NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM127101 Query DataSets for GSM127101
Status Public on Mar 01, 2007
Title Lasseter MeJA-treated 27 hpt
Sample type RNA
 
Channel 1
Source name Control
Organism Cicer arietinum
Characteristics Genotype: Lasseter
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: Lasseter
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
Lasseter MJ 27hpi pairMean ratio Non-transformed mean expression ratio
Lasseter MJ 27hpi pairBG Mean ratio Non-transformed mean background ratio
Lasseter MJ 27hpi pairMedian ratio Non-transformed median expression ratio
Lasseter MJ 27hpi pairBG Median ratio Non-transformed median background ratio
Lasseter MJ 27hpi (control)Mean Non-transformed control channel mean
Lasseter MJ 27hpi (control)BG Mean Non-transformed control channel background mean
Lasseter MJ 27hpi (control)Median Non-transformed control channel median
Lasseter MJ 27hpi (control)BG Median Non-transformed control channel background median
Lasseter MJ 27hpiMean Non-transformed treatment channel mean
Lasseter MJ 27hpiBG Mean Non-transformed treatment channel background mean
Lasseter MJ 27hpiMedian Non-transformed treatment channel median
Lasseter MJ 27hpiBG Median Non-transformed treatment channel background median
Lasseter MJ 27hpi pairMean ratio cv Non-transformed mean expression ratio coefficient of variation
Lasseter MJ 27hpi pairBG Mean ratio cv Non-transformed mean background ratio coefficient of variation
Lasseter MJ 27hpi pairMedian ratio cv Non-transformed median expression ratio coefficient of variation
Lasseter MJ 27hpi pairBG Median ratio cv Non-transformed median background ratio coefficient of variation
Lasseter MJ 27hpi (control)Mean cv Non-transformed control channel mean coefficient of variation
Lasseter MJ 27hpi (control)BG Mean cv Non-transformed control channel background mean coefficient of variation
Lasseter MJ 27hpi (control)Median cv Non-transformed control channel median coefficient of variation
Lasseter MJ 27hpi (control)BG Median cv Non-transformed control channel background median coefficient of variation
Lasseter MJ 27hpiMean cv Non-transformed treatment channel mean coefficient of variation
Lasseter MJ 27hpiBG Mean cv Non-transformed treatment channel background mean coefficient of variation
Lasseter MJ 27hpiMedian cv Non-transformed treatment channel median coefficient of variation
Lasseter MJ 27hpiBG Median cv Non-transformed treatment channel background median coefficient of variation

