NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM116197 Query DataSets for GSM116197
Status Public on May 01, 2007
Title JIR1201 gdn38
Sample type genomic
 
Channel 1
Source name JIR1201
Organism Dichelobacter nodosus
Characteristics D. nodosus strain JIR1201
Extracted molecule genomic DNA
Label Cy5
 
Channel 2
Source name JIR3356 wild-type
Organism Dichelobacter nodosus
Characteristics Wild-type strain
Extracted molecule genomic DNA
Label Cy3
 
 
Description Random primers were annealed to 2ug of restriction-digested genomic DNA and labelled and unlabelled nucleotide were added using Klenow polyermase.
Data processing Expression and p-values are attached to series file
 
Submission date Jun 26, 2006
Last update date Dec 18, 2006
Contact name Julian I Rood
E-mail(s) julian.rood@monash.edu
Phone 61 3 990 29157
Organization name Monash University
Department Microbiology
Lab Rood
Street address Wellington Road
City Melbourne
State/province Victoria
ZIP/Postal code 3800
Country Australia
 
Platform ID GPL2981
Series (1)
GSE5157 JIR1201, JIR1212, JIR1244, JIR1461, JIR1474, JIR3209, JIR3350, JIR3356 and JIR3528 genomic arrays

Data table header descriptions
ID_REF
Ch1 Flag Spots removed from analysis in Ch1
Ch1 Signal Mean Mean signal for Ch1
Ch1 Background Mean Mean background Ch1
Ch1 Signal Median
Ch1 Background Median
Ch1 Signal Mode
Ch1 Background Mode
Ch1 Signal Area
Ch1 Background Area
Ch1 Signal Total Total Ch1 signal
Ch1 Background Total Total Ch1 background
Ch1 Signal Stdev
Ch1 Background Stdev
Ch1 XCoord
Ch1 YCoord
Ch1 Diameter
Ch1 CM-X
Ch1 CM-Y
Ch1 Min Diam
Ch1 Max Diam
Ch1 Control
Ch1 Failed Control
Ch1 Background contamination present
Ch1 Signal contamination present
Ch1 Ignored % failed
Ch1 Open perimeter failed
Ch1 Shape regularity failed
Ch1 Perim-to-area failed
Ch1 Offset failed
Ch1 Empty spot
Ch1 Negative spot
Ch2 Flag spots removed from Ch2
Ch2 Signal Mean Mean signal Ch2
Ch2 Background Mean Mean background Ch2
Ch2 Signal Median
Ch2 Background Median
Ch2 Signal Mode
Ch2 Background Mode
Ch2 Signal Area
Ch2 Background Area
Ch2 Signal Total Total signal Ch2
Ch2 Background Total Total background Ch2
Ch2 Signal Stdev
Ch2 Background Stdev
Ch2 XCoord
Ch2 YCoord
Ch2 Diameter
Ch2 CM-X
Ch2 CM-Y
Ch2 Min Diam
Ch2 Max Diam
Ch2 Control
Ch2 Failed Control
Ch2 Background contamination present
Ch2 Signal contamination present
Ch2 Ignored % failed
Ch2 Open perimeter failed
Ch2 Shape regularity failed
Ch2 Perim-to-area failed
Ch2 Offset failed
Ch2 Empty spot
Ch2 Negative spot
VALUE -[INV_VALUE]; log2 of (test/WT) ratios
INV_VALUE Log2 of Ch2% of total/Ch1% of total - actual expression ratios are given in series table

Data table
ID_REF Ch1 Flag Ch1 Signal Mean Ch1 Background Mean Ch1 Signal Median Ch1 Background Median Ch1 Signal Mode Ch1 Background Mode Ch1 Signal Area Ch1 Background Area Ch1 Signal Total Ch1 Background Total Ch1 Signal Stdev Ch1 Background Stdev Ch1 XCoord Ch1 YCoord Ch1 Diameter Ch1 CM-X Ch1 CM-Y Ch1 Min Diam Ch1 Max Diam Ch1 Control Ch1 Failed Control Ch1 Background contamination present Ch1 Signal contamination present Ch1 Ignored % failed Ch1 Open perimeter failed Ch1 Shape regularity failed Ch1 Perim-to-area failed Ch1 Offset failed Ch1 Empty spot Ch1 Negative spot Ch2 Flag Ch2 Signal Mean Ch2 Background Mean Ch2 Signal Median Ch2 Background Median Ch2 Signal Mode Ch2 Background Mode Ch2 Signal Area Ch2 Background Area Ch2 Signal Total Ch2 Background Total Ch2 Signal Stdev Ch2 Background Stdev Ch2 XCoord Ch2 YCoord Ch2 Diameter Ch2 CM-X Ch2 CM-Y Ch2 Min Diam Ch2 Max Diam Ch2 Control Ch2 Failed Control Ch2 Background contamination present Ch2 Signal contamination present Ch2 Ignored % failed Ch2 Open perimeter failed Ch2 Shape regularity failed Ch2 Perim-to-area failed Ch2 Offset failed Ch2 Empty spot Ch2 Negative spot VALUE INV_VALUE
1 0 1714.172093 660.4179104 1597 616 1598.288462 517.9780488 215 1139 368547 752216 663.648305 325.7612858 229 190 20 229.2697674 191.3162791 16.15487895 18.14414545 0 0 0 0 0 0 0 0 0 0 0 2515.747826 779.3462214 2379.5 762 2496.737864 693.9639423 230 1138 578622 886896 956.9344064 312.0447694 232 195 20 231.6478261 196.7 15.98892912 18.73234467 0 0 0 0 0 0 0 0 0 0 -0.650773 0.650772563
2 0 1758.066667 620.8525641 1643 564.5 1627.263889 496.7485265 240 1092 421936 677971 650.3050276 346.4237032 266 190 20 265.6958333 190.8375 17.44209036 18.38125965 0 0 0 0 0 0 0 0 0 0 0 2612.972441 790.0035907 2636.5 752.5 2956.477612 725.1832884 254 1114 663695 880064 900.8365246 331.083166 269 195 20 268.3031496 195.9645669 17.29334845 19.14897418 0 0 0 0 0 0 0 0 0 0 -0.653496 0.653496221
3 0 2033.316406 652.4289568 1936.5 634.5 1976.121212 605.3009709 256 1112 520529 725501 839.1925839 367.6742141 303 189 20 302.4726563 190.4023438 17.24617923 19.75339003 0 0 0 0 0 0 0 0 0 0 0 3018.045082 817.3175313 2997 787 2975.3125 716.0909091 244 1118 736403 913761 969.1623654 344.5175625 306 194 20 305.4221311 195.6434426 16.68298188 18.88664708 0 0 0 0 0 0 0 0 0 0 -0.500517 0.500516962
4 0 2356.393443 662.6690079 2366 641 2722.893617 594.1649485 183 1139 431220 754780 795.2096595 321.3180852 340 189 20 339.6721311 189.9945355 14.02561216 17.33718984 0 0 0 0 0 0 0 0 0 0 0 3223.945274 811.5163572 3232 779 3231.6 733.4495575 201 1131 648013 917825 1223.513301 350.3127167 343 194 20 341.9850746 195.6616915 15.55740274 17.08489414 0 0 0 0 0 0 0 0 0 0 -0.587599 0.587598664
5 0 2427.344828 649.0084349 2445.5 614 2816.5 588.5104895 174 1067 422358 692492 792.4149808 366.4927863 376 190 20 376.2183908 189.5344828 14.66631267 15.72982771 0 0 0 0 0 0 0 0 0 0 0 3624.563536 828.9591643 3788 780 3904.94 671.8970588 181 1053 656046 872894 1257.39284 345.2200741 379 195 20 378.8839779 194.6132597 14.46336158 16.32057241 0 0 0 0 0 0 0 0 0 0 -0.635331 0.635330598
