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Sample GSM127013 Query DataSets for GSM127013
Status Public on Mar 01, 2007
Title FLIP94-508C ACC-treated 03 hpt
Sample type RNA
 
Channel 1
Source name Control
Organism Cicer arietinum
Characteristics Genotype: FLIP94-508C
Age: 14 days (seedling)
Tissue: Shoot (stem and leaf)
Treatment protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
Growth protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
Extracted molecule total RNA
Extraction protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
Label Cy3/Cy5
Label protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
 
Channel 2
Source name Treatment
Organism Cicer arietinum
Characteristics Genotype: FLIP94-508C
Age: 14 days (seedling)
Tissue: Shoot (stem and leaf)
Treatment protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
Growth protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
Extracted molecule total RNA
Extraction protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
Label Cy3/Cy5
Label protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
 
 
Hybridization protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
Scan protocol See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
Description The data submitted represents the mean data from three biological replications that inlcuded dye swaps between control and treatment samples
Data processing See Coram, TE. and Pang, ECK. 2006. Expression profiling of Chickpea genes differentially regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid to reveal pathways of defence-related gene regulation. Plant Biotechnology Journal. Submitted
 
Submission date Aug 11, 2006
Last update date Mar 01, 2007
Contact name Tristan Coram
E-mail(s) tristan.coram@ars.usda.gov
Organization name USDA-ARS, NC State University
Street address 4118 Williams Hall, NC State University
City Raleigh
State/province NC
ZIP/Postal code 27695
Country USA
 
Platform ID GPL4079
Series (1)
GSE5512 Chickpea genes regulated by salicylic acid, methyl jasmonate, and aminocyclopropane carboxylic acid

Data table header descriptions
ID_REF
VALUE Log (base 2) transformed mean expression ratio of treatment/control
FLAG Quality control where 0 indicates a good spot and 1 is a bad spot
FLIP94-508C ET 03hpi pairMean ratio Non-transformed mean expression ratio
FLIP94-508C ET 03hpi pairBG Mean ratio Non-transformed mean background ratio
FLIP94-508C ET 03hpi pairMedian ratio Non-transformed median expression ratio
FLIP94-508C ET 03hpi pairBG Median ratio Non-transformed median background ratio
FLIP94-508C ET 03hpi (control)Mean Non-transformed control channel mean
FLIP94-508C ET 03hpi (control)BG Mean Non-transformed control channel background mean
FLIP94-508C ET 03hpi (control)Median Non-transformed control channel median
FLIP94-508C ET 03hpi (control)BG Median Non-transformed control channel background median
FLIP94-508C ET 03hpiMean Non-transformed treatment channel mean
FLIP94-508C ET 03hpiBG Mean Non-transformed treatment channel background mean
FLIP94-508C ET 03hpiMedian Non-transformed treatment channel median
FLIP94-508C ET 03hpiBG Median Non-transformed treatment channel background median
FLIP94-508C ET 03hpi pairMean ratio cv Non-transformed mean expression ratio coefficient of variation
FLIP94-508C ET 03hpi pairBG Mean ratio cv Non-transformed mean background ratio coefficient of variation
FLIP94-508C ET 03hpi pairMedian ratio cv Non-transformed median expression ratio coefficient of variation
FLIP94-508C ET 03hpi pairBG Median ratio cv Non-transformed median background ratio coefficient of variation
FLIP94-508C ET 03hpi (control)Mean cv Non-transformed control channel mean coefficient of variation
FLIP94-508C ET 03hpi (control)BG Mean cv Non-transformed control channel background mean coefficient of variation
FLIP94-508C ET 03hpi (control)Median cv Non-transformed control channel median coefficient of variation
FLIP94-508C ET 03hpi (control)BG Median cv Non-transformed control channel background median coefficient of variation
FLIP94-508C ET 03hpiMean cv Non-transformed treatment channel mean coefficient of variation
FLIP94-508C ET 03hpiBG Mean cv Non-transformed treatment channel background mean coefficient of variation
FLIP94-508C ET 03hpiMedian cv Non-transformed treatment channel median coefficient of variation
FLIP94-508C ET 03hpiBG Median cv Non-transformed treatment channel background median coefficient of variation