Data table
ID_REF VALUE FLAG Lasseter MJ 27hpi pairMean ratio Lasseter MJ 27hpi pairBG Mean ratio Lasseter MJ 27hpi pairMedian ratio Lasseter MJ 27hpi pairBG Median ratio Lasseter MJ 27hpi (control)Mean Lasseter MJ 27hpi (control)BG Mean Lasseter MJ 27hpi (control)Median Lasseter MJ 27hpi (control)BG Median Lasseter MJ 27hpiMean Lasseter MJ 27hpiBG Mean Lasseter MJ 27hpiMedian Lasseter MJ 27hpiBG Median Lasseter MJ 27hpi pairMean ratio cv Lasseter MJ 27hpi pairBG Mean ratio cv Lasseter MJ 27hpi pairMedian ratio cv Lasseter MJ 27hpi pairBG Median ratio cv Lasseter MJ 27hpi (control)Mean cv Lasseter MJ 27hpi (control)BG Mean cv Lasseter MJ 27hpi (control)Median cv Lasseter MJ 27hpi (control)BG Median cv Lasseter MJ 27hpiMean cv Lasseter MJ 27hpiBG Mean cv Lasseter MJ 27hpiMedian cv Lasseter MJ 27hpiBG Median cv
Blank1 1 1.3993 1.4507 1.4208 1.5392 3111.4082 2856.7119 3006.75 2764.25 3020.9732 2373.4345 2919.3611 2323.8611 0.5548 0.7024 0.5746 0.7188 0.6393 0.6823 0.6435 0.7101 0.1515 0.3903 0.1537 0.4136
Blank2 1 1.4439 1.6118 1.5247 1.6816 3092.1222 2769.9802 3004.3056 2687.4167 2477.9778 2311.1223 2398.5833 2249.5278 0.8042 0.7829 0.7892 0.7762 0.6518 0.7165 0.703 0.7434 0.4094 0.4419 0.4348 0.462
Blank3 1 1.4504 1.5137 1.5095 1.5827 3168.5249 2712.3112 3035.8056 2615.8611 2655.7822 2278.71 2552.3333 2204.8889 0.7382 0.6964 0.7778 0.7082 0.7202 0.7263 0.7279 0.7476 0.1763 0.3274 0.2064 0.3572
Blank4 1 1.5287 1.569 1.6739 1.6398 3138.9455 2651.9655 3013.75 2579.1667 2548.6183 2207.3658 2472.9444 2136.6389 0.7839 0.7552 0.8748 0.776 0.7309 0.7137 0.7537 0.734 0.2942 0.3855 0.314 0.4201
CA0009 -0.221 0 0.6209 1.3824 0.5763 1.5523 48293.6053 3585.984 56821.9444 3109.9722 31586.5392 2591.2368 33792.2778 2464.6667 0.2994 0.687 0.4747 0.7034 0.2764 0.8217 0.2824 0.7934 0.5229 0.3108 0.622 0.3463
CA0011 NORMCON2 0.1113 0 0.9683 1.0175 1 1.1317 58840.5391 4605.6288 65535 4057.9722 56965.0627 3267.9402 65535 2994.75 0.0176 0.5915 0 0.6093 0.0279 0.6027 0 0.6551 0.025 0.3206 0 0.3228
CA0014 -0.1294 0 0.6161 1.3958 0.6032 1.4797 23295.508 3260.4449 24089.3889 3075.5556 14417.9256 2618.9011 14598.1389 2487.5 0.2306 0.6682 0.242 0.6929 0.1223 0.7452 0.1307 0.7692 0.2767 0.2439 0.2881 0.2697
CA0015 -0.0748 0 0.6356 1.4371 0.6304 1.532 32824.6843 3084.5808 35818.6389 2891.3056 20405.9061 2466.0445 21795.3333 2349.6667 0.1479 0.6819 0.1796 0.6929 0.2746 0.7249 0.3152 0.7532 0.2243 0.3743 0.2419 0.4026
CA0018 NORMCON3 -0.2025 0 0.6682 1.459 0.6565 1.5328 9137.7195 2951.3636 9067.1944 2863.5833 6034.7599 2437.8555 5887.9167 2372.2222 0.3719 0.7026 0.3865 0.7206 0.1504 0.6848 0.1538 0.7124 0.3512 0.4266 0.3676 0.4409
CA0020 NORMCON4 0.1296 0 0.9719 1.3875 1 1.49 56575.4763 3068.1499 65535 2854.9167 54968.0833 2522.4531 65535 2385.5833 0.0293 0.6629 0 0.6851 0.0181 0.6891 0 0.7223 0.0245 0.323 0 0.3552
CA0021 0.0788 0 0.9377 1.377 0.9802 1.4819 55940.4716 2977.6934 65535 2821.2222 52485.8077 2436.6111 64234.5556 2311.1667 0.0638 0.6791 0.0859 0.7105 0.023 0.6881 0 0.7242 0.0739 0.3325 0.0859 0.3584
CA0030 0.1685 0 0.9346 1.3525 0.986 1.5303 52102.3673 2935.5353 62561.0833 2717.8611 48899.074 2393.37 62172.5 2259.5 0.063 0.6751 0.045 0.6976 0.1987 0.6422 0.2017 0.7145 0.2019 0.4473 0.2107 0.4654
CA0032 -0.3445 0 0.6274 1.2655 0.5458 1.4556 54951.8127 3028.74 65535 2769.9722 34594.139 2382.7594 35768.0278 2289.6944 0.1634 0.712 0.2765 0.7475 0.052 0.6068 0 0.6592 0.1846 0.3495 0.2765 0.3789
CA0036 -0.1602 0 0.728 0.9644 0.7108 1.0755 53810.3276 4183.2981 64529.6944 3796.8889 39070.9818 3241.3122 46198.9444 3091.0278 0.2615 0.6402 0.361 0.6636 0.0747 0.3451 0.0618 0.399 0.2585 0.4418 0.3763 0.4603
CA0043 -0.2221 0 0.5399 1.4025 0.5329 1.4808 29811.9098 3463.2018 31889.4444 3196.1111 16230.6031 2604.475 17256.1389 2484.6667 0.2575 0.7059 0.2874 0.7246 0.3594 0.7611 0.3945 0.7539 0.4681 0.3362 0.5155 0.3751
CA0049 -0.216 0 0.6808 1.0036 0.6832 1.1207 53719.1511 4271.1239 63898.5 3856.8333 36843.5994 3368.9177 44152.9167 3204.1111 0.3326 0.6008 0.4232 0.6286 0.1046 0.3985 0.1035 0.4525 0.3556 0.333 0.4481 0.3739
CA0106 0.0163 0 0.8353 1.4044 0.8291 1.4826 10036.283 3457.8936 9851.6111 3354.5278 7853.7915 2790.4904 7695.1111 2705.5 0.2294 0.6732 0.2128 0.6991 0.3504 0.7732 0.3419 0.8096 0.1878 0.407 0.1893 0.44
CA0108 -0.515 0 0.5364 1.0799 0.4396 1.1968 51779.7123 4008.7184 62755.9444 3668.9722 27992.6145 3179.1664 27740.8611 3067.1389 0.2875 0.6297 0.3895 0.6561 0.087 0.4651 0.1177 0.5041 0.3221 0.3535 0.4197 0.3773
CA0112 0.3077 0 0.8998 1.2633 0.8997 1.3234 17240.5067 3557.7606 18073.4722 3364.1944 15266.5697 2993.5385 15896.5556 2818.6389 0.1934 0.6438 0.2208 0.6794 0.1758 0.5705 0.204 0.5939 0.1777 0.3081 0.1957 0.3701
CA0178 -0.1081 0 0.6466 1.2785 0.6547 1.4211 50402.6609 5094.5825 58580.2222 4396.8889 33612.2009 3329.0893 39378.7778 3075.3333 0.3162 0.6624 0.4054 0.6727 0.1697 1.0251 0.1541 1.0474 0.4458 0.427 0.4937 0.4366

Total number of rows: 727

Table truncated, full table size 144 Kbytes.




Supplementary file Size Download File type/resource
GSM127101 Lasseter 27h MeJA control (cy3) rep1 TXT.txt.gz 597.3 Kb (ftp)(http) TXT
GSM127101 Lasseter 27h MeJA control (cy5) rep2 TXT.txt.gz 591.1 Kb (ftp)(http) TXT
GSM127101 Lasseter 27h MeJA control (cy5) rep3 TXT.txt.gz 591.6 Kb (ftp)(http) TXT
GSM127101 Lasseter 27h MeJA treated (cy3) rep2 TXT.txt.gz 597.1 Kb (ftp)(http) TXT
GSM127101 Lasseter 27h MeJA treated (cy3) rep3 TXT.txt.gz 591.8 Kb (ftp)(http) TXT
GSM127101 Lasseter 27h MeJA treated (cy5) rep1 TXT.txt.gz 592.9 Kb (ftp)(http) TXT

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap