Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.2.20.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92969	0.652
27DAP/17DAP	1.47256	0.683
39DAP/27DAP	0.91114	0.537
41DAP/39DAP	1.38353	0.522
42DAP/41DAP	0.89153	1
43DAP/42DAP	1.12327	0.968
47DAP/43DAP	1.0613	0.943
52DAP/47DAP	0.99637	0.758
57DAP/52DAP	1.48048	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99802	0.756
17DAP/reference	1.05294	0.104
27DAP/reference	1.0171	0.806
39DAP/reference	1.0529	0.301
41DAP/reference	1.09978	0.111
42DAP/reference	0.97065	0.091
43DAP/reference	0.98121	0.576
47DAP/reference	0.98345	0.445
52DAP/reference	0.99793	0.749
57DAP/reference	0.92835	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41713	0.319
27DAP/17DAP	1.40573	0.268
39DAP/27DAP	0.92102	0.616
41DAP/39DAP	1.23995	0.663
42DAP/41DAP	1.27715	0.334
43DAP/42DAP	0.71006	0.089
47DAP/43DAP	0.87684	0.823
52DAP/47DAP	0.91548	0.807
57DAP/52DAP	1.24086	0.289
57DAP/7DAP	1.05999	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65261	0.034
17DAP/reference	1.11501	0.437
27DAP/reference	1.03074	1
39DAP/reference	0.78591	0.083
41DAP/reference	0.77076	0.047
42DAP/reference	0.69118	0.01
43DAP/reference	1.14264	0.764
47DAP/reference	0.94632	0.504
52DAP/reference	1.06147	0.636
57DAP/reference	1.23415	0.117

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01121	0.894
17DAP/reference	0.99231	0.659
27DAP/reference	1.02819	0.902
39DAP/reference	0.97614	0.392
41DAP/reference	0.98145	0.441
42DAP/reference	0.94194	0.189
43DAP/reference	1.00356	0.875
47DAP/reference	0.96171	0.253
52DAP/reference	1.07907	0.053
57DAP/reference	0.9664	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01645	1
17DAP/reference	1.10838	0.45
27DAP/reference	0.86296	0.049
39DAP/reference	1.01377	0.836
41DAP/reference	1.03428	1
42DAP/reference	0.98801	0.816
43DAP/reference	1.06774	0.572
47DAP/reference	1.03326	0.63
52DAP/reference	0.98684	0.781
57DAP/reference	0.92808	0.238

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09758	0.966
26DAP/20DAP	1.39096	0.541
34DAP/26DAP	1.12867	1
51DAP/34DAP	2.23078	0.111
52DAP/51DAP	1.2217	0.057
53DAP/52DAP	1.02752	0.961
55DAP/53DAP	0.88239	0.619
57DAP/55DAP	1.08085	0.935
62DAP/57DAP	0.83679	0.681
68DAP/62DAP	0.92133	0.641
68DAP/14DAP	0.99456	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.45488	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97425	0.726
Mature Green Tomato/Ripe Tomato	3.13305	0.363
Immature Eggplant/Mature Eggplant	0.75662	0.063
Ripe Pepper/Ripe Tomato	0.88292	0.293
Mature Eggplant/Ripe Tomato	3.14079	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.24963	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.97313	N/A
1-3/M82	1.4434	N/A
2-1-1/M82	1.08793	N/A
2-1/M82	0.85501	N/A
2-6/M82	0.9987	N/A
3-2/M82	N/A	N/A
4-1-1/M82	1.51398	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.11445	N/A
4-3/M82	N/A	N/A
5-3/M82	0.96754	1
6-2/M82	N/A	N/A
6-3/M82	1.00639	1
7-1/M82	0.80803	N/A
7-2/M82	1.24825	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87314	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.63712	N/A
IL12-4/WTpooled	1.01313	N/A
IL1-4/WTpooled	0.93801	N/A
WT/WTpooled	0.91338	N/A

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	1.03788	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91795	1
DC3000/delta hrp 6h	1.00436	0.95
DC3000/delta hrp 12h	0.97512	1
DC3000/delta hrp 24h	0.85645	0.534

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	0.8539	1
Exp 36h	1.02169	1
Exp 60h	0.9363	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98123	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.93481	0.705
Var 12h NI row2-row1	0.91422	0.494
Var 36h I row2-row1	1.11382	1
Var 36h NI row2-row1	1.8206	0.482
Var 60h I row2-row1	1.00643	1
Var 60h NI row2-row1	1.07511	1
Time course 0hI-0hNI	1.06329	0.852
Time course 12hI-12hNI	1.24263	0.041
Time course 36hI-36hNI	1.10617	0.401
Time course 60hI-60hNI	1.99401	0.008

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)	0.99338	0.662
transgenic ySAMdc/azygous control (breaker)	0.92175	0.49
transgenic ySAMdc/azygous control (red)	0.85787	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98294	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.32369	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14891	0.307
Manapal/WT (break)	1.71243	0.14
Manapal/WT (red)	1.42006	0.413