Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.13.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11186	0.534
27DAP/17DAP	1.18407	0.872
39DAP/27DAP	0.87698	0.549
41DAP/39DAP	1.64572	0.638
42DAP/41DAP	0.97136	1
43DAP/42DAP	1.18135	0.867
47DAP/43DAP	1.11313	0.659
52DAP/47DAP	1.03737	0.967
57DAP/52DAP	0.862	0.86

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98252	0.489
17DAP/reference	0.99897	1
27DAP/reference	0.99244	0.797
39DAP/reference	1.00419	0.903
41DAP/reference	0.97631	0.341
42DAP/reference	0.94392	0.001
43DAP/reference	0.97553	0.5
47DAP/reference	0.93988	0.09
52DAP/reference	1.03674	0.912
57DAP/reference	0.95618	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02348	0.87
27DAP/17DAP	1.00199	1
39DAP/27DAP	1.04671	0.565
41DAP/39DAP	0.96735	0.945
42DAP/41DAP	1.01644	0.961
43DAP/42DAP	0.97224	0.558
47DAP/43DAP	0.99254	0.971
52DAP/47DAP	1.03781	0.844
57DAP/52DAP	0.99641	0.887
57DAP/7DAP	1.07265	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.64631	0.427
17DAP/reference	3.27089	0.006
27DAP/reference	3.18478	0.006
39DAP/reference	3.40849	0.005
41DAP/reference	2.74835	0.136
42DAP/reference	4.57354	0.006
43DAP/reference	5.13064	0.006
47DAP/reference	2.95645	0.139
52DAP/reference	4.05784	0.007
57DAP/reference	3.95542	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05285	0.477
17DAP/reference	0.99092	0.693
27DAP/reference	0.95684	0.423
39DAP/reference	0.9448	0.173
41DAP/reference	0.84013	0.018
42DAP/reference	0.96928	0.433
43DAP/reference	0.91612	0.394
47DAP/reference	1.00699	0.943
52DAP/reference	0.89986	0.143
57DAP/reference	1.08149	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.71398	0.037
17DAP/reference	1.41921	0.728
27DAP/reference	3.61869	0.312
39DAP/reference	3.42106	0.027
41DAP/reference	2.45688	0.027
42DAP/reference	3.14559	0.131
43DAP/reference	1.74964	0.547
47DAP/reference	0.95358	0.296
52DAP/reference	3.94893	0.051
57DAP/reference	1.89868	0.858

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85979	0.566
26DAP/20DAP	0.96484	0.512
34DAP/26DAP	1.00778	1
51DAP/34DAP	0.97387	0.743
52DAP/51DAP	0.98131	1
53DAP/52DAP	0.97319	0.848
55DAP/53DAP	0.93493	0.563
57DAP/55DAP	1.27193	0.793
62DAP/57DAP	0.92427	0.681
68DAP/62DAP	0.88935	0.579
68DAP/14DAP	1.29189	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97544	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.4854
Mature Green Tomato/Ripe Tomato	1.40403	0.119
Immature Eggplant/Mature Eggplant	1.2409	0.174
Ripe Pepper/Ripe Tomato	1.34321
Mature Eggplant/Ripe Tomato	1.01922	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94436	0.944
1-1-2/M82	0.94947	1
12-2/M82	1.12196	1
12-4/M82	0.96898	1
1-3/M82	0.84824	0.441
2-1-1/M82	1.1894
2-1/M82	N/A	N/A
2-6/M82	1.07229	0.695
3-2/M82	0.90694
4-1-1/M82	0.94309	1
4-1/M82	0.81673	1
4-3-2/M82	0.77781	0.487
4-3/M82	0.79059	0.46
5-3/M82	0.99884	1
6-2/M82	0.90492	1
6-3/M82	0.94845
7-1/M82	N/A	N/A
7-2/M82	1.0664	1
9-3-2/M82	0.69963	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.76218	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.7254	0.294
IL12-4/WTpooled	0.85586	0.566
IL1-4/WTpooled	0.90655	0.476
WT/WTpooled	1.15358	0.874

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	0.82491	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96764	1
DC3000/delta hrp 6h	1.12494	1
DC3000/delta hrp 12h	0.7223	1
DC3000/delta hrp 24h	1.05598	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07753	0.229
DC3000 delta B/DC3000 delta AB	1.092	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95861	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92327	1
Var 0h	0.86392	0.933
Var 12h I row2-row1	1.08926	0.379
Var 12h NI row2-row1	1.06401	1
Var 36h I row2-row1	0.99151	1
Var 36h NI row2-row1	0.75385	0.61
Var 60h I row2-row1	1.22457	1
Var 60h NI row2-row1	1.23623	0.904
Time course 0hI-0hNI	1.02271	1
Time course 12hI-12hNI	1.03345	0.803
Time course 36hI-36hNI	0.99216	0.68
Time course 60hI-60hNI	1.19504	0.08

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)	0.98332	0.789
transgenic ySAMdc/azygous control (breaker)	1.24007	0.178
transgenic ySAMdc/azygous control (red)	1.08013	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96857	0.09

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89539	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72445	1
Manapal/WT (break)	0.86786	1
Manapal/WT (red)	0.92315	0.503