30
47
48
13
27
35
27
16
53
100
102
48
47
48
13
53
55
53
17
48
100
101
30
52
54
15
48
49
48
18
78
131
135
38
53
54
14
78
82
78
19
58
115
114
29
57
59
18
58
57
58
20
43
94
93
22
51
53
14
43
42
43
21888 824 Kbytes .Supplementary file Size Download File type/resource GSM259926.gpr.gz
1.6 Mb
(ftp) (http) GPR
Processed data not provided for this record
