Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03666	0.977
27DAP/17DAP	0.87376	0.683
39DAP/27DAP	0.74411	0.421
41DAP/39DAP	0.84077	0.381
42DAP/41DAP	0.83818	1
43DAP/42DAP	1.1309	0.937
47DAP/43DAP	0.69599	0.199
52DAP/47DAP	0.75918	0.391
57DAP/52DAP	1.19942	0.794

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.64004	0.04
17DAP/reference	1.30235	0.044
27DAP/reference	1.07188	0.58
39DAP/reference	0.94822	0.638
41DAP/reference	1.09855	0.122
42DAP/reference	0.79876	0.007
43DAP/reference	0.91191	0.346
47DAP/reference	0.77178	0.001
52DAP/reference	0.77335	0.046
57DAP/reference	0.8899	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82494	0.17
27DAP/17DAP	1.31469	0.091
39DAP/27DAP	0.60512	0.044
41DAP/39DAP	1.37813	0.355
42DAP/41DAP	0.90919	0.365
43DAP/42DAP	0.56249	0.022
47DAP/43DAP	1.19986	0.765
52DAP/47DAP	0.99913	0.959
57DAP/52DAP	0.91514	0.356
57DAP/7DAP	0.92908	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.49421	0.024
17DAP/reference	1.32903	0.014
27DAP/reference	1.27235	0.009
39DAP/reference	1.1902	0.267
41DAP/reference	1.11117	0.223
42DAP/reference	1.02111	0.828
43DAP/reference	1.01783	0.764
47DAP/reference	0.91445	0.383
52DAP/reference	0.85145	0.077
57DAP/reference	0.8043	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41906	0.052
17DAP/reference	1.61025	0.009
27DAP/reference	1.39564	0.026
39DAP/reference	1.11364	0.272
41DAP/reference	1.08509	0.536
42DAP/reference	0.99575	0.723
43DAP/reference	1.05403	0.582
47DAP/reference	1.00321	0.73
52DAP/reference	0.95475	0.407
57DAP/reference	0.83536	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.559	0.016
17DAP/reference	1.09064	0.631
27DAP/reference	1.03154	1
39DAP/reference	0.95885	0.504
41DAP/reference	1.04776	0.796
42DAP/reference	0.80167	0.036
43DAP/reference	0.88563	0.226
47DAP/reference	0.81573	0.06
52DAP/reference	1.24987	0.491
57DAP/reference	0.74565	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.45281	0.966
26DAP/20DAP	1.44356	0.145
34DAP/26DAP	1.11625	1
51DAP/34DAP	1.05262	0.785
52DAP/51DAP	1.05422	1
53DAP/52DAP	1.36638	0.063
55DAP/53DAP	1.07883	0.771
57DAP/55DAP	0.97173	0.831
62DAP/57DAP	0.57285	0.01
68DAP/62DAP	1.03615	1
68DAP/14DAP	0.85595	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65866	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.90004	0.059
Mature Green Tomato/Ripe Tomato	8.51256	0.015
Immature Eggplant/Mature Eggplant	0.96695	0.912
Ripe Pepper/Ripe Tomato	14.6089	0.256
Mature Eggplant/Ripe Tomato	45.1803	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.22065	1
12-2/M82	N/A	N/A
12-4/M82	1.62148
1-3/M82	N/A	N/A
2-1-1/M82	1.12312	1
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	2.71081
4-1-1/M82	N/A	N/A
4-1/M82	1.40738
4-3-2/M82	0.64927
4-3/M82	0.49622
5-3/M82	1.15306	1
6-2/M82	N/A	N/A
6-3/M82	0.3326
7-1/M82	1.01682	1
7-2/M82	3.21798
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99561	1
IL2-6/WTpooled	1.34292
IL7-5/WTpooled	1.07778	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.88523	0.834
WT/WTpooled	1.18537	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	0.88841	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00584	1
DC3000/delta hrp 6h	0.96079	0.95
DC3000/delta hrp 12h	0.91988	1
DC3000/delta hrp 24h	1.25449	0.271

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.12461
DC3000 delta B/DC3000 delta AB	0.97065	0.873

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09712	1
Exp 36h	1.10306	1
Exp 60h	0.78683	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03522	1
Var 0h	1.05371	1
Var 12h I row2-row1	0.98792	1
Var 12h NI row2-row1	1.31052	0.281
Var 36h I row2-row1	1.1711	0.908
Var 36h NI row2-row1	0.75927	0.421
Var 60h I row2-row1	1.0347	0.562
Var 60h NI row2-row1	0.74246	0.359
Time course 0hI-0hNI	0.98449	0.934
Time course 12hI-12hNI	1.12232	0.743
Time course 36hI-36hNI	1.01846	0.826
Time course 60hI-60hNI	0.77128	0.047

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)	0.96196	0.662
transgenic ySAMdc/azygous control (breaker)	2.15532	0.248
transgenic ySAMdc/azygous control (red)	1.17535	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16191	0.045

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.53643	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83408	1
Manapal/WT (break)	0.42879	0.333
Manapal/WT (red)	N/A	N/A