Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97085	0.779
27DAP/17DAP	1.00225	1
39DAP/27DAP	0.82287	0.507
41DAP/39DAP	1.23942	0.584
42DAP/41DAP	1.08165	0.938
43DAP/42DAP	1.06632	1
47DAP/43DAP	1.50889	0.255
52DAP/47DAP	1.08674	0.965
57DAP/52DAP	0.97193	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26253	1
17DAP/reference	N/A	N/A
27DAP/reference	0.34802
39DAP/reference	1.02557
41DAP/reference	1.70529
42DAP/reference	0.95336	0.315
43DAP/reference	0.96997
47DAP/reference	0.96319	0.445
52DAP/reference	N/A	N/A
57DAP/reference	1.05855

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91676	0.56
27DAP/17DAP	1.22651	0.344
39DAP/27DAP	1.08303	0.548
41DAP/39DAP	1.01233	1
42DAP/41DAP	1.19999	0.663
43DAP/42DAP	0.91438	0.336
47DAP/43DAP	0.87875	0.525
52DAP/47DAP	1.16662	0.568
57DAP/52DAP	0.90584	0.566
57DAP/7DAP	0.9853	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13745	0.235
17DAP/reference	1.09475	0.297
27DAP/reference	1.06018	0.02
39DAP/reference	1.18407	0.012
41DAP/reference	1.24562	0.056
42DAP/reference	1.17988	0.1
43DAP/reference	1.40553	0.012
47DAP/reference	1.18376	0.139
52DAP/reference	1.25987	0.016
57DAP/reference	1.4507	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90968	0.164
17DAP/reference	0.8412	0.129
27DAP/reference	0.81586	0.097
39DAP/reference	1.07256	1
41DAP/reference	0.83886	0.212
42DAP/reference	0.93288	0.261
43DAP/reference	0.95843	0.607
47DAP/reference	0.98088	0.559
52DAP/reference	0.87202	0.111
57DAP/reference	1.30125	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0815	0.212
17DAP/reference	1.05266	0.706
27DAP/reference	1.13813	0.092
39DAP/reference	1.14166	0.285
41DAP/reference	1.10983	0.052
42DAP/reference	1.08969	0.433
43DAP/reference	1.18903	0.275
47DAP/reference	0.9045	0.174
52DAP/reference	1.14453	0.369
57DAP/reference	1.03058	0.888

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97593	1
26DAP/20DAP	0.69627	1
34DAP/26DAP	1.15011	1
51DAP/34DAP	0.91047	0.624
52DAP/51DAP	1.82487	0.034
53DAP/52DAP	1.01788	0.978
55DAP/53DAP	1.08463	0.964
57DAP/55DAP	1.05599	0.865
62DAP/57DAP	1.11701	0.935
68DAP/62DAP	0.82682	0.177
68DAP/14DAP	0.74041	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8604	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.56785	0.154
Mature Green Tomato/Ripe Tomato	0.84648
Immature Eggplant/Mature Eggplant	0.88489	0.089
Ripe Pepper/Ripe Tomato	9.82574	0.258
Mature Eggplant/Ripe Tomato	5.64025	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08934
1-1-2/M82	0.89861
12-2/M82	1.29654	0.61
12-4/M82	0.94076	1
1-3/M82	N/A	N/A
2-1-1/M82	1.21367
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.89989
4-1-1/M82	1.27733
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.64785	1
5-3/M82	0.92094	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.17703
7-2/M82	1.0221	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17204	0.277
IL2-6/WTpooled	0.94555	1
IL7-5/WTpooled	1.36637	0.75
IL7-3/WTpooled	0.90598	1
IL12-4/WTpooled	1.30627	0.557
IL1-4/WTpooled	0.81684	0.422
WT/WTpooled	0.99562	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	1.12382	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87207	0.807
DC3000/delta hrp 6h	0.9982	0.95
DC3000/delta hrp 12h	0.48504	1
DC3000/delta hrp 24h	4.84534	0.04

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.90073	0.629
DC3000 delta B/DC3000 delta AB	0.82606	0.137

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.2957	1
Exp 36h	1.32724	0.693
Exp 60h	1.65913	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02254	1
Var 0h	1.0904	0.98
Var 12h I row2-row1	0.92404	0.948
Var 12h NI row2-row1	0.84646
Var 36h I row2-row1	0.8658	1
Var 36h NI row2-row1	1.23889	1
Var 60h I row2-row1	0.63315	0.582
Var 60h NI row2-row1	1.01205	0.904
Time course 0hI-0hNI	1.05772	0.867
Time course 12hI-12hNI	0.97848	0.882
Time course 36hI-36hNI	0.92146	0.373
Time course 60hI-60hNI	0.75801	0.026

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)	0.9539	0.237
transgenic ySAMdc/azygous control (breaker)	0.60183	0.15
transgenic ySAMdc/azygous control (red)	1.01999	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13599	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84378	1
Manapal/WT (break)	1.11192	1
Manapal/WT (red)	1.0451	1