Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.14.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68097	0.038
27DAP/17DAP	0.8912	0.661
39DAP/27DAP	1.6393	0.13
41DAP/39DAP	0.50378	0.041
42DAP/41DAP	0.78882	0.774
43DAP/42DAP	1.02674	0.937
47DAP/43DAP	0.44877	0.049
52DAP/47DAP	1.21651	0.593
57DAP/52DAP	1.45259	0.771

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.91193	0.008
17DAP/reference	0.99487	0.597
27DAP/reference	0.64307	0.013
39DAP/reference	0.68763	0.068
41DAP/reference	0.79473	0.085
42DAP/reference	1.1645	0.011
43DAP/reference	0.75202	0.026
47DAP/reference	0.78844	0.002
52DAP/reference	0.47605	0.013
57DAP/reference	0.56947	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86329	0.096
27DAP/17DAP	1.07234	0.761
39DAP/27DAP	0.79898	0.041
41DAP/39DAP	1.24409	1
42DAP/41DAP	1.01627	0.925
43DAP/42DAP	0.89549	0.165
47DAP/43DAP	0.92851	0.489
52DAP/47DAP	0.57387	0.054
57DAP/52DAP	0.90221	0.546
57DAP/7DAP	0.22873	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.25314	0.024
17DAP/reference	2.28914	0.006
27DAP/reference	1.46057	0.014
39DAP/reference	1.20652	0.046
41DAP/reference	1.57629	0.011
42DAP/reference	1.42972	0.013
43DAP/reference	1.23413	0.14
47DAP/reference	1.12089	0.324
52DAP/reference	1.17832	0.459
57DAP/reference	0.92607	0.191

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33887	0.265
17DAP/reference	1.6731	0.009
27DAP/reference	1.76877	0.025
39DAP/reference	0.94716	0.306
41DAP/reference	1.35085	0.016
42DAP/reference	1.55186	0.036
43DAP/reference	0.88017	0.263
47DAP/reference	1.10001	0.556
52DAP/reference	0.53861	0.004
57DAP/reference	0.68031	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.25861	0.015
17DAP/reference	1.48443	0.215
27DAP/reference	1.4184	0.03
39DAP/reference	1.4136	0.015
41DAP/reference	1.01846	0.84
42DAP/reference	1.07306	0.459
43DAP/reference	1.17247	0.349
47DAP/reference	0.43178	0.005
52DAP/reference	0.99031	0.838
57DAP/reference	0.93538	0.359

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14192	0.966
26DAP/20DAP	4.52007	0.097
34DAP/26DAP	0.70394	0.148
51DAP/34DAP	0.85318	0.281
52DAP/51DAP	1.04217	0.965
53DAP/52DAP	0.82319	0.371
55DAP/53DAP	0.71341	0.031
57DAP/55DAP	1.10901	0.826
62DAP/57DAP	1.05452	1
68DAP/62DAP	0.86517	0.505
68DAP/14DAP	0.71867	0.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.1492	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95852	0.673
Mature Green Tomato/Ripe Tomato	2.2972	0.019
Immature Eggplant/Mature Eggplant	0.93646	0.366
Ripe Pepper/Ripe Tomato	1.06262	1
Mature Eggplant/Ripe Tomato	1.66872	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89377	0.883
1-1-2/M82	1.16882	1
12-2/M82	0.66483	0.639
12-4/M82	1.08633	1
1-3/M82	1.33734	0.479
2-1-1/M82	1.00128	1
2-1/M82	1.36692	1
2-6/M82	1.25215	0.395
3-2/M82	1.01224	1
4-1-1/M82	1.67271	0.998
4-1/M82	0.86877
4-3-2/M82	2.10526	0.253
4-3/M82	1.65644	0.268
5-3/M82	1.26694	0.572
6-2/M82	2.05851	0.253
6-3/M82	0.94298	1
7-1/M82	1.11657	0.925
7-2/M82	1.39648	0.302
9-3-2/M82	1.6737	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.26666	0.277
IL2-6/WTpooled	0.9541	1
IL7-5/WTpooled	1.12459	0.792
IL7-3/WTpooled	1.52201	0.362
IL12-4/WTpooled	1.38799	0.646
IL1-4/WTpooled	1.05861	1
WT/WTpooled	1.01475	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.00121	1

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95803
DC3000/delta hrp 6h	1.02971	1
DC3000/delta hrp 12h	1.39203	1
DC3000/delta hrp 24h	0.97155	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24719	0.044
DC3000 delta B/DC3000 delta AB	1.39628	0.093

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19686	1
Exp 36h	1.16626	0.693
Exp 60h	1.6193	0.227

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.03989	1
Var 0h	1.0771	0.936
Var 12h I row2-row1	0.98883	1
Var 12h NI row2-row1	1.04547	1
Var 36h I row2-row1	1.17996	0.742
Var 36h NI row2-row1	0.90704	0.45
Var 60h I row2-row1	0.86245	0.374
Var 60h NI row2-row1	0.83902	0.818
Time course 0hI-0hNI	1.10952	0.574
Time course 12hI-12hNI	1.03401	0.803
Time course 36hI-36hNI	1.42225	0.005
Time course 60hI-60hNI	1.51463	0.012

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.06035	0.699
transgenic ySAMdc/azygous control (breaker)	1.06761	1
transgenic ySAMdc/azygous control (red)	1.22861	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.28884	0.177

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6377	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.40399	1
Manapal/WT (break)	1.15157	0.183
Manapal/WT (red)	0.93906	0.36