Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.5.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81142	0.31
27DAP/17DAP	0.87216	0.52
39DAP/27DAP	1.11346	0.888
41DAP/39DAP	1.10539	0.88
42DAP/41DAP	1.77211	0.043
43DAP/42DAP	1.05326	1
47DAP/43DAP	0.79236	0.386
52DAP/47DAP	0.81963	0.587
57DAP/52DAP	1.08241	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.58896	0.025
17DAP/reference	1.41555	0.024
27DAP/reference	1.44724	0.021
39DAP/reference	1.47699	0.136
41DAP/reference	1.34162	0.015
42DAP/reference	1.26141	0.053
43DAP/reference	0.98478	0.763
47DAP/reference	0.82813	0.016
52DAP/reference	0.5774	0.013
57DAP/reference	0.80807	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.39798	0.026
27DAP/17DAP	2.04634	0.023
39DAP/27DAP	0.56998	0.029
41DAP/39DAP	0.66917	0.093
42DAP/41DAP	1.31902	0.028
43DAP/42DAP	1.44782	0.034
47DAP/43DAP	1.01968	0.973
52DAP/47DAP	0.99012	0.925
57DAP/52DAP	0.85242	0.39
57DAP/7DAP	1.073	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22992	0.135
17DAP/reference	0.93099	0.22
27DAP/reference	1.09163	0.453
39DAP/reference	0.92952	0.307
41DAP/reference	0.97537	0.538
42DAP/reference	0.97565	0.506
43DAP/reference	0.90305	0.23
47DAP/reference	0.92026	0.222
52DAP/reference	0.87416	0.137
57DAP/reference	1.04175	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00816	0.884
17DAP/reference	1.56723	0.007
27DAP/reference	1.29358	0.053
39DAP/reference	1.06947	0.746
41DAP/reference	1.07779	0.752
42DAP/reference	1.15221	0.267
43DAP/reference	0.93759	0.394
47DAP/reference	0.86847	0.12
52DAP/reference	0.86773	0.004
57DAP/reference	0.85482	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11797	0.518
17DAP/reference	1.35869	0.398
27DAP/reference	1.20242
39DAP/reference	0.79808	0.246
41DAP/reference	0.90558	0.417
42DAP/reference	1.13609	0.4
43DAP/reference	1.09271	0.895
47DAP/reference	1.18742	0.11
52DAP/reference	1.70131	0.631
57DAP/reference	2.81681	0.144

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00732	1
26DAP/20DAP	1.24905	0.177
34DAP/26DAP	0.86582	0.322
51DAP/34DAP	1.02144	0.883
52DAP/51DAP	0.86609	0.151
53DAP/52DAP	1.02311	0.961
55DAP/53DAP	0.90391	0.5
57DAP/55DAP	0.95467	0.804
62DAP/57DAP	1.65238	0.01
68DAP/62DAP	0.6354	0.144
68DAP/14DAP	1.49753	0.094

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99795	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.6843	0.058
Mature Green Tomato/Ripe Tomato	1.148	0.331
Immature Eggplant/Mature Eggplant	0.42917	0.062
Ripe Pepper/Ripe Tomato	0.91604	1
Mature Eggplant/Ripe Tomato	3.53191	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.984
12-2/M82	N/A	N/A
12-4/M82	1.61942	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.42126
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.60665
4-3/M82	1.82184
5-3/M82	1.15012
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.199
7-2/M82	N/A	N/A
9-3-2/M82	1.22092

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.15407	0.493
IL2-6/WTpooled	1.29624	0.584
IL7-5/WTpooled	0.53152	0.559
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.93684	1
IL1-4/WTpooled	1.58137	1
WT/WTpooled	0.68202	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	0.7988	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.8293	1
DC3000/delta hrp 6h	1.09691	0.777
DC3000/delta hrp 12h	0.79807	1
DC3000/delta hrp 24h	0.98849	0.945

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.44661	0.026
DC3000 delta B/DC3000 delta AB	0.46138	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01729	1
Exp 36h	0.66705	0.471
Exp 60h	0.45277	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00544	1
Var 0h	0.5578	0.98
Var 12h I row2-row1	0.81118	0.338
Var 12h NI row2-row1	0.81759	0.627
Var 36h I row2-row1	1.45268	0.742
Var 36h NI row2-row1	1.30381	0.482
Var 60h I row2-row1	0.85741	0.582
Var 60h NI row2-row1	1.10414	0.904
Time course 0hI-0hNI	1.08729	0.833
Time course 12hI-12hNI	0.95641	0.734
Time course 36hI-36hNI	0.72963	0.026
Time course 60hI-60hNI	0.18308	0.005

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)	0.99265	0.931
transgenic ySAMdc/azygous control (breaker)	1.22667	1
transgenic ySAMdc/azygous control (red)	0.95913	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.78498	0.143

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.27655	0.093
Manapal/WT (break)	2.4002	0.123
Manapal/WT (red)	1.46603	0.222