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Sample GSM11937 Query DataSets for GSM11937
Status Public on May 10, 2004
Title RE3_LT2_H2O2_40 min_3D287_3
Sample type RNA
 
Channel 1
Source name LT2 40 min post treatment
Organism Salmonella enterica subsp. enterica serovar Typhimurium
Extracted molecule total RNA
 
Channel 2
Source name LT2 pretreatment
Organism Salmonella enterica subsp. enterica serovar Typhimurium
Extracted molecule total RNA
 
 
Description Salmonella typhimurium LT2 Expression after exposure to 2mM H2O2 for 40min
User - PCheng
Date_of_Scan = Mon Aug 18 10:25:44 2003
Sample_target_source3: LT2 cy5 labeled genomic DNA
 
Submission date Oct 21, 2003
Last update date May 28, 2005
Contact name Michael McClelland
E-mail(s) mcclelland.michael@gmail.com
Phone 858-336-9554
Organization name University of California, Irvine
Department Microbiology & Molecular Genetics
Street address 132 Med Surge I
City Irvine
State/province CA
ZIP/Postal code 92697
Country USA
 
Platform ID GPL331
Series (1)
GSE806 LT2_hydrogen_peroxide_2mM_RNA

Data table header descriptions
ID_REF Spot Number
X_LOCATION X-coordinate of spot
Y_LOCATION Y-coordinate of spot
CH1_MEAN Channel 1 mean
CH1_BKD_MEAN Channel 1 mean background
CH1_SD Channel 1 standard deviation
CH1_BKD_SD Channel 1 background standard deviation
CH1_DIAMETER Channel 1 diameter
CH1_AREA Channel 1 area
CH1_FOOTPRINT Channel 1 footprint
CH1_CIRCULARITY Channel 1 circularity
CH1_SPOT_UNIFORMITY Channel 1 spot uniformity
CH1_BKD_UNIFORMITY Channel 1 background uniformity
CH1_SIGNAL_NOISE_RATIO Channel 1 signal to noise ratio
CH1_CONFIDENCE Channel 1 confidence
CH2_MEAN Channel 2 mean
CH2_BKD_MEAN Channel 2 mean background
CH2_SD Channel 2 standard deviation
CH2_BKD_SD Channel 2 background standard deviation
CH2_DIAMETER Channel 2 diameter
CH2_AREA Channel 2 area
CH2_FOOTPRINT Channel 2 footprint
CH2_CIRCULARITY Channel 2 circularity
CH2_SPOT_UNIFORMITY Channel 2 spot uniformity
CH2_BKD_UNIFORMITY Channel 2 background uniformity
CH2_SIGNAL_NOISE_RATIO Channel 2 signal to noise ratio
CH2_CONFIDENCE Channel 2 confidence
CH3_MEAN Channel 3 mean
CH3_BKD_MEAN Channel 3 mean background
CH3_SD Channel 3 standard deviation
CH3_BKD_SD Channel 3 background standard deviation
CH3_DIAMETER Channel 3 diameter
CH3_AREA Channel 3 area
CH3_FOOTPRINT Channel 3 footprint
CH3_CIRCULARITY Channel 3 circularity
CH3_SPOT_UNIFORMITY Channel 3 spot uniformity
CH3_BKD_UNIFORMITY Channel 3 background uniformity
CH3_SIGNAL_NOISE_RATIO Channel 3 signal to noise ratio
CH3_CONFIDENCE Channel 3 confidence
CH1_DIAMETER_FILTER Channel 1 diameter filter
CH1_AREA_FILTER Channel 1 area filter
CH1_CIRCULARITY_FILTER Channel 1 circularity filter
CH1_SPOT_UNIFORMITY_FILTER Channel 1 spot uniformity filter
CH1_BKD_UNIFORMITY_FILTER Channel 1 background uniformity filter
CH1_SIGNAL_NOISE_RATIO_FILTER Channel 1 signal to noise ratio filter
CH2_DIAMETER_FILTER Channel 2 diameter filter
CH2_AREA_FILTER Channel 2 area filter
CH2_CIRCULARITY_FILTER Channel 2 circularity filter
CH2_SPOT_UNIFORMITY_FILTER Channel 2 spot uniformity filter
CH2_BKD_UNIFORMITY_FILTER Channel 2 background uniformity filter
CH2_SIGNAL_NOISE_RATIO_FILTER Channel 2 signal to noise ratio filter
CH3_DIAMETER_FILTER Channel 3 diameter filter
CH3_AREA_FILTER Channel 3 area filter
CH3_CIRCULARITY_FILTER Channel 3 circularity filter
CH3_SPOT_UNIFORMITY_FILTER Channel 3 spot uniformity filter
CH3_BKD_UNIFORMITY_FILTER Channel 3 background uniformity filter
CH3_SIGNAL_NOISE_RATIO_FILTER Channel 3 signal to noise ratio filter
IGNORE_FILTER Ignore filter
CH1_BKD_CORR Channel 1 background correlation
CH2_BKD_CORR Channel 2 background correlation
CH3_BKD_CORR Channel 3 background correlation
CH1%_OF_TOTAL Channel 1 % of total
CH2%_OF_TOTAL Channel 2 % of total
CH3%_OF_TOTAL Channel 3 % of total
PRE-VALUE ch1 % of total / ch2 % of total
PRE-VALUE2 ch1 % of total / ch3 % of total
PRE-VALUE3 ch2 % of total / ch3 % of total
VALUE log of ch1 % of total / ch2 % of total
VALUE2 log of ch1 % of total / ch3 % of total
VALUE3 log of ch2 % of total / ch3 % of total

