Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01029	0.961
27DAP/17DAP	1.17814	0.801
39DAP/27DAP	0.70247	0.196
41DAP/39DAP	1.27178	0.268
42DAP/41DAP	1.05039	1
43DAP/42DAP	1.07205	1
47DAP/43DAP	1.06885	0.769
52DAP/47DAP	0.87765	0.657
57DAP/52DAP	1.10379	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92435	0.344
17DAP/reference	0.97985	0.664
27DAP/reference	0.97187	0.581
39DAP/reference	1.14359	0.165
41DAP/reference	1.00441	1
42DAP/reference	1.04891	0.544
43DAP/reference	1.02431	0.838
47DAP/reference	0.97017	0.345
52DAP/reference	0.99032	0.58
57DAP/reference	1.08135	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9944	0.801
27DAP/17DAP	1.10771	0.805
39DAP/27DAP	1.02537	0.832
41DAP/39DAP	1.04415	1
42DAP/41DAP	0.87963	0.402
43DAP/42DAP	1.00693	1
47DAP/43DAP	1.01896	1
52DAP/47DAP	0.89278	0.746
57DAP/52DAP	0.87486	0.213
57DAP/7DAP	1.17187	0.132

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80516	0.088
17DAP/reference	0.77719	0.015
27DAP/reference	0.96307	0.303
39DAP/reference	0.6681	0.011
41DAP/reference	0.74292	0.015
42DAP/reference	0.80451	0.014
43DAP/reference	0.72611	0.013
47DAP/reference	0.90275	0.383
52DAP/reference	0.74336	0.021
57DAP/reference	0.78745	0.041

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00446	0.97
17DAP/reference	0.84434	0.047
27DAP/reference	0.94752	0.381
39DAP/reference	0.93964	0.214
41DAP/reference	1.00918	0.702
42DAP/reference	1.33656	0.054
43DAP/reference	1.57275	0.035
47DAP/reference	1.62994	0.008
52DAP/reference	1.14106	0.023
57DAP/reference	1.06475	0.755

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73653	0.041
17DAP/reference	1.00084	0.751
27DAP/reference	0.78513	0.085
39DAP/reference	0.89161	0.271
41DAP/reference	0.97367	0.56
42DAP/reference	0.87993	0.059
43DAP/reference	0.74191	0.031
47DAP/reference	1.08512	0.115
52DAP/reference	0.94265	0.518
57DAP/reference	0.96937	0.534

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94465	1
26DAP/20DAP	1.53836	0.132
34DAP/26DAP	1.68411	0.542
51DAP/34DAP	0.92143	0.743
52DAP/51DAP	0.81529	1
53DAP/52DAP	0.98264	0.951
55DAP/53DAP	1.23123	0.519
57DAP/55DAP	0.88003	0.499
62DAP/57DAP	1.64333	0.098
68DAP/62DAP	0.97978	0.885
68DAP/14DAP	0.87876	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.27801	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	13.9153	0.058
Mature Green Tomato/Ripe Tomato	0.69724	0.119
Immature Eggplant/Mature Eggplant	11.0985	0.05
Ripe Pepper/Ripe Tomato	4.82394	1
Mature Eggplant/Ripe Tomato	1.89657	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91019	0.708
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	42.7048	1
1-3/M82	0.94028	0.501
2-1-1/M82	0.97777	0.92
2-1/M82	1.25512	1
2-6/M82	0.99506	1
3-2/M82	0.945
4-1-1/M82	0.92561	1
4-1/M82	1.05945	1
4-3-2/M82	0.71681
4-3/M82	0.83103	0.72
5-3/M82	1.0237	1
6-2/M82	0.98641	1
6-3/M82	0.9178	0.982
7-1/M82	0.97146
7-2/M82	1.05528	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.48526
IL2-6/WTpooled	1.34508
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.80651
IL12-4/WTpooled	1.19523	0.695
IL1-4/WTpooled	0.96263	1
WT/WTpooled	1.3641	0.874

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	1.90403	0.148

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95098	1
DC3000/delta hrp 6h	1.07596
DC3000/delta hrp 12h	1.15419	1
DC3000/delta hrp 24h	1.06802	0.567

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	4.26555	0.034

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.06892	1
Exp 60h	0.89656	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.84092
Var 0h	0.6269	1
Var 12h I row2-row1	0.76434	0.565
Var 12h NI row2-row1	0.78826	0.546
Var 36h I row2-row1	0.93866	1
Var 36h NI row2-row1	0.93653	0.791
Var 60h I row2-row1	0.76952	0.306
Var 60h NI row2-row1	0.90974	0.977
Time course 0hI-0hNI	1.03227	0.867
Time course 12hI-12hNI	1.0692	0.885
Time course 36hI-36hNI	1.95218	0.006
Time course 60hI-60hNI	17.8576	0.008

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)	1.46951	0.863
transgenic ySAMdc/azygous control (breaker)	0.40663	0.139
transgenic ySAMdc/azygous control (red)	1.29923	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03503	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73332	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.5636	0.307
Manapal/WT (break)	0.8394	1
Manapal/WT (red)	0.72104	0.181