Data table
ID_REF VALUE FLAG FLIP94-508C ET 03hpi pairMean ratio FLIP94-508C ET 03hpi pairBG Mean ratio FLIP94-508C ET 03hpi pairMedian ratio FLIP94-508C ET 03hpi pairBG Median ratio FLIP94-508C ET 03hpi (control)Mean FLIP94-508C ET 03hpi (control)BG Mean FLIP94-508C ET 03hpi (control)Median FLIP94-508C ET 03hpi (control)BG Median FLIP94-508C ET 03hpiMean FLIP94-508C ET 03hpiBG Mean FLIP94-508C ET 03hpiMedian FLIP94-508C ET 03hpiBG Median FLIP94-508C ET 03hpi pairMean ratio cv FLIP94-508C ET 03hpi pairBG Mean ratio cv FLIP94-508C ET 03hpi pairMedian ratio cv FLIP94-508C ET 03hpi pairBG Median ratio cv FLIP94-508C ET 03hpi (control)Mean cv FLIP94-508C ET 03hpi (control)BG Mean cv FLIP94-508C ET 03hpi (control)Median cv FLIP94-508C ET 03hpi (control)BG Median cv FLIP94-508C ET 03hpiMean cv FLIP94-508C ET 03hpiBG Mean cv FLIP94-508C ET 03hpiMedian cv FLIP94-508C ET 03hpiBG Median cv
Blank1 1 1.3657 1.3704 1.4196 1.3953 640.9299 496.9972 540.75 454.7222 806.223 609.7258 746.3333 566.4722 0.3127 0.2653 0.2749 0.269 0.9219 0.9246 0.9627 0.9091 0.9903 0.8918 1.0042 0.8708
Blank2 1 1.327 1.3387 1.3524 1.3479 582.2821 506.8991 535.0833 476.3889 700.824 569.03 621.5 530.4167 0.3297 0.3052 0.2988 0.3079 0.976 0.9547 1.0189 0.9559 0.9665 0.8546 0.9102 0.8352
Blank3 1 1.3288 1.315 1.3225 1.3262 675.0337 578.2967 627.1944 530.8611 692.7215 563.6402 638.0278 522.7778 0.3684 0.3819 0.3686 0.3706 1.0143 0.9711 1.009 0.9636 0.9616 0.8212 0.9504 0.7998
Blank4 1 1.3013 1.3256 1.3623 1.3427 630.4982 526.2307 571.8056 485.7778 681.5552 528.7516 624.4722 490.5278 0.3483 0.3598 0.3403 0.3724 0.9286 0.9308 0.9711 0.918 0.8957 0.7564 0.896 0.7385
CA0009 0.4349 0 1.9262 1.5355 2.0543 1.4135 18502.9893 582.7009 22547.2222 509.75 20307.1827 902.9358 23628.6944 664.2222 0.3786 0.4279 0.4152 0.2793 1.3718 1.0035 1.3874 0.9525 1.2806 1.2667 1.2915 0.9855
CA0011 NORMCON2 0.0087 0 0.9613 1.3318 1.0062 1.3548 48961.6492 672.4311 65168.1111 600.8889 47093.9629 722.7097 65535 660.1389 0.0682 0.3005 0.0246 0.3001 0.1037 0.9794 0.0225 0.9634 0.1318 0.8365 0 0.8249
CA0014 -1.2288 0 1.2281 1.4956 1.2841 1.4447 7283.1453 612.7095 7316.2778 555.5278 5952.1816 870.2325 6179.1667 704.8056 0.3082 0.284 0.3084 0.2844 1.3245 0.9932 1.3315 0.9742 1.2063 1.0625 1.2152 0.9647
CA0015 -1.1709 0 1.1482 1.565 1.1612 1.4533 12501.8733 613.6498 14216.1111 544.1667 5921.6602 981.6218 5872 738.9444 0.4919 0.5423 0.5322 0.325 1.3661 1.0132 1.3864 0.9835 1.1243 1.3651 1.1053 1.0545
CA0018 NORMCON3 -2.3308 0 0.9304 1.3128 0.9264 1.3572 4156.2711 544.2647 4296.8889 491.0278 2065.4954 624.9245 2015.1944 584.3333 0.442 0.2729 0.4654 0.2729 1.2673 0.9487 1.2762 0.9271 1.0298 0.8981 1.0247 0.8768
CA0020 NORMCON4 -0.2815 0 0.977 1.0914 1.0229 1.186 44944.0907 3362.8705 52005.9167 1130.2778 42053.61 638.0999 52485.25 566.1667 0.1444 0.6416 0.0697 0.5106 0.3817 1.8107 0.3196 1.6286 0.291 0.8054 0.2893 0.7962