Data table
ID_REF X_LOCATION Y_LOCATION CH1_MEAN CH1_BKD_MEAN CH1_SD CH1_BKD_SD CH1_DIAMETER CH1_AREA CH1_FOOTPRINT CH1_CIRCULARITY CH1_SPOT_UNIFORMITY CH1_BKD_UNIFORMITY CH1_SIGNAL_NOISE_RATIO CH1_CONFIDENCE CH2_MEAN CH2_BKD_MEAN CH2_SD CH2_BKD_SD CH2_DIAMETER CH2_AREA CH2_FOOTPRINT CH2_CIRCULARITY CH2_SPOT_UNIFORMITY CH2_BKD_UNIFORMITY CH2_SIGNAL_NOISE_RATIO CH2_CONFIDENCE CH3_MEAN CH3_BKD_MEAN CH3_SD CH3_BKD_SD CH3_DIAMETER CH3_AREA CH3_FOOTPRINT CH3_CIRCULARITY CH3_SPOT_UNIFORMITY CH3_BKD_UNIFORMITY CH3_SIGNAL_NOISE_RATIO CH3_CONFIDENCE CH1_DIAMETER_FILTER CH1_AREA_FILTER CH1_CIRCULARITY_FILTER CH1_SPOT_UNIFORMITY_FILTER CH1_BKD_UNIFORMITY_FILTER CH1_SIGNAL_NOISE_RATIO_FILTER CH2_DIAMETER_FILTER CH2_AREA_FILTER CH2_CIRCULARITY_FILTER CH2_SPOT_UNIFORMITY_FILTER CH2_BKD_UNIFORMITY_FILTER CH2_SIGNAL_NOISE_RATIO_FILTER CH3_DIAMETER_FILTER CH3_AREA_FILTER CH3_CIRCULARITY_FILTER CH3_SPOT_UNIFORMITY_FILTER CH3_BKD_UNIFORMITY_FILTER CH3_SIGNAL_NOISE_RATIO_FILTER IGNORE_FILTER CH1_BKD_CORR CH2_BKD_CORR CH3_BKD_CORR CH1%_OF_TOTAL CH2%_OF_TOTAL CH3%_OF_TOTAL PRE-VALUE PRE-VALUE2 PRE-VALUE3 VALUE VALUE2 VALUE3
1 2130 40540 32552.78516 74.397057 30292.02148 139.46199 189.822784 29300 37.808834 0.970869 0.500053 0.996124 233.416898 0.57149 712.365051 223.029419 269.156342 225.494156 179.302277 12600 37.808834 0.934745 0.990211 0.993958 3.159129 0.806169 13711.65137 39.661766 13265.73633 121.956512 185.067963 23500 37.808834 0.953276 0.639046 0.996407 112.430661 0.730338 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 32478.3881 489.335632 13671.9896 0.748158083 0.011889813 0.05824656 62.92429196 12.84467412 0.204129021 1.798818337 1.10872309 -0.690095247
2 2390 40540 680.662842 81.147057 583.38092 224.309433 184.551254 17500 43.124897 0.94291 0.983589 0.994553 3.034482 0.80137 515.015747 193.191177 187.756638 200.342865 185.925949 12700 43.124897 0.945863 0.994598 0.995193 2.570672 0.685512 4975.06543 36.89706 3563.628906 109.923195 179.479706 18300 43.124897 0.944178 0.923218 0.997032 45.259469 0.855491 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 599.515785 321.82457 4938.16837 0.013810186 0.007819651 0.021038 1.766087172 0.656440052 0.371691762 0.247012136 -0.182804928 -0.429817065
3 2630 40550 267.272736 90.602943 240.035004 176.592804 186.609512 7700 29.142046 0.96851 0.992004 0.994797 1.513497 0.403599 667.43103 273.823517 221.93132 264.867737 172.608841 5800 29.142046 0.903709 0.993477 0.993172 2.519865 0.671964 7125.727051 35.117645 5566.458008 102.696411 168.50296 17600 29.142046 0.902742 0.874672 0.996681 69.38633 0.875449 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 176.669793 393.607513 7090.609406 0.004069689 0.009563824 0.030208011 0.42552946 0.134722173 0.316598934 -0.371070368 -0.87056092 -0.499490552
4 2890 40550 262.277771 47.161766 213.834229 123.783348 180.187729 9000 35.77021 0.942455 0.992668 0.995979 2.118845 0.565025 361.728394 155.529419 205.370743 208.743393 189.487106 16200 35.77021 0.962011 0.993912 0.993927 1.732885 0.462103 3875.445801 25.705883 2484.518555 76.590019 166.220642 17500 35.77021 0.916345 0.936584 0.998062 50.59988 0.879599 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 215.116005 206.198975 3849.739918 0.004955319 0.005010196 0.016400986 0.989047007 0.302135444 0.305481379 -0.004783067 -0.519798324 -0.515015257
