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Sample GSM12391 Query DataSets for GSM12391
Status Public on May 10, 2004
Title RE3_IB314-RpoH:PCN_HS_37C_80 min_4d201_2
Sample type RNA
 
Channel 1
Source name IB314 80 min post treatment
Organism Salmonella enterica subsp. enterica serovar Typhimurium
Extracted molecule total RNA
 
Channel 2
Source name IB314 pretreatment
Organism Salmonella enterica subsp. enterica serovar Typhimurium
Extracted molecule total RNA
 
 
Description Salmonella typhimurium IB314-RpoH:PCN Expression after heatshock with 37C compared to 30C RNA vs 30C DNA
User - PCheng
Date_of_Scan = Wed Oct 22 10:39:13 2003
Sample_target_source3: IB314 genomic DNA
 
Submission date Oct 23, 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 GPL548
Series (1)
GSE809 14028s:rpoH_heat_shock_37C_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 2510 22340 826.829529 108.553192 1527.195557 185.653702 127.661545 8800 59.399872 0.957327 0.947708 0.994354 4.453612 0.845048 946.590881 352.99469 310.982941 320.164215 119.14959 4400 59.399872 0.930973 0.99041 0.990005 2.956579 0.788421 315.134613 133.835114 262.767548 258.955719 124.377907 5200 59.399872 0.952891 0.993584 0.992668 1.216944 0.324518 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 0 1 718.276337 593.596191 181.299499 0.04609203 0.021041356 0.003103106 2.190544614 14.85351365 6.780740072 0.340552103 1.1718292 0.831277097
2 2750 22340 374.452393 122.94149 362.195892 204.732285 127.161888 8400 62.301365 0.957231 0.988586 0.993996 1.828986 0.487729 825.647034 297.329773 277.63559 265.11319 120.21344 5100 62.301365 0.934456 0.991226 0.99337 3.114319 0.804471 1187.483887 131.904251 2859.315674 254.115219 124.888702 12400 62.301365 0.957461 0.943626 0.992142 4.673014 0.850143 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 251.510903 528.317261 1055.579636 0.016139538 0.018727397 0.018067208 0.861814239 0.893305602 1.036540778 -0.064586335 -0.048999943 0.015586392
3 3000 22350 278.923065 115.037231 236.119705 199.952377 125.651001 7800 65.958344 0.950203 0.993248 0.993401 1.394947 0.371986 899.365845 359.526581 201.002213 288.348083 109.400429 4100 65.958344 0.845242 0.994667 0.991913 3.119028 0.751326 869.205383 147.86171 972.184998 214.419083 128.159256 11200 65.958344 0.953289 0.979858 0.994057 4.053769 0.834814 1 1 1 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 1 163.885834 539.839264 721.343673 0.010516608 0.019135821 0.012346454 0.549577059 0.851791757 1.549904136 -0.259971404 -0.069666567 0.190304837
4 3230 22350 278.623199 124.654259 228.175964 229.950623 123.349976 6900 62.027313 0.940621 0.992249 0.992767 1.211665 0.323111 931.8125 347.478729 259.848755 282.45343 113.681061 3200 62.027313 0.904787 0.991844 0.991768 3.298995 0.809575 803.728943 104.478722 1418.141846 183.458557 127.411957 10700 62.027313 0.940316 0.969887 0.994705 4.380984 0.843284 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 153.96894 584.333771 699.250221 0.009880238 0.020713029 0.011968305 0.477005935 0.825533596 1.730656866 -0.321476218 -0.083265248 0.23821097
5 3460 22370 315.914276 97.44149 242.598892 186.175095 124.377907 7000 47.049625 0.950869 0.992622 0.994514 1.696866 0.452498 749.657166 288.643616 219.233276 271.481598 123.607758 3500 47.049625 0.937192 0.993294 0.992844 2.761355 0.736361 661.473145 127.478722 622.269348 204.365784 126.660263 9300 47.049625 0.95647 0.983223 0.994179 3.236712 0.80904 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 218.472786 461.01355 533.994423 0.014019471 0.016341666 0.009139801 0.857897309 1.533892309 1.787967269 -0.066564694 0.18579487 0.252359564
6 3710 22370 278.285706 84.218086 232.740921 161.646667 120.21344 7700 61.016495 0.931913 0.992844 0.995308 1.721568 0.459085 1002.904785 353.723419 417.603302 312.077881 118.882133 4200 61.016495 0.935039 0.985352 0.992241 3.213636 0.808195 647.061218 150.148941 546.273865 248.792511 127.161888 9800 61.016495 0.947396 0.986313 0.992836 2.600807 0.693548 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 0 1 194.06762 649.181366 496.912277 0.012453383 0.023011698 0.008505107 0.541176193 1.464224257 2.705633166 -0.266661317 0.165607597 0.432268914
