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Sample GSM127089 Query DataSets for GSM127089
Status Public on Mar 01, 2007
Title FLIP94-508C MeJA-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 MJ 03hpi pairMean ratio Non-transformed mean expression ratio
FLIP94-508C MJ 03hpi pairBG Mean ratio Non-transformed mean background ratio
FLIP94-508C MJ 03hpi pairMedian ratio Non-transformed median expression ratio
FLIP94-508C MJ 03hpi pairBG Median ratio Non-transformed median background ratio
FLIP94-508C MJ 03hpi (control)Mean Non-transformed control channel mean
FLIP94-508C MJ 03hpi (control)BG Mean Non-transformed control channel background mean
FLIP94-508C MJ 03hpi (control)Median Non-transformed control channel median
FLIP94-508C MJ 03hpi (control)BG Median Non-transformed control channel background median
FLIP94-508C MJ 03hpiMean Non-transformed treatment channel mean
FLIP94-508C MJ 03hpiBG Mean Non-transformed treatment channel background mean
FLIP94-508C MJ 03hpiMedian Non-transformed treatment channel median
FLIP94-508C MJ 03hpiBG Median Non-transformed treatment channel background median
FLIP94-508C MJ 03hpi pairMean ratio cv Non-transformed mean expression ratio coefficient of variation
FLIP94-508C MJ 03hpi pairBG Mean ratio cv Non-transformed mean background ratio coefficient of variation
FLIP94-508C MJ 03hpi pairMedian ratio cv Non-transformed median expression ratio coefficient of variation
FLIP94-508C MJ 03hpi pairBG Median ratio cv Non-transformed median background ratio coefficient of variation
FLIP94-508C MJ 03hpi (control)Mean cv Non-transformed control channel mean coefficient of variation
FLIP94-508C MJ 03hpi (control)BG Mean cv Non-transformed control channel background mean coefficient of variation
FLIP94-508C MJ 03hpi (control)Median cv Non-transformed control channel median coefficient of variation
FLIP94-508C MJ 03hpi (control)BG Median cv Non-transformed control channel background median coefficient of variation
FLIP94-508C MJ 03hpiMean cv Non-transformed treatment channel mean coefficient of variation
FLIP94-508C MJ 03hpiBG Mean cv Non-transformed treatment channel background mean coefficient of variation
FLIP94-508C MJ 03hpiMedian cv Non-transformed treatment channel median coefficient of variation
FLIP94-508C MJ 03hpiBG Median cv Non-transformed treatment channel background median coefficient of variation