5 3130 40560 246.13414 46.720589 222.969833 104.73304 183.860046 8200 21.656635 0.942267 0.993416 0.997406 2.35011 0.626696 519.272705 198.529419 178.884781 222.736542 182.295258 8800 21.656635 0.941641 0.993706 0.994743 2.331331 0.621688 2916.963623 7.985294 2383.136719 36.0317 175.896927 16500 21.656635 0.938099 0.944031 0.998749 80.955481 0.862006 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 199.413551 320.743286 2908.978329 0.004593604 0.007793378 0.012393074 0.589423985 0.370658978 0.628849499 -0.229572196 -0.431025476 -0.20145328
6 3380 40560 280.175262 45.514706 302.268951 114.788902 186.779999 9700 21.656635 0.954738 0.989029 0.996727 2.440787 0.650877 506.881348 185.691177 205.310242 201.34082 187.630173 11800 21.656635 0.961204 0.994331 0.994759 2.517529 0.671341 10646.10742 32.926472 8099.219727 103.442436 174.80777 20400 21.656635 0.952534 0.823463 0.996338 102.918181 0.863986 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 234.660556 321.190171 10613.18095 0.005405539 0.007804237 0.045215166 0.692641581 0.119551456 0.172602193 -0.15949144 -0.922445131 -0.762953691
7 3640 40570 348.435883 75.397057 272.503174 192.173203 177.697342 11700 26.814358 0.950368 0.991531 0.993423 1.813135 0.483503 498.459473 172.808823 241.993683 182.302216 190.157852 14800 26.814358 0.966447 0.993065 0.995667 2.734248 0.729133 9248.740234 20.470589 8290.892578 88.208954 181.77066 18100 26.814358 0.940279 0.816368 0.997246 104.850356 0.851326 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 273.038826 325.65065 9228.269645 0.006289604 0.007912617 0.039315051 0.794882929 0.159979551 0.201261778 -0.09969683 -0.795935525 -0.696238695
8 3900 40570 251.669815 41.39706 263.437805 103.097572 186.097076 10600 36.732258 0.946054 0.993324 0.996498 2.441084 0.650956 481.362061 226.058823 210.588669 262.004486 186.268051 11600 36.732258 0.971346 0.992645 0.99321 1.837228 0.489928 5907.952637 45.455883 4443.815918 177.956345 169.068726 19000 36.732258 0.921187 0.901123 0.994919 33.198887 0.874421 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 210.272755 255.303238 5862.496754 0.004843752 0.006203325 0.024975902 0.780831622 0.193937026 0.248372403 -0.107442607 -0.712339268 -0.604896661
9 4140 40580 212.917648 15.558824 177.17392 55.633766 177.697342 8500 27.180155 0.957104 0.994034 0.998375 3.82713 0.828389 542.982605 185.102936 206.813889 194.481567 187.290573 11500 27.180155 0.954646 0.994514 0.994774 2.791949 0.74452 4120.875 21.632353 3034.23291 68.662033 168.31395 16000 27.180155 0.922066 0.919914 0.997734 60.016793 0.875793 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 197.358824 357.879669 4099.242647 0.004546272 0.008695713 0.017463938 0.522817641 0.260323434 0.497923968 -0.281649767 -0.584486735 -0.302836968
