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Sample GSM109661 Query DataSets for GSM109661
Status Public on May 24, 2006
Title CC2_14028s_ChIP_WN442_pHNS-HA_antiHA__6D073_3
Sample type genomic
 
Channel 1
Source Name 14028s gDNA
Organism(s) Salmonella enterica subsp. enterica serovar Typhimurium
Characteristics Salmonella typhimurium 14028s genomic DNA
Extracted molecule genomic DNA
Extraction protocol SIGMA GenElute bacterial gDNA extraction kit
Label Cy3
 
Channel 2
Source Name IP_14028sRpoSlowhns- pWN442-pHNS-HA_antiHA
Organism(s) Salmonella enterica subsp. enterica serovar Typhimurium
Characteristics Salmonella typhimurium 14028s-rpoSlow-hns mutant complemented with pWN442-pHNS-HA IP'd with anti-HA
Extracted molecule genomic DNA
Extraction protocol IP using anti-HA
Label Cy5
 
 
Description User - Pcheng
Date_of_Scan = Tue Sep 13 13:42:42 2005
Data processing Quantarray 3.0, adaptive quantitation, protocol STv6_01_050607.pro
 
Submission date May 21, 2006
Contact name Michael McClelland
E-mail(s) mcclelland.michael@gmail.com
Phone 858-450-5990
Fax 858-550-3998
Organization name Sidney Kimmel Cancer Center
Department
Street address 10835 Road to the Cure
City San Diego
State/province CA
ZIP/Postal code 92121
Country USA
 
Platform ID GPL3788
Series (1)
GSE4881 CC2_Navarre_14028srpoSlowhns-_IP_pHNStagged_antiHA

