Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.2.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05736	0.838
27DAP/17DAP	0.51198	0.027
39DAP/27DAP	0.64073	0.286
41DAP/39DAP	0.94583	0.681
42DAP/41DAP	0.87939	1
43DAP/42DAP	1.05411	1
47DAP/43DAP	0.81303	0.433
52DAP/47DAP	1.16725	0.827
57DAP/52DAP	0.86037	0.857

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15585	0.197
17DAP/reference	1.16025	0.546
27DAP/reference	0.94007	0.497
39DAP/reference	0.95616	0.565
41DAP/reference	0.80962	0.154
42DAP/reference	0.86995	0.03
43DAP/reference	0.8446	0.118
47DAP/reference	0.62876	0.001
52DAP/reference	0.64979	0.028
57DAP/reference	0.85815	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.61359	0.038
27DAP/17DAP	0.83646	0.39
39DAP/27DAP	0.52619	0.04
41DAP/39DAP	1.1453	0.612
42DAP/41DAP	0.86395	0.116
43DAP/42DAP	0.77714	0.044
47DAP/43DAP	0.90349	0.095
52DAP/47DAP	0.99391	0.93
57DAP/52DAP	0.87887	0.282
57DAP/7DAP	0.62764	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54221	0.024
17DAP/reference	1.04861	0.525
27DAP/reference	0.89923	0.125
39DAP/reference	0.76244	0.027
41DAP/reference	0.65734	0.013
42DAP/reference	0.55304	0.01
43DAP/reference	0.58281	0.012
47DAP/reference	0.58495	0.036
52DAP/reference	0.70215	0.013
57DAP/reference	0.72282	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70722	0.062
17DAP/reference	0.77967	0.195
27DAP/reference	1.01541	1
39DAP/reference	0.99739	0.428
41DAP/reference	0.80386	0.089
42DAP/reference	0.86893	0.055
43DAP/reference	0.56646	0.048
47DAP/reference	0.82722	0.011
52DAP/reference	0.49515	0.004
57DAP/reference	0.53307	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.29992	0.016
17DAP/reference	2.26463	0.111
27DAP/reference	1.85361	0.024
39DAP/reference	1.60071	0.012
41DAP/reference	1.19528	0.072
42DAP/reference	0.88342	0.134
43DAP/reference	0.90067	0.246
47DAP/reference	0.77532	0.01
52DAP/reference	0.59369	0.069
57DAP/reference	1.13295	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16798	0.966
26DAP/20DAP	1.03542	1
34DAP/26DAP	1.11582	1
51DAP/34DAP	0.74175	0.127
52DAP/51DAP	0.99866	1
53DAP/52DAP	1.05632	0.797
55DAP/53DAP	1.09433	0.477
57DAP/55DAP	1.01176	1
62DAP/57DAP	1.07166	0.723
68DAP/62DAP	0.85641	0.7
68DAP/14DAP	0.97231	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27241	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.55576	0.058
Mature Green Tomato/Ripe Tomato	10.4564
Immature Eggplant/Mature Eggplant	0.68413	0.064
Ripe Pepper/Ripe Tomato	0.91855	1
Mature Eggplant/Ripe Tomato	2.75548	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11537	0.742
1-1-2/M82	0.83547	0.804
12-2/M82	1.07061	0.61
12-4/M82	1.0901	1
1-3/M82	0.92442	1
2-1-1/M82	0.84117
2-1/M82	1.01247
2-6/M82	0.99688	1
3-2/M82	0.69309
4-1-1/M82	1.20618	0.968
4-1/M82	0.9378	1
4-3-2/M82	1.02141
4-3/M82	1.24261	1
5-3/M82	1.16649	0.496
6-2/M82	0.88228	0.497
6-3/M82	0.95808	1
7-1/M82	1.0074
7-2/M82	1.01145	1
9-3-2/M82	1.05364	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72738	0.247
IL2-6/WTpooled	0.92097	0.473
IL7-5/WTpooled	1.27871	0.792
IL7-3/WTpooled	1.16391	1
IL12-4/WTpooled	1.08024	0.839
IL1-4/WTpooled	0.91099	0.834
WT/WTpooled	0.90272	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	1.0114	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00667	1
DC3000/delta hrp 6h	0.86747	0.95
DC3000/delta hrp 12h	1.29732
DC3000/delta hrp 24h	0.86257	0.155

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.57715	0.033
DC3000 delta B/DC3000 delta AB	0.39424	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92649	1
Exp 36h	0.74756	0.37
Exp 60h	0.79017	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.11131	1
Var 0h	1.01069	1
Var 12h I row2-row1	0.80783	0.514
Var 12h NI row2-row1	0.93953	0.82
Var 36h I row2-row1	0.8768	1
Var 36h NI row2-row1	0.99161	0.852
Var 60h I row2-row1	1.22471	0.562
Var 60h NI row2-row1	0.97896	1
Time course 0hI-0hNI	0.96108	0.812
Time course 12hI-12hNI	0.90996	0.47
Time course 36hI-36hNI	0.87198	0.114
Time course 60hI-60hNI	0.1371	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)	1.15192	0.654
transgenic ySAMdc/azygous control (breaker)	4.18619	0.165
transgenic ySAMdc/azygous control (red)	1.07965	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94114	0.393

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.70497	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.22311	0.087
Manapal/WT (break)	7.6936	0.13
Manapal/WT (red)	7.19288	0.15