Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.20.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03738	0.83
27DAP/17DAP	2.51638	0.159
39DAP/27DAP	0.55215	0.346
41DAP/39DAP	1.58722	0.259
42DAP/41DAP	0.96199	1
43DAP/42DAP	1.09069	1
47DAP/43DAP	1.24523	0.873
52DAP/47DAP	0.84515	0.711
57DAP/52DAP	1.02882	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	N/A	N/A
27DAP/reference	0.52014	0.152
39DAP/reference	0.47558	0.012
41DAP/reference	N/A	N/A
42DAP/reference	0.82129	0.115
43DAP/reference	0.50707	0.163
47DAP/reference	0.78355	0.077
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00781	0.75
27DAP/17DAP	1.19943	0.442
39DAP/27DAP	0.87351	0.482
41DAP/39DAP	1.51462	0.371
42DAP/41DAP	1.01499	0.772
43DAP/42DAP	1.12912	0.788
47DAP/43DAP	1.07818	0.99
52DAP/47DAP	1.25866	0.862
57DAP/52DAP	2.65002	0.092
57DAP/7DAP	1.19078

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02978	0.682
17DAP/reference	0.84297	0.082
27DAP/reference	0.99421	0.614
39DAP/reference	0.62244	0.031
41DAP/reference	0.53285	0.017
42DAP/reference	0.48218	0.01
43DAP/reference	0.81724	0.095
47DAP/reference	0.97464	0.671
52DAP/reference	1.0102	0.679
57DAP/reference	0.94138	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91134	0.426
17DAP/reference	0.61252	0.007
27DAP/reference	0.65202	0.079
39DAP/reference	0.72833	0.013
41DAP/reference	0.67351	0.013
42DAP/reference	0.80948	0.017
43DAP/reference	0.7381	0.029
47DAP/reference	0.77869	0.014
52DAP/reference	0.68131	0.009
57DAP/reference	0.71804	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79256	0.127
17DAP/reference	0.78694	0.144
27DAP/reference	0.82511	0.081
39DAP/reference	0.81873	0.046
41DAP/reference	0.83116	0.028
42DAP/reference	0.98446	0.816
43DAP/reference	0.9485	0.484
47DAP/reference	0.79879	0.043
52DAP/reference	0.59099	0.103
57DAP/reference	0.93633	0.333

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12469	1
26DAP/20DAP	1.16499
34DAP/26DAP	1.30512	1
51DAP/34DAP	1.92869	0.314
52DAP/51DAP	1.70907	0.596
53DAP/52DAP	1.05974	0.99
55DAP/53DAP	0.80054	0.282
57DAP/55DAP	1.91958	1
62DAP/57DAP	1.38234	0.003
68DAP/62DAP	1.08094	1
68DAP/14DAP	1.72734	0.366

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.40701	0.131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.91354	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.62458

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99063
1-1-2/M82	0.7705
12-2/M82	N/A	N/A
12-4/M82	0.85053	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	1.03919
3-2/M82	0.99214
4-1-1/M82	1.16963	1
4-1/M82	0.90732
4-3-2/M82	0.73176
4-3/M82	0.7449	0.551
5-3/M82	1.00872	1
6-2/M82	N/A	N/A
6-3/M82	0.92554
7-1/M82	N/A	N/A
7-2/M82	0.91565
9-3-2/M82	0.89041	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07869	0.493
IL2-6/WTpooled	1.14659	0.788
IL7-5/WTpooled	1.10522	1
IL7-3/WTpooled	0.80071	0.31
IL12-4/WTpooled	1.16729	0.557
IL1-4/WTpooled	0.83464	0.444
WT/WTpooled	1.02003	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	0.45516

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00989	1
DC3000/delta hrp 6h	0.81531	0.95
DC3000/delta hrp 12h	0.83102	1
DC3000/delta hrp 24h	1.29128	0.438

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	1.023	1
Exp 36h	N/A	N/A
Exp 60h	1.0062	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92901	1
Var 0h	N/A	N/A
Var 12h I row2-row1	5.71449	0.613
Var 12h NI row2-row1	0.97048	0.906
Var 36h I row2-row1	1.07354	1
Var 36h NI row2-row1	0.91166	0.791
Var 60h I row2-row1	1.12845	1
Var 60h NI row2-row1	0.87918	0.904
Time course 0hI-0hNI	0.92696	0.649
Time course 12hI-12hNI	0.92416	0.618
Time course 36hI-36hNI	0.90475	0.26
Time course 60hI-60hNI	1.26545	0.359

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)	1.08007	0.571
transgenic ySAMdc/azygous control (breaker)	1.14156	1
transgenic ySAMdc/azygous control (red)	0.97509	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12594	0.069

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.54794	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85529	1
Manapal/WT (break)	0.82333	1
Manapal/WT (red)	0.96134	0.728