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Sample GSM1851 Query DataSets for GSM1851
Status Public on Jun 27, 2002
Title BC107A-AF
Sample type RNA
 
Channel 1
Source name CR1 reference
Organism Homo sapiens
Extracted molecule total RNA
 
Channel 2
Source name BC107A-AF
Organism Homo sapiens
Extracted molecule total RNA
 
 
Description Category: Primary tumor
Subcategory: Breast
Scanning Software: ScanAlyze
Software version: 2.44
Lot batch = svcc63
 
Submission date Jun 18, 2002
Last update date Nov 21, 2005
Organization Stanford Microarray Database (SMD)
E-mail(s) [email protected]
Phone 650-498-6012
URL http://genome-www5.stanford.edu/
Department Stanford University, School of Medicine
Street address 300 Pasteur Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platform ID GPL180
Series (3)
GSE61 Molecular portraits of human breast tumors
GSE4336 Breast tumors
GSE4382 Repeated observation of breast tumor subtypes in independent gene expression data sets

Data table header descriptions
ID_REF
CH1B_MEAN mean channel 1 background
CH1B_MEDIAN median channel 1 background
CH1D_MEAN difference between CH1I_MEAN and CH1B_MEAN
CH2I_MEAN mean channel 2 signal
CH2D_MEAN difference of CH2I_MEAN and CH2B_MEAN
CH2B_MEAN mean of channel 2 background
CH2B_MEDIAN median of channel 2 background
CH2BN_MEDIAN normalized CH2B_MEDIAN
CH2DN_MEAN normalized CH2D_MEAN
CH2IN_MEAN normalized CH2I_MEAN
CORR simple correlation coefficient of channel 1 and channel 2 pixels
FLAG user defined flag (default=0)
VALUE same as UNF_VALUE but with flagged values removed
PIX_RAT2_MEDIAN
PERGTBCH1I_1SD standard deviation of fraction of pixels greater than CH1B_MEAN
PERGTBCH2I_1SD standard deviation of fraction of pixels greater than CH2B_MEAN
RAT1_MEAN ratio of CH1D_MEAN to CH2D_MEAN
RAT1N_MEAN ratio of CH1DN_MEAN to CH2DN_MEAN
RAT2_MEAN ratio of CH2D_MEAN to CH1D_MEAN
RAT2N_MEAN ratio of CH2DN_MEAN and CH1DN_MEAN
REGR slope of the simple regression line of channel 2 to channel 1 pixels
TOT_BPIX total number of background pixels
TOT_SPIX total number of signal (spot) pixels
TOP vertical, short-axis spot ellipse minimum pixel coordinate
BOT vertical, short-axis spot ellipse maximum pixel coordinate
LEFT horizontal, long-axis spot ellipse minimum pixel coordinate
RIGHT horizontal, long-axis spot ellipse maximum pixel coordinate
UNF_VALUE aka LOG_RAT2N_MEAN, or log10 of ratio of CH2DN_MEAN and CH1DN_MEAN

Data table
ID_REF CH1B_MEAN CH1B_MEDIAN CH1D_MEAN CH2I_MEAN CH2D_MEAN CH2B_MEAN CH2B_MEDIAN CH2BN_MEDIAN CH2DN_MEAN CH2IN_MEAN CORR FLAG VALUE PIX_RAT2_MEDIAN PERGTBCH1I_1SD PERGTBCH2I_1SD RAT1_MEAN RAT1N_MEAN RAT2_MEAN RAT2N_MEAN REGR TOT_BPIX TOT_SPIX TOP BOT LEFT RIGHT UNF_VALUE
1 1489 1326 896 4329 221 4137 4108 7078 381 7458 .253 -100 .823 51 5 4.054 2.353 .247 .425 .167 1243 52 74 82 83 91 -1.235
2 1522 1365 933 3798 4083 4063 7000 -457 6543 .078 -100 1.049 51 3 .072 1081 52 74 82 92 100
3 1604 1409 325 3014 4060 4014 6916 -1723 5193 .16 -100 .486 23 0 .127 943 52 74 82 101 109
4 1628 1411 506 2651 4016 3963 6828 -2260 4567 .165 -100 .396 38 1 .16 945 52 74 82 110 118
5 1540 1417 3316 3064 3908 3871 6669 -1390 5279 0 .83 80 1 941 52 74 82 119 127
6 1532 1406 1464 3443 3868 3856 6643 -712 5932 .124 -100 .616 65 3 .078 943 52 74 82 128 136
7 1471 1356 2934 3787 3826 6592 -1537 5055 .318 -100 .059 13 1 0 .376 963 52 73 81 137 145
8 1363 1285 4643 3599 3642 3715 6400 -200 6201 .019 0 .119 88 3 .004 959 52 73 81 146 154
9 1383 1264 2500 3636 3707 6387 -2080 4307 .41 -100 1.5 7 0 0 .514 943 52 73 81 155 163
10 1356 1238 2138 4142 437 3642 3705 6383 753 7136 .544 0 -1.506 .246 57 3 4.892 2.84 .204 .352 .228 939 52 73 81 164 172 -1.506
11 1354 1245 1517 3736 17 3680 3719 6407 29 6437 .354 0 -5.695 .161 63 3 89.235 51.795 .011 .019 .195 925 52 73 81 172 180 -5.695
12 1364 1242 651 3616 3698 3721 6411 -181 6230 .058 -100 .613 46 1 .049 921 52 73 81 181 189
13 1340 1232 15 2982 3692 3745 6452 -1315 5138 .249 -100 .655 11 0 .278 951 52 72 80 189 197
14 1348 1254 153 3020 3657 3730 6426 -1223 5203 .218 -100 .855 21 0 .242 941 52 72 80 198 206
15 1362 1259 7532 4421 769 3559 3652 6292 1325 7617 .812 0 -2.507 .14 65 23 9.795 5.685 .102 .176 .145 943 52 72 80 207 215 -2.507
16 1333 1229 2021 3061 3475 3552 6120 -846 5274 -100 .179 73 1 939 52 72 80 216 224
17 1307 1194 359 2710 3369 3392 5844 -1175 4669 .118 -100 .803 32 3 .114 941 52 72 80 225 233
18 1206 1133 2946 3181 3173 5467 -391 5076 .35 -100 .458 13 1 0 .415 943 52 72 80 234 242
19 1170 1078 2792 3925 869 3050 3056 5265 1497 6762 .657 0 -.899 .351 92 30 3.213 1.865 .311 .536 .318 963 52 71 79 243 251 -.899
20 1140 1041 378 2575 2906 2913 5019 -582 4436 .18 -100 .531 34 1 .145 959 52 71 79 252 260

Total number of rows: 9216

Table truncated, full table size 1133 Kbytes.




Supplementary data files not provided
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