Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.5.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07073	0.947
27DAP/17DAP	0.92671	0.863
39DAP/27DAP	0.97418	0.719
41DAP/39DAP	1.63316	0.432
42DAP/41DAP	1.41746	0.203
43DAP/42DAP	0.9763	0.91
47DAP/43DAP	0.98916	0.868
52DAP/47DAP	1.22337	0.654
57DAP/52DAP	0.88709	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82968	0.063
17DAP/reference	0.94373	0.208
27DAP/reference	0.81958	0.013
39DAP/reference	1.1607	0.111
41DAP/reference	1.17964	0.038
42DAP/reference	1.69523	0.001
43DAP/reference	1.71743	0.008
47DAP/reference	1.71237	0.001
52DAP/reference	1.02298	0.878
57DAP/reference	1.42862	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08036	0.99
27DAP/17DAP	1.16205	0.831
39DAP/27DAP	1.10505	0.663
41DAP/39DAP	0.95345	0.875
42DAP/41DAP	1.26095	0.102
43DAP/42DAP	1.17826	0.446
47DAP/43DAP	1.00404	1
52DAP/47DAP	1.2333	0.408
57DAP/52DAP	0.96588	0.73
57DAP/7DAP	2.01032	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80233	0.058
17DAP/reference	0.72477	0.012
27DAP/reference	0.85891	0.025
39DAP/reference	0.69807	0.011
41DAP/reference	0.83385	0.02
42DAP/reference	0.70492	0.01
43DAP/reference	0.74943	0.015
47DAP/reference	0.83511	0.168
52DAP/reference	0.67528	0.012
57DAP/reference	0.64659	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22721	0.284
17DAP/reference	0.9734	0.576
27DAP/reference	0.99407	0.619
39DAP/reference	0.89444	0.147
41DAP/reference	0.84651	0.127
42DAP/reference	0.88686	0.073
43DAP/reference	1.31967	0.035
47DAP/reference	1.08999	0.413
52DAP/reference	0.84609	0.04
57DAP/reference	1.12235	0.64

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79779	0.047
17DAP/reference	0.97975	0.696
27DAP/reference	0.69826	0.038
39DAP/reference	0.78034	0.028
41DAP/reference	0.8304	0.058
42DAP/reference	1.10097	0.327
43DAP/reference	1.20634	0.237
47DAP/reference	1.5673	0.006
52DAP/reference	1.78432	0.095
57DAP/reference	1.12471	0.371

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22849	0.678
26DAP/20DAP	1.08336	0.778
34DAP/26DAP	1.52972	0.819
51DAP/34DAP	0.75414	0.579
52DAP/51DAP	0.89487	1
53DAP/52DAP	1.07069	0.935
55DAP/53DAP	0.98587	0.876
57DAP/55DAP	1.02079	1
62DAP/57DAP	1.09543	0.723
68DAP/62DAP	1.22862	0.422
68DAP/14DAP	0.64702	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.1219	0.027

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.33888	0.029
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.29589	0.224
Mature Eggplant/Ripe Tomato	0.14801	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03627	1
1-1-2/M82	1.25034	1
12-2/M82	1.2761	1
12-4/M82	1.03872	1
1-3/M82	1.0892	1
2-1-1/M82	1.38159	0.375
2-1/M82	1.04427	1
2-6/M82	1.07842	0.594
3-2/M82	1.14691	0.717
4-1-1/M82	1.1488	1
4-1/M82	1.22344	1
4-3-2/M82	1.45646	0.241
4-3/M82	2.52906	0.268
5-3/M82	0.86199	1
6-2/M82	1.0023
6-3/M82	0.78023
7-1/M82	0.84984	1
7-2/M82	1.16429	0.324
9-3-2/M82	1.5709	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11467	1
IL2-6/WTpooled	0.98577	1
IL7-5/WTpooled	0.86184	1
IL7-3/WTpooled	0.94168	0.418
IL12-4/WTpooled	1.0332	1
IL1-4/WTpooled	0.73064	0.476
WT/WTpooled	1.09542	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	0.952	0.09

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12672	0.692
DC3000/delta hrp 6h	0.77007
DC3000/delta hrp 12h	1.05344	1
DC3000/delta hrp 24h	1.00604	1

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	0.75861

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99852	1
Var 0h	0.99689	1
Var 12h I row2-row1	1.54759	0.473
Var 12h NI row2-row1	0.79629	0.488
Var 36h I row2-row1	0.88603	1
Var 36h NI row2-row1	1.02731	1
Var 60h I row2-row1	1.10745	0.502
Var 60h NI row2-row1	1.03792	1
Time course 0hI-0hNI	1.07943	0.764
Time course 12hI-12hNI	1.09902	0.672
Time course 36hI-36hNI	0.9753	0.352
Time course 60hI-60hNI	0.98463	1

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)	0.82419	0.314
transgenic ySAMdc/azygous control (breaker)	1.14945	1
transgenic ySAMdc/azygous control (red)	1.12909	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96905	0.101

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74728	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87372	1
Manapal/WT (break)	0.92312	1
Manapal/WT (red)	0.75241	0.187