Data table
ID_REF VALUE FLAG FLIP94-508C MJ 03hpi pairMean ratio FLIP94-508C MJ 03hpi pairBG Mean ratio FLIP94-508C MJ 03hpi pairMedian ratio FLIP94-508C MJ 03hpi pairBG Median ratio FLIP94-508C MJ 03hpi (control)Mean FLIP94-508C MJ 03hpi (control)BG Mean FLIP94-508C MJ 03hpi (control)Median FLIP94-508C MJ 03hpi (control)BG Median FLIP94-508C MJ 03hpiMean FLIP94-508C MJ 03hpiBG Mean FLIP94-508C MJ 03hpiMedian FLIP94-508C MJ 03hpiBG Median FLIP94-508C MJ 03hpi pairMean ratio cv FLIP94-508C MJ 03hpi pairBG Mean ratio cv FLIP94-508C MJ 03hpi pairMedian ratio cv FLIP94-508C MJ 03hpi pairBG Median ratio cv FLIP94-508C MJ 03hpi (control)Mean cv FLIP94-508C MJ 03hpi (control)BG Mean cv FLIP94-508C MJ 03hpi (control)Median cv FLIP94-508C MJ 03hpi (control)BG Median cv FLIP94-508C MJ 03hpiMean cv FLIP94-508C MJ 03hpiBG Mean cv FLIP94-508C MJ 03hpiMedian cv FLIP94-508C MJ 03hpiBG Median cv
Blank1 1 1.6009 1.8037 1.6877 1.9225 2936.5412 2597.475 2795.7222 2485.5 2985.675 2629.8415 2919.6389 2496.3889 0.669 0.6803 0.6829 0.7111 0.5911 0.6941 0.6058 0.7259 0.4077 0.4585 0.4267 0.5075
Blank2 1 1.5815 1.7206 1.701 1.8453 2889.0371 2507.743 2757.4167 2423.1389 2770.6519 2435.443 2631.3333 2358.1944 0.6722 0.6875 0.7029 0.7108 0.6415 0.6807 0.6806 0.716 0.457 0.5233 0.4987 0.5445
Blank3 1 1.6625 1.7201 1.7587 1.8192 2850.4968 2586.5484 2765.3333 2509.3889 2847.9994 2556.7152 2769.9722 2482.8333 0.6846 0.7159 0.7174 0.7355 0.6339 0.6422 0.6602 0.675 0.4638 0.5045 0.4883 0.526
Blank4 1 1.6428 1.711 1.7422 1.8277 2806.116 2617.2238 2722.8056 2524.25 2771.4502 2514.4499 2724.9444 2446.9167 0.7213 0.7517 0.7527 0.7896 0.6118 0.6471 0.631 0.6724 0.534 0.5119 0.5481 0.5357
CA0009 -0.0902 0 0.8722 1.6065 0.8209 1.8164 51204.3584 2919.4369 60584.1667 2683 45257.151 2745.1567 50746.4722 2580.8333 0.133 0.6788 0.2123 0.7134 0.1502 0.6615 0.1437 0.714 0.2472 0.49 0.3066 0.5003
CA0011 NORMCON2 0.0867 0 0.9921 1.4049 1 1.546 58248.5618 3299.5497 65535 2986.75 57759.9968 3214.3286 65535 3051.5 0.0297 0.6489 0 0.6623 0.0278 0.5123 0 0.549 0.0227 0.4642 0 0.4857
CA0014 0.1851 0 0.9371 1.5704 0.9531 1.6839 16611.2034 2968.0827 16785.3611 2827.4167 12923.3288 2791.9681 12699.1944 2687.1111 0.449 0.6931 0.4699 0.7176 0.4168 0.6198 0.4863 0.6529 0.2087 0.5034 0.1946 0.5238
CA0015 -0.1437 0 0.8919 1.7065 0.9146 1.7866 27343.3486 2785.0236 30252.5556 2587.6944 17863.923 2604.3494 18505.6111 2508.7222 0.3912 0.684 0.4226 0.6951 0.7484 0.7137 0.8498 0.7067 0.284 0.4798 0.3363 0.5052
CA0018 NORMCON3 -0.3358 0 0.7101 1.6186 0.7124 1.7336 11561.5913 2868.5 11929.7222 2730.6667 5390.4784 2571.5229 5307.1667 2491.9444 0.5028 0.7285 0.5223 0.7537 0.7447 0.6635 0.784 0.6827 0.1546 0.5148 0.149 0.5363
CA0020 NORMCON4 0.0578 0 0.9701 1.5007 1 1.6047 56173.3743 2914.438 65535 2767 54444.1546 2795.5243 65535 2691.6667 0.0492 0.6762 0 0.6981 0.0216 0.5705 0 0.6044 0.0328 0.5036 0 0.5283
