Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04312	0.893
27DAP/17DAP	1.20735	0.833
39DAP/27DAP	1.04237	1
41DAP/39DAP	1.06535	0.938
42DAP/41DAP	1.23108	0.868
43DAP/42DAP	0.90642	0.813
47DAP/43DAP	1.20834	0.474
52DAP/47DAP	1.03535	0.989
57DAP/52DAP	1.26341	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94073	0.293
17DAP/reference	1.0189	0.717
27DAP/reference	1.00869	0.909
39DAP/reference	1.01949	0.691
41DAP/reference	0.94323	0.434
42DAP/reference	0.94252	0.091
43DAP/reference	1.06444	0.325
47DAP/reference	0.91368	0.032
52DAP/reference	0.88526	0.189
57DAP/reference	0.79893	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9915	0.801
27DAP/17DAP	1.03583	0.915
39DAP/27DAP	1.04426	0.707
41DAP/39DAP	1.04508	0.914
42DAP/41DAP	1.08328	0.651
43DAP/42DAP	1.0754	0.554
47DAP/43DAP	1.04272	0.897
52DAP/47DAP	1.01645	1
57DAP/52DAP	0.9509	0.628
57DAP/7DAP	1.10227	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80378	0.065
17DAP/reference	0.70941	0.014
27DAP/reference	0.793	0.012
39DAP/reference	0.88402	0.109
41DAP/reference	0.91873	0.079
42DAP/reference	0.90188	0.144
43DAP/reference	0.82365	0.029
47DAP/reference	0.94202	0.066
52DAP/reference	0.77981	0.012
57DAP/reference	0.79556	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02211	0.832
17DAP/reference	1.00119	0.851
27DAP/reference	0.77487	0.05
39DAP/reference	0.87035	0.095
41DAP/reference	0.83356	0.063
42DAP/reference	0.89327	0.189
43DAP/reference	0.98402	0.681
47DAP/reference	1.02763	1
52DAP/reference	0.85267	0.055
57DAP/reference	1.07251	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81498	0.127
17DAP/reference	0.95805	0.56
27DAP/reference	0.83423	0.085
39DAP/reference	0.83667	0.024
41DAP/reference	0.77923	0.033
42DAP/reference	0.65323	0.018
43DAP/reference	0.6401	0.028
47DAP/reference	0.94206	0.383
52DAP/reference	0.91796	0.472
57DAP/reference	0.59402	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99273	1
26DAP/20DAP	0.95253	1
34DAP/26DAP	0.90102	0.61
51DAP/34DAP	1.02022	0.854
52DAP/51DAP	0.90111	0.151
53DAP/52DAP	1.03142	0.858
55DAP/53DAP	1.03295	0.813
57DAP/55DAP	1.12109	0.364
62DAP/57DAP	1.13621	0.393
68DAP/62DAP	1.00622	1
68DAP/14DAP	0.9207	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00476	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.41484	0.068
Mature Green Tomato/Ripe Tomato	0.75158	0.06
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.40375	0.224
Mature Eggplant/Ripe Tomato	0.38162	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89905	0.634
1-1-2/M82	1.06393	1
12-2/M82	1.08932	1
12-4/M82	1.13604	0.694
1-3/M82	1.02002	1
2-1-1/M82	0.79533
2-1/M82	1.07096
2-6/M82	1.10618	0.594
3-2/M82	0.94829
4-1-1/M82	1.04863	1
4-1/M82	0.94568
4-3-2/M82	0.96152
4-3/M82	0.94141	1
5-3/M82	0.93298	0.642
6-2/M82	0.69767
6-3/M82	1.07718	1
7-1/M82	N/A	N/A
7-2/M82	1.09687	1
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	0.92635	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.70018	0.418
IL12-4/WTpooled	1.04851	1
IL1-4/WTpooled	0.86215	0.699
WT/WTpooled	1.12163	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	1.17211	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99451	1
DC3000/delta hrp 6h	0.82393	0.95
DC3000/delta hrp 12h	1.11716	1
DC3000/delta hrp 24h	1.04468	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29498	0.333
DC3000 delta B/DC3000 delta AB	1.04784	0.565

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18898	1
Exp 36h	0.94211	0.879
Exp 60h	1.23105	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9974	1
Var 0h	1.04766	0.98
Var 12h I row2-row1	1.01513	1
Var 12h NI row2-row1	1.27626	1
Var 36h I row2-row1	1.09943	1
Var 36h NI row2-row1	0.77686	0.706
Var 60h I row2-row1	1.17482	0.562
Var 60h NI row2-row1	1.59069	0.904
Time course 0hI-0hNI	1.1083	0.662
Time course 12hI-12hNI	1.03693	0.785
Time course 36hI-36hNI	0.89213	0.241
Time course 60hI-60hNI	1.19884	0.037

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)	0.98536	0.722
transgenic ySAMdc/azygous control (breaker)	0.80864	0.251
transgenic ySAMdc/azygous control (red)	0.98398	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	0.84933	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10449	0.307
Manapal/WT (break)	0.95403	1
Manapal/WT (red)	0.71616	0.187