Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.1.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13099	0.681
27DAP/17DAP	0.91251	0.807
39DAP/27DAP	1.40543	0.408
41DAP/39DAP	1.50348	0.367
42DAP/41DAP	0.77265	0.774
43DAP/42DAP	0.88796	0.787
47DAP/43DAP	0.9332	0.701
52DAP/47DAP	1.22798	0.61
57DAP/52DAP	1.1568	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15411	0.041
17DAP/reference	0.96242	0.448
27DAP/reference	0.90763	0.137
39DAP/reference	1.12564	0.214
41DAP/reference	1.02548	0.963
42DAP/reference	1.06732	0.01
43DAP/reference	1.05289	0.617
47DAP/reference	1.03235	0.773
52DAP/reference	0.99965	0.73
57DAP/reference	1.09802	0.109

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03491	0.99
27DAP/17DAP	0.84919	0.508
39DAP/27DAP	1.04333	0.824
41DAP/39DAP	0.88369	0.265
42DAP/41DAP	1.09301	0.593
43DAP/42DAP	1.37346	0.02
47DAP/43DAP	1.12132	0.699
52DAP/47DAP	0.79432	0.1
57DAP/52DAP	1.1635	0.666
57DAP/7DAP	0.974	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21464	0.069
17DAP/reference	1.0106	1
27DAP/reference	0.91962	0.215
39DAP/reference	1.31075	0.175
41DAP/reference	1.27447	0.016
42DAP/reference	1.2441	0.174
43DAP/reference	1.15047	0.241
47DAP/reference	1.241	0.025
52DAP/reference	1.12512	0.015
57DAP/reference	1.15147	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19164	0.049
17DAP/reference	1.14212	0.21
27DAP/reference	1.24302	0.026
39DAP/reference	1.2217	0.03
41DAP/reference	1.27783	0.035
42DAP/reference	1.2189	0.02
43DAP/reference	1.08107	0.719
47DAP/reference	1.15285	0.148
52DAP/reference	0.99508	0.666
57DAP/reference	0.91339	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03856	0.723
17DAP/reference	1.01365	0.9
27DAP/reference	1.04776	0.934
39DAP/reference	1.37906	0.227
41DAP/reference	1.21446	0.333
42DAP/reference	1.26837	0.114
43DAP/reference	1.27014	0.796
47DAP/reference	0.93314	0.306
52DAP/reference	0.83988	0.256
57DAP/reference	1.35549	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82881	0.52
26DAP/20DAP	1.25159	0.262
34DAP/26DAP	1.06391	1
51DAP/34DAP	0.76839	0.402
52DAP/51DAP	1.13694	0.708
53DAP/52DAP	0.85777	0.27
55DAP/53DAP	1.02856	1
57DAP/55DAP	1.17668	0.779
62DAP/57DAP	1.03091	0.935
68DAP/62DAP	1.00282	0.914
68DAP/14DAP	0.7926	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.65641	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.57009
Mature Green Tomato/Ripe Tomato	0.98895	0.835
Immature Eggplant/Mature Eggplant	0.79189	1
Ripe Pepper/Ripe Tomato	0.17642	0.224
Mature Eggplant/Ripe Tomato	0.38592	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05058	1
1-1-2/M82	0.86012
12-2/M82	0.94696	0.955
12-4/M82	0.96058	1
1-3/M82	0.97618
2-1-1/M82	0.84841
2-1/M82	1.24132
2-6/M82	0.96768	1
3-2/M82	N/A	N/A
4-1-1/M82	1.15035
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.93541
5-3/M82	0.94874	1
6-2/M82	0.96577	1
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.99189
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81242	0.321
IL2-6/WTpooled	0.88778	0.348
IL7-5/WTpooled	1.16889	0.67
IL7-3/WTpooled	0.69365	1
IL12-4/WTpooled	0.9351	1
IL1-4/WTpooled	1.06199	1
WT/WTpooled	1.1911	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	1.01672	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97002	1
DC3000/delta hrp 6h	0.96309	0.95
DC3000/delta hrp 12h	1.00494	1
DC3000/delta hrp 24h	0.8049	0.087

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.45167	0.646

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.09681	1
Exp 60h	1.00917	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04083	1
Var 0h	0.72731	0.258
Var 12h I row2-row1	0.95864	0.856
Var 12h NI row2-row1	0.99403
Var 36h I row2-row1	0.88767	0.575
Var 36h NI row2-row1	1.07286	1
Var 60h I row2-row1	0.9499	0.306
Var 60h NI row2-row1	1.07943	0.904
Time course 0hI-0hNI	1.00693	1
Time course 12hI-12hNI	0.98794	0.953
Time course 36hI-36hNI	0.92367	0.202
Time course 60hI-60hNI	0.83078	0.011

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)	0.95848	0.391
transgenic ySAMdc/azygous control (breaker)	1.26761	0.172
transgenic ySAMdc/azygous control (red)	1.09869	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96267	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07706	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2257	0.105
Manapal/WT (break)	1.14203	1
Manapal/WT (red)	1.71139	0.126