CA0021 0.0536 0 0.9656 1.5321 1 1.6694 56071.0514 2966.3124 65535 2806.2222 54130.8968 2801.0223 65535 2697.2778 0.0185 0.7048 0 0.726 0.0237 0.5839 0 0.6309 0.0226 0.5118 0 0.5337
CA0030 0.0638 0 0.9751 1.7298 0.9759 1.8755 52197.938 2699.6638 65078.9722 2541.7222 50715.2473 2595.2026 63559.1389 2469.9722 0.0757 0.7065 0.0703 0.7214 0.0777 0.6829 0.0174 0.7249 0.0623 0.494 0.081 0.5163
CA0032 0.0542 0 0.9378 1.5276 0.9513 1.6693 48746.8272 2954.9657 57835.1111 2776.6389 45560.9924 2709.6977 55794.25 2586.25 0.0863 0.7021 0.0965 0.7265 0.1492 0.6123 0.1849 0.6588 0.1397 0.4961 0.2455 0.5211
CA0036 -0.088 0 0.8379 1.1377 0.8071 1.2707 50163.0671 3544.4204 60786.2778 3257.25 42416.6381 2891.2049 49875.3056 2753.4722 0.1318 0.6563 0.2035 0.6875 0.1217 0.4747 0.1407 0.5311 0.2108 0.5473 0.2936 0.5588
CA0043 -0.2983 0 0.7245 1.6305 0.7138 1.7026 33633.1242 2916.4087 36726.6944 2760.8611 24468.0556 2774.9321 26463.1944 2675.3611 0.1267 0.7164 0.1357 0.7382 0.486 0.6379 0.5774 0.6361 0.5301 0.4982 0.6362 0.5318
CA0049 -0.1683 0 0.7985 1.1708 0.7834 1.2911 50136.0829 3456.3183 59738.25 3204.0278 40745.6814 2836.3028 47972.5 2708.4444 0.1533 0.6497 0.2284 0.6879 0.1376 0.5023 0.1535 0.5495 0.262 0.5241 0.3349 0.541
CA0106 -0.0682 0 0.9326 1.6224 0.933 1.7295 10448.6734 2923.0468 10441.9722 2794.8611 8271.4224 2817.1709 8206.75 2729.7778 0.3387 0.7212 0.343 0.7432 0.4914 0.6121 0.5083 0.6384 0.1754 0.5181 0.1845 0.5455
CA0108 -0.004 0 0.8507 1.2158 0.8479 1.3507 47344.0217 3336.2911 55965.4167 3071.1389 40577.9693 2778.9515 48468.6389 2635.9722 0.1127 0.6472 0.1682 0.6721 0.1818 0.5386 0.2452 0.5895 0.2286 0.5224 0.3507 0.5317
CA0112 -0.0891 0 0.7534 1.3339 0.7401 1.4027 23171.4024 3237.9632 24533.8333 3016.5 16646.7939 2864.7198 17472.3889 2695.5556 0.1464 0.6435 0.1351 0.6703 0.4062 0.5639 0.4046 0.5828 0.2811 0.4851 0.3061 0.5244
CA0178 -0.1567 0 0.8491 1.4616 0.8331 1.618 54469.9561 3153.7754 64891.5 2838.1389 46390.9232 2979.5337 54246.7778 2799.6389 0.1358 0.6697 0.1935 0.6881 0.0752 0.5715 0.0387 0.6088 0.17 0.4917 0.2082 0.5263

Total number of rows: 727

Table truncated, full table size 144 Kbytes.




Supplementary file Size Download File type/resource
GSM127089 FLIP94-508C 03h MeJA control (cy3) rep1 TXT.txt.gz 597.3 Kb (ftp)(http) TXT
GSM127089 FLIP94-508C 03h MeJA control (cy5) rep2 TXT.txt.gz 591.7 Kb (ftp)(http) TXT
GSM127089 FLIP94-508C 03h MeJA control (cy5) rep3 TXT.txt.gz 588.7 Kb (ftp)(http) TXT
GSM127089 FLIP94-508C 03h MeJA treated (cy3) rep2 TXT.txt.gz 597.1 Kb (ftp)(http) TXT
GSM127089 FLIP94-508C 03h MeJA treated (cy3) rep3 TXT.txt.gz 591.3 Kb (ftp)(http) TXT
GSM127089 FLIP94-508C 03h MeJA treated (cy5) rep1 TXT.txt.gz 589.0 Kb (ftp)(http) TXT

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