10 4390 40580 268.5 95.794121 233.241928 176.250626 185.925949 11000 27.180155 0.963032 0.993507 0.995621 1.523399 0.40624 792.771423 302.558838 274.186768 291.590149 179.479706 7000 27.180155 0.942976 0.991432 0.991432 2.718787 0.72501 12201.83789 29 10530.49219 96.155502 183.166229 21600 27.180155 0.944628 0.791992 0.996376 126.896928 0.848789 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 172.705879 490.212585 12172.83789 0.003978378 0.011911121 0.051859748 0.334005314 0.076714176 0.229679508 -0.476246624 -1.115124374 -0.638877751
11 4640 40580 531.791016 145.132355 414.544342 200.853989 186.268051 20100 27.180155 0.95564 0.987053 0.995598 2.64765 0.70604 944.061401 294.926483 283.69577 248.077286 173.161194 11400 27.180155 0.920523 0.991493 0.993492 3.805513 0.82775 10046.11328 82.029411 9180.035156 186.252518 185.754669 22100 27.180155 0.954534 0.817093 0.99453 53.938134 0.844082 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 386.658661 649.134918 9964.08387 0.008906901 0.015772595 0.042449828 0.564707405 0.209821849 0.371558523 -0.248176517 -0.678149289 -0.429972772
12 4900 40590 325.630066 44.514706 301.290466 103.96476 186.438858 17300 39.859264 0.964577 0.991646 0.996696 3.13212 0.805149 835.546082 235.647064 389.521118 222.694473 189.150833 14100 39.859264 0.956228 0.988441 0.994377 3.751984 0.826147 11054.23145 55.220589 9766.033203 166.121414 178.055252 21200 39.859264 0.911764 0.809563 0.99437 66.543085 0.858081 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 281.11536 599.899018 10999.01086 0.006475652 0.014576268 0.046858911 0.444259922 0.138194668 0.311067151 -0.352362864 -0.859508712 -0.507145848
13 5150 40600 807.443726 34.60294 646.68927 106.026062 182.818344 16000 44.816422 0.950847 0.982574 0.997353 7.615521 0.849421 6804.708008 232.588242 5843.538574 265.516235 189.822784 20900 44.816422 0.971344 0.875046 0.991432 25.628218 0.836686 9835.607422 32.779411 7687.807617 101.652885 176.619293 18600 44.816422 0.916826 0.829102 0.996529 96.756795 0.860692 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 772.840786 6572.119766 9802.828011 0.017802826 0.159688508 0.041762832 0.111484702 0.426283961 3.823699174 -0.952784724 -0.370301007 0.582483717
14 5400 40600 224.785721 65.573532 207.112808 141.795456 186.609512 8400 44.816422 0.952806 0.994438 0.995522 1.585282 0.422742 513.246033 204.058823 258.679688 241.085037 189.150833 12600 44.816422 0.965893 0.992287 0.992867 2.1289 0.567707 5697.174316 32.088234 4817.814453 132.443253 174.989761 17200 44.816422 0.918954 0.887383 0.995468 43.015965 0.863655 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 159.212189 309.18721 5665.086082 0.003667543 0.00751259 0.024134876 0.488186207 0.1519603 0.311275284 -0.311414496 -0.818269857 -0.506855362
15 5650 40600 214.08046 59.308823 195.606583 156.252686 188.982483 8700 44.816422 0.958596 0.993263 0.995247 1.370091 0.365358 556.927551 184.352936 220.270447 203.47847 174.443207 6900 44.816422 0.936469 0.993065 0.994492 2.737034 0.729876 5573.176758 45.382355 4254.929199 146.655045 183.166229 18100 44.816422 0.949187 0.906166 0.996315 38.001944 0.848789 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 154.771637 372.574615 5527.794403 0.003565252 0.009052769 0.023549975 0.393830028 0.151390923 0.384406755 -0.404691174 -0.819900163 -0.415208989
