Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.14.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03712	0.838
27DAP/17DAP	1.0517	0.92
39DAP/27DAP	0.84757	0.544
41DAP/39DAP	1.59987	0.32
42DAP/41DAP	1.04941	1
43DAP/42DAP	0.93122	0.829
47DAP/43DAP	1.12971	0.689
52DAP/47DAP	1.36887	0.349
57DAP/52DAP	1.00021	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14426	0.303
17DAP/reference	1.15018	0.193
27DAP/reference	1.07749	0.435
39DAP/reference	1.16348	0.249
41DAP/reference	1.4004	0.038
42DAP/reference	1.13511	0.13
43DAP/reference	1.01316	1
47DAP/reference	1.12035	0.007
52DAP/reference	1.18699	0.141
57DAP/reference	0.91165	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00836	1
27DAP/17DAP	0.96378	0.919
39DAP/27DAP	1.04869	0.587
41DAP/39DAP	1.06062	0.861
42DAP/41DAP	1.05025	0.916
43DAP/42DAP	0.97405	0.684
47DAP/43DAP	0.96492	0.787
52DAP/47DAP	1.06285	0.8
57DAP/52DAP	1.00509	1
57DAP/7DAP	1.07164	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95436	0.296
17DAP/reference	0.93956	0.012
27DAP/reference	0.96219	0.062
39DAP/reference	0.96852	0.109
41DAP/reference	1.00604	1
42DAP/reference	0.99692	0.641
43DAP/reference	0.97707	0.351
47DAP/reference	0.85454	0.057
52DAP/reference	0.94991	0.106
57DAP/reference	0.95205	0.059

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07823	0.582
17DAP/reference	1.24674	0.012
27DAP/reference	1.0995	0.292
39DAP/reference	1.26655	0.015
41DAP/reference	1.31867	0.009
42DAP/reference	1.18285	0.038
43DAP/reference	1.61486	0.031
47DAP/reference	1.17615	0.018
52DAP/reference	1.39679	0.008
57DAP/reference	1.37596	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97577	0.526
17DAP/reference	1.05651	0.631
27DAP/reference	1.0042	0.883
39DAP/reference	1.01869	1
41DAP/reference	1.08014	0.471
42DAP/reference	1.08235	0.6
43DAP/reference	1.07072	0.768
47DAP/reference	1.19956	0.187
52DAP/reference	0.93181	0.327
57DAP/reference	0.92804	0.229

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06181	1
26DAP/20DAP	0.93972	0.512
34DAP/26DAP	1.02119	1
51DAP/34DAP	0.91269	0.252
52DAP/51DAP	1.00204	1
53DAP/52DAP	1.03087	0.845
55DAP/53DAP	1.0165	0.927
57DAP/55DAP	1.04583	0.997
62DAP/57DAP	1.15197	0.8
68DAP/62DAP	0.88622	0.722
68DAP/14DAP	0.85587	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01111	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92857	0.446
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.56961
Mature Eggplant/Ripe Tomato	1.06097	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95747	0.944
1-1-2/M82	0.88672
12-2/M82	1.06295
12-4/M82	0.97768	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	0.99811	1
3-2/M82	1.01506
4-1-1/M82	1.21149
4-1/M82	0.89417
4-3-2/M82	0.82695	0.487
4-3/M82	1.12685	1
5-3/M82	0.99233	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.92288
7-2/M82	0.73969
9-3-2/M82	0.90067

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00059
IL2-6/WTpooled	1.03443	0.584
IL7-5/WTpooled	8.36563
IL7-3/WTpooled	1.01686	1
IL12-4/WTpooled	0.97942	1
IL1-4/WTpooled	0.94659	1
WT/WTpooled	1.09896	0.818

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	1.06444	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93017	1
DC3000/delta hrp 6h	0.55891
DC3000/delta hrp 12h	1.10919	1
DC3000/delta hrp 24h	1.01114	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08794	0.073
DC3000 delta B/DC3000 delta AB	0.92405	0.091

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.96706	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.86495	0.594
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.96382	0.454
transgenic ySAMdc/azygous control (breaker)	0.98697	1
transgenic ySAMdc/azygous control (red)	1.00542	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89375	0.078

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98672	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23081	0.307
Manapal/WT (break)	1.135	1
Manapal/WT (red)	1.06163	1