Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.13.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83967	0.331
27DAP/17DAP	0.95216	0.796
39DAP/27DAP	1.32225	0.692
41DAP/39DAP	1.518	0.149
42DAP/41DAP	1.04054	0.994
43DAP/42DAP	0.89132	0.829
47DAP/43DAP	0.80237	0.407
52DAP/47DAP	1.10933	0.791
57DAP/52DAP	1.04482	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.135	0.162
17DAP/reference	1.01055	0.606
27DAP/reference	0.95419	0.457
39DAP/reference	0.98118	0.72
41DAP/reference	0.97845	0.542
42DAP/reference	0.99952	0.628
43DAP/reference	1.01405	0.787
47DAP/reference	0.92165	0.015
52DAP/reference	1.05872	0.663
57DAP/reference	0.95978	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99098	0.801
27DAP/17DAP	1.05325	0.887
39DAP/27DAP	1.12265	0.41
41DAP/39DAP	0.82476	0.038
42DAP/41DAP	1.05671	0.773
43DAP/42DAP	0.9985	1
47DAP/43DAP	1.01741	0.914
52DAP/47DAP	1.00833	1
57DAP/52DAP	0.97632	0.73
57DAP/7DAP	1.06333	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95425	0.203
17DAP/reference	0.91137	0.013
27DAP/reference	0.88863	0.014
39DAP/reference	0.95793	0.056
41DAP/reference	0.92095	0.05
42DAP/reference	0.97813	0.222
43DAP/reference	0.96394	0.334
47DAP/reference	1.24867	0.027
52DAP/reference	0.9535	0.254
57DAP/reference	0.83212	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04489	0.62
17DAP/reference	0.93844	0.279
27DAP/reference	0.89834	0.144
39DAP/reference	0.91454	0.159
41DAP/reference	0.97785	0.451
42DAP/reference	0.88218	0.027
43DAP/reference	1.04611	0.662
47DAP/reference	0.94957	0.066
52DAP/reference	0.94321	0.187
57DAP/reference	1.00166	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97343	0.362
17DAP/reference	1.01529	0.924
27DAP/reference	0.89158	0.05
39DAP/reference	0.88223	0.018
41DAP/reference	0.92941	0.05
42DAP/reference	0.85664	0.015
43DAP/reference	0.86408	0.054
47DAP/reference	0.90885	0.231
52DAP/reference	0.77312	0.071
57DAP/reference	0.83006	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19403	0.916
26DAP/20DAP	0.98416	1
34DAP/26DAP	1.13296	0.819
51DAP/34DAP	1.55181	0.031
52DAP/51DAP	0.80063	0.079
53DAP/52DAP	1.13007	0.444
55DAP/53DAP	1.01324	1
57DAP/55DAP	0.98016	0.859
62DAP/57DAP	1.06858	0.868
68DAP/62DAP	0.78593	0.177
68DAP/14DAP	1.59997	0.05

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.47653	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.44739	0.081
Mature Green Tomato/Ripe Tomato	1.36827	0.331
Immature Eggplant/Mature Eggplant	1.69927	0.05
Ripe Pepper/Ripe Tomato	2.7211	1
Mature Eggplant/Ripe Tomato	1.01607	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99399	1
1-1-2/M82	0.96293	0.754
12-2/M82	1.21664	0.61
12-4/M82	0.93835	1
1-3/M82	0.87144	0.441
2-1-1/M82	1.03442	0.764
2-1/M82	1.51052	0.345
2-6/M82	1.01444	1
3-2/M82	0.93489	0.455
4-1-1/M82	0.95933	1
4-1/M82	0.6667	1
4-3-2/M82	1.03727	1
4-3/M82	0.93959	1
5-3/M82	0.99707	1
6-2/M82	0.96628	1
6-3/M82	0.91941	0.982
7-1/M82	0.96023
7-2/M82	1.00947	1
9-3-2/M82	0.84963	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74169	0.243
IL2-6/WTpooled	0.4921	0.348
IL7-5/WTpooled	1.26627	0.75
IL7-3/WTpooled	1.29233	0.362
IL12-4/WTpooled	1.24224	0.624
IL1-4/WTpooled	1.01376	1
WT/WTpooled	1.03222	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	1.03275	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96293	1
DC3000/delta hrp 6h	1.01825	1
DC3000/delta hrp 12h	1.04799	1
DC3000/delta hrp 24h	1.39	0.031

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31077	0.045
DC3000 delta B/DC3000 delta AB	1.25102	0.149

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80937	1
Exp 36h	1.13413	1
Exp 60h	1.09665	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98961	1
Var 0h	0.99878	1
Var 12h I row2-row1	1.01549	1
Var 12h NI row2-row1	0.99892	1
Var 36h I row2-row1	0.86298	1
Var 36h NI row2-row1	1.01301	1
Var 60h I row2-row1	1.08763	0.562
Var 60h NI row2-row1	1.09384	0.904
Time course 0hI-0hNI	1.07697	0.662
Time course 12hI-12hNI	0.99347	1
Time course 36hI-36hNI	0.9999	0.826
Time course 60hI-60hNI	1.23011	0.022

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)	0.81099	0.3
transgenic ySAMdc/azygous control (breaker)	1.21906	1
transgenic ySAMdc/azygous control (red)	1.12504	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0562	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.31268	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93781	1
Manapal/WT (break)	0.87233	1
Manapal/WT (red)	0.5309	0.181