7 3930 22380 356.712128 116.340424 358.645691 241.547302 126.911324 6600 43.856178 0.946802 0.988945 0.99292 1.47678 0.393808 945.018188 347.739349 536.116699 320.621552 124.121719 5500 43.856178 0.92351 0.98481 0.991066 2.947457 0.785989 435.546387 153.244675 557.845459 261.366852 129.395142 9700 43.856178 0.960415 0.974396 0.992226 1.666418 0.444378 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 0 1 240.371704 597.278839 282.301712 0.015424732 0.021171896 0.004831851 0.728547484 3.192302769 4.381736041 -0.137542137 0.504104075 0.641646212
8 4170 22380 274.406769 122.031914 222.648102 247.145172 125.904076 5900 48.749149 0.950684 0.993103 0.992584 1.110306 0.296082 961.894714 365.148926 181.036179 278.532684 106.749687 1900 48.749149 0.831891 0.994385 0.992729 3.453436 0.739458 840.201904 169.13829 1837.36792 270.741791 127.910637 10400 48.749149 0.958276 0.943535 0.992989 3.103333 0.80405 1 1 1 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 1 152.374855 596.745788 671.063614 0.009777945 0.021153001 0.011485865 0.462248587 0.851302401 1.841654957 -0.335124408 -0.069916142 0.265208266
9 4400 22390 383.606567 105.287231 351.276245 214.624344 122.832779 6100 42.81427 0.928276 0.988853 0.993874 1.787339 0.476624 977.105286 342.297882 318.218811 273.458771 91.322075 1900 42.81427 0.762661 0.99115 0.992279 3.573136 0.677921 689.271851 135.728729 1188.206543 199.176041 124.121719 10300 42.81427 0.942866 0.977585 0.99469 3.460616 0.816871 1 1 1 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 1 278.319336 634.807404 553.543122 0.017859844 0.022502181 0.009474395 0.793693905 1.885064284 2.375051985 -0.100346955 0.275326165 0.37567312
10 4630 22380 608.052612 146.515961 1552.847534 471.514465 124.888702 7600 38.990372 0.947213 0.980568 0.99202 1.289574 0.343886 1158.875 327.760651 851.747192 330.829132 118.614082 6400 38.990372 0.949066 0.979881 0.991447 3.502941 0.818279 3031.5 109.218086 1763.275513 206.571579 126.911324 14200 38.990372 0.956792 0.949974 0.994362 14.675301 0.892355 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 461.536651 831.114349 2922.281914 0.02961696 0.029460724 0.050017519 1.005303196 0.592131723 0.589008098 0.002297063 -0.227581672 -0.229878735
11 4870 22370 380.287354 106.505318 323.334534 217.807663 126.408699 8700 47.049625 0.945237 0.989311 0.995064 1.745978 0.465594 971.439026 357.276581 313.685516 306.895966 108.524048 4100 47.049625 0.908089 0.987747 0.991028 3.165369 0.806403 548.877563 131.989365 547.677551 244.945236 127.411957 9800 47.049625 0.950695 0.98053 0.992104 2.240817 0.597551 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 0 1 273.782036 614.162445 416.888198 0.017568684 0.021770374 0.007135422 0.806999641 2.462178828 3.051028408 -0.093126659 0.391319593 0.484446251
12 5110 22360 307.764709 131.973404 305.117462 257.374084 126.660263 6800 56.187943 0.951739 0.991547 0.993912 1.195787 0.318877 991.714294 384.617035 216.135513 391.84671 108.230339 3500 56.187943 0.911961 0.994301 0.991371 2.530873 0.6749 699.892883 115.553192 690.187744 207.901047 130.131042 11200 56.187943 0.966333 0.983131 0.993843 3.366471 0.813658 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 175.791305 607.097259 584.339691 0.011280586 0.021519932 0.010001506 0.524192457 1.127888706 2.151669089 -0.280509233 0.052266248 0.332775481
13 5340 22400 571.539795 128.36702 504.617645 239.927902 128.407379 11300 44.07674 0.964069 0.98555 0.992332 2.382131 0.635235 926.730774 345.5 246.983383 298.172211 118.345421 5200 44.07674 0.940574 0.992409 0.991089 3.108039 0.80423 1830.192627 152.803192 1816.134399 240.162582 129.640915 13500 44.07674 0.954303 0.943947 0.992935 7.62064 0.881436 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 443.172775 581.230774 1677.389435 0.028438544 0.020603036 0.028710049 1.38030837 0.990543184 0.717624558 0.139976121 -0.004126586 -0.144102708