6 0 2476.064706 643.3756522 2485.5 601 2672.655738 505.3299233 170 1150 420931 739882 896.1701463 321.3272931 413 187 20 413.3470588 189.4 14.58031833 15.55539319 0 0 0 0 0 0 0 0 0 0 0 3735.776536 812.2662619 3873 775 4623.52 699.2716981 179 1153 668704 936543 1356.861884 336.344882 416 192 20 416.0670391 194.6312849 13.75420523 17.20143683 0 0 0 0 0 0 0 0 0 0 -0.667784 0.667783984
7 0 797.3088235 596.2017354 734 562 742.3902439 531.984127 408 922 325302 549698 405.8735589 313.61053 447.5 187.5 23 447.5 187.5 22.82757191 22.82757191 0 0 0 0 0 0 0 0 0 0 0 1059.091584 821.0238612 1004.5 801.5 1015.765306 785.6216216 404 922 427873 756984 462.9074593 329.7775617 450.5 192.5 23 450.5 192.5 22.82757191 22.82757191 0 0 0 0 0 0 0 0 0 0 -0.395403 0.395402951
8 0 826.8247734 671.2735471 768 629 772.1410256 563.5054096 331 998 273679 669931 510.8074227 377.4648085 488.5 187.5 21 488.5256798 187.5166163 20.49275007 20.61364735 0 0 0 0 0 0 0 0 0 0 0 1456.982558 783.71875 1286.5 763 1254.017241 766.7827103 172 1088 250601 852686 558.5879464 330.3806043 491.5 192.5 21 491.6744186 194.3197674 13.40404538 18.90099357 0 0 0 0 0 0 0 0 0 0 0.127093 -0.127092566
9 0 773.2891566 630.489605 749.5 601 779.1881188 591.5103627 332 962 256732 606531 418.7887232 331.9351257 523.5 184.5 21 523.5 184.5 20.58267685 20.58267685 0 0 0 0 0 0 0 0 0 0 0 1074.185976 829.6542056 992.5 783 999.4653465 664.1510989 328 963 352333 798957 545.7621032 331.9919644 526.5 189.5 21 526.5 189.5 20.58267685 20.58267685 0 0 0 0 0 0 0 0 0 0 -0.456676 0.456676476
10 0 662.1053719 585.9305857 633.5 550 647.0350877 485.028 484 922 320459 540228 311.6231156 315.3994499 558.5 185.5 25 558.5 185.5 24.85084985 24.85084985 0 0 0 0 0 0 0 0 0 0 0 945.8775934 812.8867102 929.5 783 978.2237762 721.3948598 482 918 455913 746230 338.3172839 328.1074739 561.5 190.5 25 561.4937759 190.533195 24.790842 24.81358542 0 0 0 0 0 0 0 0 0 0 -0.508619 0.508618759
11 2 700.1957364 634.6403034 638.5 600 627.5212766 523.735119 516 923 361301 585773 383.0081142 319.6165169 598 186 26 598.0116279 185.9786822 25.61110208 25.70615105 0 0 0 0 0 0 0 0 1 0 2 920.0367505 825.8710726 880 797 898.2580645 751.1962963 517 923 475659 762279 353.3535725 339.3019085 601 191 26 601 191 25.68132834 25.68132834 0 0 0 0 0 0 0 0 0 0 -0.396726 0.396726428
12 2 676.3373494 613.2886406 638 564.5 637.9569892 458.6475096 332 1074 224544 658672 342.1034254 347.4029218 636.5 184.5 21 636.5 184.5 20.58267685 20.58267685 0 0 0 0 0 0 0 0 1 0 2 964.5692771 845.3314711 920 817.5 918.3565217 703.5509642 332 1074 320237 907886 368.2608811 351.5789551 639.5 189.5 21 639.5 189.5 20.58267685 20.58267685 0 0 0 0 0 0 0 0 0 0 -0.512142 0.512141833
13 0 32797.25542 662.981756 18900 618 65352.825 574.7418398 415 877 1.36E+07 581435 27559.52219 359.1930169 673 186 20 673.1518072 185.9349398 22.35975663 23.736844 0 0 0 0 0 0 0 0 0 0 0 36533.05841 905.2418981 28043 872.5 65332.92896 828.2077562 428 864 1.56E+07 782129 26538.57079 360.9098848 676 191 20 675.6378505 191.0046729 22.72967129 24.06076844 0 0 0 0 0 0 0 0 0 0 -0.197939 0.197939378
