Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05552	0.876
27DAP/17DAP	0.9036	0.783
39DAP/27DAP	1.32826	0.702
41DAP/39DAP	1.04088	0.96
42DAP/41DAP	1.24461	0.66
43DAP/42DAP	0.96343	0.91
47DAP/43DAP	1.21648	0.563
52DAP/47DAP	0.82233	0.579
57DAP/52DAP	0.96961	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30695	0.041
17DAP/reference	1.44574	0.427
27DAP/reference	1.25344	0.06
39DAP/reference	1.2647	0.075
41DAP/reference	1.76317	0.062
42DAP/reference	1.30902	0.113
43DAP/reference	0.97932	0.763
47DAP/reference	1.03455	0.636
52DAP/reference	1.13846	0.607
57DAP/reference	0.9456	0.294

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.56163	0.027
27DAP/17DAP	1.35362	0.055
39DAP/27DAP	0.81654	0.061
41DAP/39DAP	0.74447	0.038
42DAP/41DAP	0.96862	0.753
43DAP/42DAP	1.03841	0.554
47DAP/43DAP	1.03996	0.817
52DAP/47DAP	1.00603	1
57DAP/52DAP	1.15324	0.35
57DAP/7DAP	0.9008	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95954	0.495
17DAP/reference	0.92346	0.22
27DAP/reference	0.83725	0.146
39DAP/reference	0.68617	0.023
41DAP/reference	0.70767	0.098
42DAP/reference	0.55223	0.014
43DAP/reference	0.87998	0.115
47DAP/reference	0.94507	0.504
52DAP/reference	0.79661	0.106
57DAP/reference	1.02377	0.477

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15681	0.269
17DAP/reference	1.7293	0.032
27DAP/reference	1.04715	0.86
39DAP/reference	1.16162	0.705
41DAP/reference	1.13653	0.406
42DAP/reference	1.40887	0.026
43DAP/reference	1.66376	0.126
47DAP/reference	1.24222	0.046
52DAP/reference	1.47053	0.03
57DAP/reference	1.74617	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09133	0.882
17DAP/reference	0.93125	0.433
27DAP/reference	0.87347	0.195
39DAP/reference	0.95756	0.464
41DAP/reference	0.80339	0.07
42DAP/reference	0.98815	0.816
43DAP/reference	0.8676	0.256
47DAP/reference	1.23137	0.461
52DAP/reference	1.39313	0.801
57DAP/reference	0.67707	0.065

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08606	0.966
26DAP/20DAP	0.96362	1
34DAP/26DAP	1.0287	1
51DAP/34DAP	0.69429	0.063
52DAP/51DAP	1.09097	0.51
53DAP/52DAP	0.87399	0.379
55DAP/53DAP	0.87367	0.233
57DAP/55DAP	1.07322	0.841
62DAP/57DAP	1.06225	1
68DAP/62DAP	0.7858	0.378
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.47491	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.20721	0.267
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.584
Mature Eggplant/Ripe Tomato	0.85109

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	N/A	N/A
12-4/M82	1.10013	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	N/A	N/A
3-2/M82	1.49933
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.66514
4-3/M82	N/A	N/A
5-3/M82	1.17474	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.66281
7-2/M82	1.48056
9-3-2/M82	1.43794	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.94318
IL7-3/WTpooled	0.91357
IL12-4/WTpooled	1.1911	0.695
IL1-4/WTpooled	0.84286	0.834
WT/WTpooled	0.97754	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	0.65428	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97172	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.19389	1
DC3000/delta hrp 24h	0.56126	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.48087	0.023
DC3000 delta B/DC3000 delta AB	0.57553	0.02

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	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	1.03531	1
Var 0h	0.98516	1
Var 12h I row2-row1	0.82383	0.363
Var 12h NI row2-row1	0.90515	0.713
Var 36h I row2-row1	1.05582	1
Var 36h NI row2-row1	0.88321	0.482
Var 60h I row2-row1	1.1025	0.543
Var 60h NI row2-row1	1.12545	0.904
Time course 0hI-0hNI	1.10433	0.451
Time course 12hI-12hNI	0.93942	0.562
Time course 36hI-36hNI	0.81818	0.04
Time course 60hI-60hNI	0.18545	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.74616	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92974	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.87133	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.15255	1