Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.8.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28682	0.523
27DAP/17DAP	0.7978	0.276
39DAP/27DAP	1.33227	0.397
41DAP/39DAP	0.94014	0.73
42DAP/41DAP	0.84246	0.774
43DAP/42DAP	0.95397	0.858
47DAP/43DAP	0.88244	0.609
52DAP/47DAP	1.22804	0.601
57DAP/52DAP	0.91257	0.849

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99483	0.743
17DAP/reference	1.0143	0.813
27DAP/reference	0.97064	0.359
39DAP/reference	0.96229	0.37
41DAP/reference	0.98656	0.814
42DAP/reference	1.00718	1
43DAP/reference	0.9588	0.394
47DAP/reference	0.94166	0.127
52DAP/reference	0.99037	0.668
57DAP/reference	0.89474	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97021	0.644
27DAP/17DAP	1.01645	0.96
39DAP/27DAP	0.98921	0.964
41DAP/39DAP	0.95809	0.839
42DAP/41DAP	0.95998	0.625
43DAP/42DAP	1.03564	0.478
47DAP/43DAP	0.9856	0.923
52DAP/47DAP	0.97375	0.814
57DAP/52DAP	1.02362	0.871
57DAP/7DAP	1.0846	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66524	0.025
17DAP/reference	1.17256	0.013
27DAP/reference	1.00684	1
39DAP/reference	1.04463	0.175
41DAP/reference	1.15792	0.075
42DAP/reference	1.0295	0.686
43DAP/reference	0.9774	0.459
47DAP/reference	1.08362	0.604
52DAP/reference	0.94315	0.126
57DAP/reference	0.95303	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99954	0.993
17DAP/reference	1.22172	0.01
27DAP/reference	1.01438	1
39DAP/reference	0.98433	0.539
41DAP/reference	1.06036	0.781
42DAP/reference	1.02109	1
43DAP/reference	0.95669	0.438
47DAP/reference	0.97249	0.349
52DAP/reference	0.96144	0.259
57DAP/reference	0.94697	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97557	0.391
17DAP/reference	1.24748	0.186
27DAP/reference	1.07344	0.271
39DAP/reference	1.03892	0.691
41DAP/reference	0.97576	0.371
42DAP/reference	0.88997	0.041
43DAP/reference	0.90324	0.03
47DAP/reference	0.8104	0.006
52DAP/reference	0.73364	0.062
57DAP/reference	0.72874	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97453	1
26DAP/20DAP	0.93763	0.244
34DAP/26DAP	0.99989	1
51DAP/34DAP	0.99881	0.993
52DAP/51DAP	1.01963	0.708
53DAP/52DAP	1.0404	0.895
55DAP/53DAP	0.93661	0.13
57DAP/55DAP	1.01552	1
62DAP/57DAP	0.98368	0.994
68DAP/62DAP	1.13793	0.472
68DAP/14DAP	1.27882	0.558

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13413	0.131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.77911	0.058
Mature Green Tomato/Ripe Tomato	2.21618	0.026
Immature Eggplant/Mature Eggplant	0.73713	0.111
Ripe Pepper/Ripe Tomato	1.00141
Mature Eggplant/Ripe Tomato	2.83559	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90733	0.536
1-1-2/M82	0.94705	1
12-2/M82	0.94268	0.862
12-4/M82	0.96006	1
1-3/M82	0.98702	1
2-1-1/M82	0.93923	0.565
2-1/M82	0.63811	0.519
2-6/M82	0.93417	1
3-2/M82	1.03499	0.463
4-1-1/M82	1.05499	1
4-1/M82	0.89734	0.665
4-3-2/M82	1.13294	1
4-3/M82	0.98339	1
5-3/M82	0.97951	1
6-2/M82	1.03079	1
6-3/M82	1.01895	1
7-1/M82	0.95969	0.509
7-2/M82	0.97455	1
9-3-2/M82	0.93333	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66376	0.321
IL2-6/WTpooled	0.66184	0.473
IL7-5/WTpooled	0.97513	1
IL7-3/WTpooled	0.67734	0.294
IL12-4/WTpooled	0.877	0.71
IL1-4/WTpooled	1.06964	1
WT/WTpooled	0.88701	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	1.05256	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98133	1
DC3000/delta hrp 6h	1.00142	0.95
DC3000/delta hrp 12h	1.07907	1
DC3000/delta hrp 24h	1.02948	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18939	0.053
DC3000 delta B/DC3000 delta AB	1.22883	0.156

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.35165	1
Exp 36h	1.1373	1
Exp 60h	1.37001	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96381	1
Var 0h	0.44612	0.332
Var 12h I row2-row1	1.27539	0.22
Var 12h NI row2-row1	1.04036	1
Var 36h I row2-row1	1.21204	1
Var 36h NI row2-row1	0.93203	0.706
Var 60h I row2-row1	0.98761	0.832
Var 60h NI row2-row1	0.9676	1
Time course 0hI-0hNI	1.12318	0.63
Time course 12hI-12hNI	1.00208	1
Time course 36hI-36hNI	1.04824	0.355
Time course 60hI-60hNI	1.58979	0.009

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)	1.05211	0.612
transgenic ySAMdc/azygous control (breaker)	0.48994	0.15
transgenic ySAMdc/azygous control (red)	0.8916	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98341	0.323

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.92495	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32292	1
Manapal/WT (break)	0.50632	1
Manapal/WT (red)	0.42882	0.188