Data table header descriptions
ID_REF 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
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
IGNORE_FILTER Ignore filter
CH1_BKD_CORR Channel 1 background correlation
CH2_BKD_CORR Channel 2 background correlation
CH1%_OF_TOTAL Channel 1 % of total
CH2%_OF_TOTAL Channel 2 % of total
PRE-VALUE ch1 % of total / ch2 % of total
VALUE log of ch1 % of total / ch2 % 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 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 IGNORE_FILTER CH1_BKD_CORR CH2_BKD_CORR CH1%_OF_TOTAL CH2%_OF_TOTAL PRE-VALUE VALUE
1 2090 40780 29845 358 9949.908203 583.345276 97.066856 8100 20.695826 0.97046 0.646629 0.983154 51.16181 0.739005 1521 0 1411.984009 310.043304 93.389999 7400 20.695826 0.951752 0.958656 0.991913 4.905766 0.855193 1 1 1 0 1 1 1 1 1 1 1 1 1 29487 1521 0.023581104 0.014187317 1.662125693 0.220663863
2 2320 40780 48110 251 10789.54688 672.376099 97.066856 8100 15.718915 0.97046 0.563721 0.981667 71.552216 0.644252 802 0 694.295044 381.520935 89.206215 5800 15.718915 0.944062 0.978889 0.989403 2.102113 0.560563 1 1 1 0 1 1 1 1 1 1 1 0 1 47859 802 0.038273411 0.007480755 5.116249777 0.708951739
3 2560 40780 15285 160 4682.049805 751.887451 94.406982 7900 20.695826 0.943981 0.833694 0.982338 20.32884 0.88913 13877 0 5388.244141 593.078186 92.705818 7800 20.695826 0.934498 0.837021 0.982979 23.398264 0.891347 1 1 1 1 1 1 1 1 1 1 1 1 1 15125 13877 0.012095642 0.129439448 0.093446337 -1.029437718
4 2790 40780 27845 20 7860.966797 502.560028 97.066856 8100 15.718915 0.97046 0.696953 0.986389 55.406317 0.796518 1417 0 1157.048218 924.74469 92.705818 7600 15.718915 0.934498 0.969208 0.981316 1.532315 0.408617 1 1 1 0 1 1 1 1 1 1 1 0 1 27825 1417 0.022251983 0.013217244 1.683556942 0.22622781
5 3030 40780 4195 117 4208.235352 490.108643 94.406982 7800 20.695826 0.959758 0.880768 0.98719 8.559327 0.905297 5760 0 6797.336426 445.677856 95.078926 7900 20.695826 0.950954 0.809006 0.987717 12.924133 0.87267 1 1 1 1 1 1 1 1 1 1 1 1 1 4078 5760 0.003261225 0.053727118 0.060699795 -1.216812775
6 3260 40780 16851 77 8834.620117 561.946594 97.066856 8100 15.718915 0.97046 0.755089 0.984291 29.986835 0.836726 385 0 673.82019 300.754639 86.30442 4000 15.718915 0.894783 0.973869 0.990959 1.280113 0.341364 1 1 1 1 1 1 1 1 1 1 1 0 1 16774 385 0.013414367 0.003591136 3.735411025 0.572338396
7 3500 40780 49539 138 11796.47754 594.834961 97.066856 8100 20.695826 0.97046 0.528709 0.98597 83.281924 0.604239 805 0 799.788574 372.479889 89.562332 5700 20.695826 0.916052 0.978409 0.988647 2.161191 0.576317 1 1 1 0 1 1 1 1 1 1 1 0 1 49401 805 0.039506567 0.007508738 5.261412436 0.721102347
8 3730 40780 45211 188 7821.887207 618.527039 97.066856 8100 15.718915 0.97046 0.655296 0.9832 73.094622 0.74891 723 0 793.735229 323.925201 93.730225 6600 15.718915 0.946722 0.977097 0.989235 2.231997 0.595199 1 1 1 0 1 1 1 1 1 1 1 0 1 45023 723 0.036005428 0.006743873 5.338984003 0.72745862
9 3970 40790 36142 228 6411.890137 473.526428 97.066856 8100 22.219208 0.97046 0.746155 0.987434 76.325201 0.83077 561 0 722.00769 603.781433 87.767311 6100 22.219208 0.917921 0.979546 0.989128 0.929144 0.247772 1 1 1 1 1 1 1 1 1 1 1 0 1 35914 561 0.028720853 0.005232797 5.488623038 0.739463404
10 4200 40790 32578 103 7588.500977 508.841644 97.066856 8100 17.676546 0.97046 0.72345 0.984261 64.023848 0.815633 723 0 749.028076 664.924316 93.389999 5600 17.676546 0.941627 0.979195 0.981331 1.087342 0.289958 1 1 1 1 1 1 1 1 1 1 1 0 1 32475 723 0.025970644 0.006743873 3.850998501 0.58557335
11 4440 40790 4972 127 2771.582275 585.67395 97.066856 8000 22.219208 0.97046 0.903984 0.985275 8.489365 0.904665 4848 0 3136.870605 406.174408 96.408768 8000 22.219208 0.963834 0.900993 0.988617 11.935759 0.928242 1 1 1 1 1 1 1 1 1 1 1 1 1 4845 4848 0.003874604 0.045220325 0.085682801 -1.067106343
12 4670 40790 17768 80 7568.598145 476.171021 97.066856 8100 17.676546 0.97046 0.774529 0.988594 37.314325 0.849686 395 0 653.728088 302.789337 82.918602 4000 17.676546 0.915832 0.980751 0.990822 1.304537 0.347877 1 1 1 1 1 1 1 1 1 1 1 0 1 17688 395 0.014145304 0.003684412 3.839229916 0.584244121
13 4910 40790 37897 283 6379.738281 499.963745 97.066856 8100 22.219208 0.97046 0.691704 0.984306 75.799496 0.790519 701 0 740.686218 293.719635 91.322075 5900 22.219208 0.954606 0.981232 0.992302 2.38663 0.636435 1 1 1 0 1 1 1 1 1 1 1 0 1 37614 701 0.030080363 0.006538665 4.600382994 0.662793989
14 5140 40790 53765 0 6619.307129 468.545319 97.066856 8100 17.676546 0.97046 0.793434 0.986038 114.748772 0.862289 1034 0 759.039001 220.952072 93.048538 6100 17.676546 0.95796 0.980209 0.993065 4.679748 0.850294 1 1 1 1 1 1 1 1 1 1 1 1 1 53765 1034 0.04299651 0.009644764 4.45801575 0.649141598
15 5380 40790 32959 57 5872.427246 614.507019 97.066856 8100 22.219208 0.97046 0.721573 0.981728 53.634863 0.814382 1791 0 1586.779297 395.075745 94.743553 7800 22.219208 0.955337 0.956345 0.985466 4.533308 0.846938 1 1 1 1 1 1 1 1 1 1 1 1 1 32902 1791 0.02631212 0.016705776 1.575031338 0.197289199
16 5610 40790 29577 188 5515.219238 486.637756 97.066856 8100 17.676546 0.97046 0.800819 0.987885 60.778268 0.867213 20603 0 6112.04541 550.961914 97.066856 8100 17.676546 0.97046 0.792961 0.986252 37.394599 0.861974 1 1 1 1 1 1 1 1 1 1 1 1 1 29389 20603 0.023502733 0.192177052 0.12229729 -0.912583167
17 5850 40790 19877 211 8067.40332 415.117493 95.078926 8000 22.219208 0.950954 0.750854 0.990547 47.882829 0.833903 528 0 537.427368 332.73584 87.767311 5100 22.219208 0.927409 0.985435 0.98922 1.586844 0.423158 1 1 1 1 1 1 1 1 1 1 1 0 1 19666 528 0.015727134 0.004924986 3.19333587 0.504244599
18 6080 40790 14041 111 7262.404785 631.074097 97.066856 8100 17.676546 0.97046 0.810501 0.983147 22.249368 0.873667 6861 0 4410.437012 413.586212 97.066856 8100 17.676546 0.97046 0.868492 0.990547 16.589044 0.912328 1 1 1 1 1 1 1 1 1 1 1 1 1 13930 6861 0.011139987 0.063996833 0.174070904 -0.759273816
19 6320 40790 33036 278 6296.548828 774.524963 95.078926 8000 22.219208 0.950954 0.745193 0.97776 42.653241 0.830129 2383 0 1168.531006 351.53479 97.066856 8100 22.219208 0.97046 0.963089 0.990021 6.778845 0.88609 1 1 1 1 1 1 1 1 1 1 1 1 1 32758 2383 0.026196962 0.02222773 1.178571197 0.071355823
20 2080 41020 29201 145 4828.702637 597.369263 97.066856 8100 11.114826 0.97046 0.845589 0.982994 48.882662 0.897059 20209 0 4651.750488 496.399597 97.066856 8100 11.114826 0.97046 0.841934 0.986679 40.711153 0.894623 1 1 1 1 1 1 1 1 1 1 1 1 1 29056 20209 0.023236429 0.188501968 0.123268891 -0.90914651

Total number of rows: 5776

Table truncated, full table size 1679 Kbytes.




Supplementary data files not provided
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