14 5580 22410 319.108093 151.106384 288.842834 252.207855 128.655029 7400 52.015106 0.948644 0.990501 0.993294 1.265258 0.337402 988.904785 389.680847 237.918671 331.081696 89.206215 2100 52.015106 0.806901 0.992538 0.991104 2.986891 0.717246 665.161316 169.414886 983.234009 269.879578 124.888702 9300 52.015106 0.95247 0.961357 0.9925 2.46466 0.657243 1 1 1 1 1 0 1 1 0 1 1 0 1 1 1 1 1 0 1 168.001709 599.223938 495.74643 0.010780725 0.021240845 0.008485152 0.507546917 1.270540018 2.503295705 -0.294523806 0.103988348 0.398512154
15 5820 22410 339.595245 132.510635 285.841766 270.717346 125.651001 8400 56.645271 0.941553 0.990997 0.991524 1.254427 0.334514 1097.043457 410.053192 241.905411 331.106354 101.867088 2300 56.645271 0.84201 0.993088 0.990303 3.313266 0.748453 975.693665 124.255318 1487.962158 202.557495 124.377907 11100 56.645271 0.934727 0.950745 0.994919 4.816873 0.853305 1 1 1 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 1 207.08461 686.990265 851.438347 0.013288688 0.02435192 0.014573143 0.545693638 0.911861465 1.671013553 -0.263051109 -0.040071137 0.222979972
16 6040 22410 319.608704 173.473404 324.36084 573.772278 124.633568 6900 43.003963 0.943709 0.989243 0.993294 0.557031 0.148541 1014.472229 397.861694 213.444336 329.732117 107.047455 3600 43.003963 0.89578 0.993286 0.989929 3.076656 0.796249 996.026794 142.984039 946.009888 212.239487 124.888702 11200 43.003963 0.946901 0.97361 0.994606 4.692938 0.850589 1 1 1 1 1 0 1 1 0 1 1 1 1 1 1 1 1 1 1 146.1353 616.610535 853.042755 0.009377551 0.021857152 0.014600604 0.429038083 0.642271396 1.497003229 -0.367504156 -0.192281419 0.175222737
17 6290 22420 397.641968 100.696808 446.445892 182.881943 120.21344 8100 60.978554 0.917213 0.991226 0.99514 2.17431 0.579816 926.684204 365.24469 384.550629 320.78125 117.535744 3800 60.978554 0.901012 0.982544 0.990669 2.888835 0.770356 1475.766113 129.297867 3532.310059 216.63382 131.10582 12400 60.978554 0.963743 0.924545 0.993248 6.812261 0.849091 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 296.94516 561.439514 1346.468246 0.019055069 0.01990149 0.023046031 0.957469448 0.826826485 0.863553909 -0.018875075 -0.082585621 -0.063710546
18 6510 22420 422.19101 154.38829 519.269714 252.445923 124.121719 8900 48.569931 0.951117 0.985687 0.992371 1.672402 0.445974 774.636353 361.526581 173.240219 313.247711 116.173759 3300 48.569931 0.937238 0.993401 0.992088 2.472919 0.659445 1159.550415 183.351059 1689.456787 346.666107 128.902206 12900 48.569931 0.959707 0.960037 0.992844 3.344862 0.812904 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 1 1 267.80272 413.109772 976.199356 0.017184989 0.014643608 0.016708542 1.173548829 1.028515193 0.876414485 0.069501165 0.012210711 -0.057290453
19 6750 22430 266.875 138.840424 214.816681 256.975494 124.377907 6400 58.922413 0.946091 0.993065 0.991463 1.038523 0.27694 836.307678 359.228729 127.105865 307.578857 113.681061 2600 58.922413 0.915285 0.996628 0.991707 2.719002 0.725067 1129.388428 203.409576 967.768616 401.483521 126.911324 12100 58.922413 0.944254 0.975548 0.990181 2.813038 0.750143 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 0 1 128.034576 477.078949 925.978852 0.008216021 0.01691114 0.015848972 0.485834848 0.51839457 1.067018086 -0.313511337 -0.285339556 0.028171781
20 2520 22580 328.479462 169.186172 291.717438 822.335938 127.661545 7300 61.761024 0.948801 0.991463 0.991814 0.399447 0.106519 852.477295 338.281921 254.298172 290.545502 115.899437 4400 61.761024 0.908344 0.990967 0.991814 2.934058 0.782415 488.742584 101.44149 364.051117 185.16127 125.397415 10100 61.761024 0.947175 0.989471 0.995064 2.639551 0.70388 1 1 1 1 1 0 1 1 1 1 1 0 1 1 1 1 1 0 1 159.29329 514.195374 387.301094 0.010221903 0.018226815 0.006629011 0.560816737 1.541995132 2.749552628 -0.251179034 0.188083003 0.439262037

Total number of rows: 5776

Table truncated, full table size 3028 Kbytes.




Supplementary data files not provided

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