16 5900 40610 321.178284 44.161766 265.082794 106.574707 181.068848 12900 51.266586 0.948576 0.991829 0.997185 3.013645 0.800544 2053.684814 210.808823 1492.321777 232.966797 186.950348 18400 51.266586 0.958284 0.961876 0.994537 8.815354 0.841908 14101.11426 30.17647 12430.58301 94.672089 181.595459 19200 51.266586 0.933363 0.750557 0.997566 148.946901 0.833705 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 277.016518 1842.875991 14070.93779 0.006381233 0.04477796 0.059946193 0.142508335 0.106449338 0.74696921 -0.846159735 -0.972857034 -0.1266973
17 6150 40610 493.139069 55.544117 426.661804 134.246765 184.378693 15100 51.266586 0.940228 0.987854 0.99617 3.673378 0.823738 606.313232 231.529419 312.604706 328.945679 185.411636 16600 51.266586 0.960636 0.991974 0.989182 1.843202 0.49152 12046.63086 31.07353 9970.884766 103.183403 181.77066 20600 51.266586 0.943681 0.793045 0.996735 116.749695 0.851326 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 437.594952 374.783813 12015.55733 0.010080248 0.009106448 0.051189688 1.106935178 0.196919501 0.177896145 0.044122189 -0.705711274 -0.749833463
18 6400 40610 544.625 32.955883 2426.182129 90.187271 182.295258 9600 51.266586 0.956987 0.970528 0.996696 6.038823 0.850372 694.265503 214.647064 955.894104 229.132874 191.990341 11300 51.266586 0.968946 0.987915 0.994324 3.029969 0.801192 3998.041016 44.205883 3616.648193 119.632339 172.608841 17100 51.266586 0.941733 0.910072 0.996719 33.4194 0.867984 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 511.669117 479.618439 3953.835133 0.011786588 0.011653706 0.016844461 1.011402552 0.699730801 0.691842037 0.004924045 -0.155069009 -0.159993054
19 2150 40800 374.727264 59.558823 343.215302 151.235153 176.43898 11000 43.700764 0.928204 0.990654 0.995422 2.477779 0.660741 663.208313 259.647064 198.832123 241.836609 174.989761 4800 43.700764 0.932107 0.993378 0.9935 2.742382 0.731302 4602.149902 23.264706 4417.559082 70.794342 185.239883 16700 43.700764 0.954944 0.901237 0.997353 65.007312 0.845018 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 315.168441 403.561249 4578.885196 0.007260084 0.009805679 0.019507352 0.740395853 0.37217167 0.502665795 -0.130536023 -0.429256689 -0.298720666
20 2390 40800 245.264709 62.073528 228.152252 131.181351 182.64415 6800 35.77021 0.944648 0.994392 0.996201 1.869661 0.498576 425.59848 165.514709 218.212265 202.284897 188.307541 13200 35.77021 0.956689 0.994072 0.994751 2.103956 0.561055 3331.860596 28.279411 2343.130615 101.418716 180.010986 16500 35.77021 0.927801 0.941429 0.99675 32.852522 0.854526 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 183.191181 260.083771 3303.581185 0.004219913 0.006319482 0.014074194 0.667762491 0.299833339 0.449011951 -0.17537798 -0.523120079 -0.347742099

Total number of rows: 5184

Table truncated, full table size 2737 Kbytes.




Supplementary data files not provided

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