Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.17.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80589	0.278
27DAP/17DAP	1.08732	1
39DAP/27DAP	1.09502	0.876
41DAP/39DAP	1.38214	0.473
42DAP/41DAP	2.38867	0.043
43DAP/42DAP	0.8891	0.807
47DAP/43DAP	1.31261	0.42
52DAP/47DAP	0.81862	0.562
57DAP/52DAP	0.88836	0.882

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04257	0.76
17DAP/reference	1.0156	0.843
27DAP/reference	1.00515	1
39DAP/reference	0.98787	0.828
41DAP/reference	1.08155	0.516
42DAP/reference	0.95095	0.176
43DAP/reference	1.08646	0.495
47DAP/reference	0.94079	0.258
52DAP/reference	0.79235	0.065
57DAP/reference	0.84824	0.071

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04599	0.961
27DAP/17DAP	1.07251	0.957
39DAP/27DAP	1.08021	0.615
41DAP/39DAP	1.02065	1
42DAP/41DAP	0.94346	0.659
43DAP/42DAP	1.10226	0.627
47DAP/43DAP	1.19982	0.529
52DAP/47DAP	1.06629	0.939
57DAP/52DAP	0.96243	0.73
57DAP/7DAP	1.69738	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21988	0.705
17DAP/reference	0.8524	0.039
27DAP/reference	0.72157	0.094
39DAP/reference	1.15282	0.096
41DAP/reference	1.06039	1
42DAP/reference	1.17736	0.174
43DAP/reference	1.05415	0.923
47DAP/reference	1.01105	1
52DAP/reference	0.94788	0.278
57DAP/reference	1.18134	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00326	0.907
17DAP/reference	1.00123	0.747
27DAP/reference	0.79892	0.111
39DAP/reference	0.94374	0.359
41DAP/reference	0.73862	0.031
42DAP/reference	0.90456	0.289
43DAP/reference	1.0872	0.997
47DAP/reference	1.09737	0.388
52DAP/reference	1.0617	0.471
57DAP/reference	1.16064	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75704	0.135
17DAP/reference	1.0874	0.689
27DAP/reference	0.68741	0.257
39DAP/reference	0.97993	0.643
41DAP/reference	0.86146	0.132
42DAP/reference	1.07889	0.979
43DAP/reference	0.79811	0.102
47DAP/reference	0.95115	0.396
52DAP/reference	1.25945	0.357
57DAP/reference	0.84019	0.195

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2785	0.878
26DAP/20DAP	0.7377	0.512
34DAP/26DAP	1.03617	1
51DAP/34DAP	0.82261	0.402
52DAP/51DAP	1.12724	0.873
53DAP/52DAP	0.86668	0.336
55DAP/53DAP	1.26353	0.068
57DAP/55DAP	0.88188	0.548
62DAP/57DAP	1.06049	0.935
68DAP/62DAP	0.83615	0.464
68DAP/14DAP	0.86907	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10323	0.229

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.29848	0.073
Mature Green Tomato/Ripe Tomato	0.24347	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.12704	1
Mature Eggplant/Ripe Tomato	0.10461	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91533	0.944
1-1-2/M82	1.72311	1
12-2/M82	1.31474	1
12-4/M82	2.3496	1
1-3/M82	1.09086	1
2-1-1/M82	1.02472	1
2-1/M82	0.7472	0.74
2-6/M82	1.0036	1
3-2/M82	2.10405
4-1-1/M82	1.29618	1
4-1/M82	1.3616
4-3-2/M82	3.87369
4-3/M82	5.74668	0.268
5-3/M82	0.70764	0.395
6-2/M82	2.2737	1
6-3/M82	1.00261	1
7-1/M82	0.96756
7-2/M82	1.12594	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.61278	0.243
IL2-6/WTpooled	1.54997	0.584
IL7-5/WTpooled	1.32099	0.792
IL7-3/WTpooled	0.72047	1
IL12-4/WTpooled	0.88043	0.71
IL1-4/WTpooled	1.11913	1
WT/WTpooled	0.92696	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	0.74466	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12582	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.11535	1
DC3000/delta hrp 24h	0.87107	0.107

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	2.67826	0.409
Exp 60h	1.86083	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03292	1
Var 0h	1.53939	0.98
Var 12h I row2-row1	1.19888	0.196
Var 12h NI row2-row1	0.77967	0.443
Var 36h I row2-row1	1.16116	0.489
Var 36h NI row2-row1	0.83655	0.645
Var 60h I row2-row1	0.98977	1
Var 60h NI row2-row1	1.03131	1
Time course 0hI-0hNI	1.00863	1
Time course 12hI-12hNI	1.80475	0.017
Time course 36hI-36hNI	2.11989	0.021
Time course 60hI-60hNI	9.47159	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)	3.61623	0.372
transgenic ySAMdc/azygous control (breaker)	2.34361	0.178
transgenic ySAMdc/azygous control (red)	1.39025	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95978	0.444

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19546	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.98747	1
Manapal/WT (red)	N/A	N/A