CA0021 1.0834 0 2.8073 2.0444 2.8953 1.4232 21703.1571 694.7345 25788.75 584.8056 33488.6115 1701.3413 36652.75 701.9444 0.4542 0.6435 0.5014 0.3084 1.1007 1.043 1.1267 0.9836 0.6784 1.476 0.645 0.9609
CA0030 -1.3908 0 1.1208 1.4219 1.1086 1.4153 20734.1478 562.9953 24912.0556 499.8333 22295.6278 756.8323 25288.5 649.0833 0.1371 0.2624 0.1498 0.2451 1.1601 0.9743 1.1889 0.9453 1.1542 1.0191 1.1608 0.9276
CA0032 -1.2885 0 0.9414 1.3215 0.9181 1.3536 18832.6516 779.9792 23405.4167 573.4722 19586.6333 773.1885 22345.9722 606.8333 0.1644 0.3707 0.1487 0.3369 1.2859 1.1613 1.3107 0.9815 1.3132 1.0715 1.3317 0.8703
CA0036 0.1862 0 1.7115 1.264 1.9286 1.2899 18851.3774 720.9012 22715.2778 644.1944 18628.2585 676.4408 23899.4444 631.5833 0.4009 0.3898 0.4178 0.3778 1.3532 1.0475 1.3717 1.0125 1.2419 0.9262 1.2678 0.912
CA0043 0.1193 0 1.61 1.3689 1.6822 1.3918 9238.4418 568.5317 10130 511.75 6424.9245 689.7016 6780.9167 627.8333 0.4815 0.2544 0.5067 0.2587 1.4173 0.9693 1.4323 0.9536 1.2286 0.9286 1.2512 0.8966
CA0049 -0.7367 0 1.2022 1.3154 1.2612 1.3152 19381.0575 718.2526 22830.6389 651.0278 16179.1113 761.7164 19539.7778 674.5 0.3003 0.3423 0.3101 0.3433 1.3424 1.0434 1.3612 1.0267 1.2774 0.9639 1.3046 0.9153
CA0106 -0.6406 0 1.9786 1.3126 2.0785 1.3619 3995.5166 596.7791 3972.6667 543.0556 2480.733 669.6218 2425.2778 620.6111 0.6018 0.2723 0.6128 0.2874 1.3777 0.9847 1.3829 0.975 1.091 0.9121 1.0878 0.8892
CA0108 -1.2957 0 0.8807 1.3019 0.8707 1.318 18633.3747 693.2421 22550.25 613.9722 10584.1972 729.9046 11812.8333 646.75 0.3243 0.3269 0.3446 0.3345 1.3756 1.0272 1.3871 0.9931 1.315 0.9295 1.3312 0.8813
CA0112 0.8382 0 2.1462 1.3666 2.2259 1.3571 8420.1796 660.2986 9152.3889 592.8889 7257.8147 780.4113 7726.0833 673.1667 0.5684 0.2858 0.579 0.3072 1.373 1.0111 1.387 0.9846 1.1759 0.9909 1.1912 0.9206
CA0178 0.2066 0 1.6675 1.3679 1.6873 1.3231 18260.5082 649.564 22770.1667 583.75 18773.2757 788.5518 21588.3056 640.5 0.3613 0.2696 0.391 0.2864 1.292 1.0051 1.3206 0.9893 1.1647 1.0128 1.1903 0.8975

Total number of rows: 727

Table truncated, full table size 141 Kbytes.




Supplementary file Size Download File type/resource
GSM127013 FLIP94-508C 03h ACC control (cy3) rep1 TXT.txt.gz 599.4 Kb (ftp)(http) TXT
GSM127013 FLIP94-508C 03h ACC control (cy5) rep2 TXT.txt.gz 559.3 Kb (ftp)(http) TXT
GSM127013 FLIP94-508C 03h ACC control (cy5) rep3 TXT.txt.gz 556.5 Kb (ftp)(http) TXT
GSM127013 FLIP94-508C 03h ACC treated (cy3) rep2 TXT.txt.gz 575.6 Kb (ftp)(http) TXT
GSM127013 FLIP94-508C 03h ACC treated (cy3) rep3 TXT.txt.gz 579.5 Kb (ftp)(http) TXT
GSM127013 FLIP94-508C 03h ACC treated (cy5) rep1 TXT.txt.gz 587.6 Kb (ftp)(http) TXT

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