14 0 33155.79137 709.3206459 17037 633 65378.68293 565.8674242 417 867 1.38E+07 614981 27545.32659 416.8703671 710 186 20 710.2278177 186.1534772 22.44606822 23.7331853 0 0 0 0 0 0 0 0 0 0 0 37019.32 977.644936 27592 926 65382.70492 947.5370153 425 859 1.57E+07 839797 26213.4892 667.5826395 713 191 20 712.5411765 191.1482353 22.65238439 23.97802486 0 0 0 0 0 0 0 0 0 0 -0.186096 0.186096292
15 0 32743.83099 671.7355658 16324 628 65361.84568 508.5822454 426 866 1.39E+07 581723 27557.61504 348.6123903 747 185 20 747.8896714 184.9953052 22.78878635 23.88680372 0 0 0 0 0 0 0 0 0 0 0 36544.87126 917.0630105 28182 883 65390.72283 755.1002506 435 857 1.59E+07 785923 26285.65251 357.0753438 750 190 20 750.3471264 189.7356322 22.87306153 24.30594909 0 0 0 0 0 0 0 0 0 0 -0.193942 0.193941883
16 0 29651.13909 633.9539701 9455 576 7698.79085 498.8165548 417 869 1.24E+07 550906 27519.91442 357.7741799 784 185 20 784.5371703 185.0215827 22.69538876 23.490752 0 0 0 0 0 0 0 0 0 0 0 32835.59302 915.8032787 14928 884.5 65285.5509 811.5884861 430 854 1.41E+07 782096 26837.81212 369.9558727 787 190 20 786.9581395 189.8953488 22.82635118 24.08063342 0 0 0 0 0 0 0 0 0 0 -0.185355 0.185355042
17 0 29092.90909 651.0823799 9218.5 603 7426.019231 595.750533 418 874 1.22E+07 569046 27602.26602 354.7292777 821 185 20 821.4090909 184.923445 22.5640328 23.69430145 0 0 0 0 0 0 0 0 0 0 0 32611.15222 928.3630058 14535 897 65400.15924 873.0541045 427 865 1.39E+07 803034 26632.64224 394.7811745 824 190 20 823.7728337 189.8149883 22.84424403 23.89782356 0 0 0 0 0 0 0 0 0 0 -0.188204 0.188203735
18 0 29829.83333 1237.235499 12128.5 855.5 65425.87591 893.2475248 408 862 1.22E+07 1066497 27039.83979 1855.163762 858 184 20 858.5955882 184.377451 22.43365186 23.27060912 0 0 0 0 0 0 0 0 0 0 0 32747.21445 1279.444307 16721 1025 65299.56962 1137.694132 429 808 1.40E+07 1033791 26361.73826 2091.290406 861 189 20 861.5244755 189.1328671 22.41693211 25.34397988 0 0 0 0 0 0 0 0 0 0 -0.198546 0.198545679
19 0 21312.39295 804.5145858 7188 710 6304.748899 733.905549 397 857 8461020 689469 24368.19566 955.0787501 894.5 184.5 21 894.9924433 184.2191436 22.15709874 22.91739945 0 0 0 0 0 0 0 0 0 0 0 25808.59705 1044.264463 11860 929 10953.8024 969.8401442 407 847 1.05E+07 884492 24927.44606 923.9564833 897.5 189.5 21 897.4299754 189.1744472 22.44612369 23.19371702 0 0 0 0 0 0 0 0 0 0 -0.311486 0.311485828
20 0 21536.69367 660.3358289 7234 641 6295.743363 597.8689655 395 935 8506994 617414 24525.84753 335.8670996 932.5 183.5 21 932.9670886 183.2911392 22.17216345 22.8016701 0 0 0 0 0 0 0 0 0 0 0 25891.35835 940.0405257 11982 902 11308.37059 887.2229102 413 913 1.07E+07 858257 24827.34505 365.2110757 935.5 188.5 21 935.5835351 188.1331719 22.3721232 23.61877497 0 0 0 0 0 0 0 0 0 0 -0.330889 0.330889455

Total number of rows: 7488

Table truncated, full table size 2959 Kbytes.




Supplementary data files not provided
| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap