Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.2.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10153	0.947
27DAP/17DAP	0.74076	0.332
39DAP/27DAP	0.92927	0.641
41DAP/39DAP	1.1228	0.935
42DAP/41DAP	0.93694	1
43DAP/42DAP	1.0868	1
47DAP/43DAP	0.93978	0.773
52DAP/47DAP	1.16867	0.696
57DAP/52DAP	1.21322	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96434	0.442
17DAP/reference	1.06702	0.178
27DAP/reference	1.01348	0.953
39DAP/reference	1.04118	0.534
41DAP/reference	1.00411	1
42DAP/reference	1.02523	0.931
43DAP/reference	1.05275	0.445
47DAP/reference	0.96486	0.418
52DAP/reference	0.92555	0.183
57DAP/reference	0.86471	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33703	0.103
27DAP/17DAP	0.8432	0.259
39DAP/27DAP	0.92789	0.52
41DAP/39DAP	0.89893	0.31
42DAP/41DAP	1.0285	0.916
43DAP/42DAP	0.8284	0.068
47DAP/43DAP	0.92779	0.534
52DAP/47DAP	1.1182	0.8
57DAP/52DAP	0.88437	0.253
57DAP/7DAP	0.98664	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30622	0.141
17DAP/reference	1.15282	0.688
27DAP/reference	0.95173	0.53
39DAP/reference	1.01888	1
41DAP/reference	0.98318	0.589
42DAP/reference	0.88953	0.275
43DAP/reference	1.08984	0.603
47DAP/reference	1.12796	0.537
52DAP/reference	1.01837	1
57DAP/reference	1.19925	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90682	0.238
17DAP/reference	1.01228	0.961
27DAP/reference	0.92463	0.257
39DAP/reference	0.91609	0.178
41DAP/reference	0.91717	0.164
42DAP/reference	0.76025	0.015
43DAP/reference	0.85758	0.114
47DAP/reference	0.9065	0.09
52DAP/reference	0.98316	0.537
57DAP/reference	1.01557	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06888	0.493
17DAP/reference	1.19059	0.273
27DAP/reference	1.20084	0.271
39DAP/reference	1.11079	0.752
41DAP/reference	1.02313	0.961
42DAP/reference	1.01687	0.816
43DAP/reference	1.34635	0.474
47DAP/reference	1.11067	0.104
52DAP/reference	1.11696	0.639
57DAP/reference	0.92295	0.234

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91331	1
26DAP/20DAP	0.85997	0.228
34DAP/26DAP	0.89682	0.606
51DAP/34DAP	0.85765	0.472
52DAP/51DAP	0.88667	1
53DAP/52DAP	0.96721	0.862
55DAP/53DAP	1.27991	0.325
57DAP/55DAP	1.02284	1
62DAP/57DAP	1.04659	0.935
68DAP/62DAP	0.67542	0.177
68DAP/14DAP	0.59483	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.6626	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.18765	0.287
Mature Green Tomato/Ripe Tomato	2.79594	0.015
Immature Eggplant/Mature Eggplant	0.4755	0.062
Ripe Pepper/Ripe Tomato	1.56998	1
Mature Eggplant/Ripe Tomato	2.09036	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	0.36189
12-4/M82	0.85474	1
1-3/M82	N/A	N/A
2-1-1/M82	0.74649
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.26569
4-3/M82	N/A	N/A
5-3/M82	1.66057	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.83802
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.96352	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97824	1
IL12-4/WTpooled	0.99173	1
IL1-4/WTpooled	0.90145
WT/WTpooled	1.00335	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	0.99451	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94264	1
DC3000/delta hrp 6h	1.11681	0.95
DC3000/delta hrp 12h	1.21874	1
DC3000/delta hrp 24h	0.62084	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.67823	0.031
DC3000 delta B/DC3000 delta AB	0.53362	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06736	1
Exp 36h	0.80459	0.456
Exp 60h	0.81101	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96609	1
Var 0h	0.66709	0.332
Var 12h I row2-row1	0.72116	0.344
Var 12h NI row2-row1	1.06886	1
Var 36h I row2-row1	0.87218	1
Var 36h NI row2-row1	1.18774	1
Var 60h I row2-row1	1.25172	0.562
Var 60h NI row2-row1	1.03915	1
Time course 0hI-0hNI	0.97285	0.886
Time course 12hI-12hNI	0.96627	0.827
Time course 36hI-36hNI	0.92777	0.236
Time course 60hI-60hNI	0.14645	0.005

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)	1.03199	0.699
transgenic ySAMdc/azygous control (breaker)	0.99125	1
transgenic ySAMdc/azygous control (red)	1.1524	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97201	0.431

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.54422	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.65984	0.083
Manapal/WT (break)	1.81987	0.14
Manapal/WT (red)	3.08649	0.126