Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.10.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93596	0.578
27DAP/17DAP	0.83965	0.589
39DAP/27DAP	0.79988	0.495
41DAP/39DAP	0.80913	0.299
42DAP/41DAP	0.89242	1
43DAP/42DAP	1.05805	1
47DAP/43DAP	0.73663	0.251
52DAP/47DAP	0.86826	0.63
57DAP/52DAP	0.93431	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32785	0.015
17DAP/reference	0.90787	0.278
27DAP/reference	1.01508	0.867
39DAP/reference	0.93725	0.424
41DAP/reference	0.78117	0.011
42DAP/reference	0.84031	0.176
43DAP/reference	0.89054	0.054
47DAP/reference	0.88047	0.106
52DAP/reference	0.76751	0.062
57DAP/reference	0.88944	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19542	0.305
27DAP/17DAP	0.76892	0.121
39DAP/27DAP	0.7293	0.048
41DAP/39DAP	1.17091	0.674
42DAP/41DAP	0.88788	0.241
43DAP/42DAP	0.74282	0.022
47DAP/43DAP	0.98438	0.93
52DAP/47DAP	0.99338	0.925
57DAP/52DAP	0.68809	0.156
57DAP/7DAP	0.5992	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.73377	0.035
17DAP/reference	1.1561	0.18
27DAP/reference	0.94701	0.185
39DAP/reference	1.27017	0.114
41DAP/reference	0.93713	0.341
42DAP/reference	0.98874	0.582
43DAP/reference	1.10975	0.226
47DAP/reference	1.00797	1
52DAP/reference	0.98464	0.571
57DAP/reference	1.00114	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35213	0.114
17DAP/reference	0.95368	0.41
27DAP/reference	0.86936	0.195
39DAP/reference	0.79636	0.009
41DAP/reference	0.85524	0.098
42DAP/reference	0.75397	0.027
43DAP/reference	0.74031	0.035
47DAP/reference	0.75747	0.011
52DAP/reference	0.8079	0.043
57DAP/reference	0.69381	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.07649	0.015
17DAP/reference	1.17661	0.306
27DAP/reference	1.20554	0.054
39DAP/reference	1.17976	0.017
41DAP/reference	1.09212	0.265
42DAP/reference	1.17888	0.094
43DAP/reference	1.12963	0.121
47DAP/reference	0.92974	0.315
52DAP/reference	0.9302	0.464
57DAP/reference	1.01566	0.888

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14168	0.966
26DAP/20DAP	1.00935	1
34DAP/26DAP	1.20764	0.819
51DAP/34DAP	1.19083	0.365
52DAP/51DAP	0.93719	1
53DAP/52DAP	1.09782	0.623
55DAP/53DAP	1.20547	0.755
57DAP/55DAP	1.59973	0.71
62DAP/57DAP	0.97224	0.994
68DAP/62DAP	1.62171	0.037
68DAP/14DAP	1.04235	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.50882	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93148	0.539
Mature Green Tomato/Ripe Tomato	11.2489	0.015
Immature Eggplant/Mature Eggplant	0.50464	0.082
Ripe Pepper/Ripe Tomato	8.84174	0.256
Mature Eggplant/Ripe Tomato	8.04686	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.68431
12-2/M82	N/A	N/A
12-4/M82	0.6933	0.358
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	0.86296
2-6/M82	N/A	N/A
3-2/M82	0.7427
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.62824
4-3/M82	N/A	N/A
5-3/M82	1.0655	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.92262	1
7-2/M82	1.73736
9-3-2/M82	1.46004

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.56789	0.365
IL2-6/WTpooled	4.33407	0.419
IL7-5/WTpooled	0.54695	0.483
IL7-3/WTpooled	0.72864
IL12-4/WTpooled	2.69894	0.503
IL1-4/WTpooled	0.97743	1
WT/WTpooled	1.02228	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	0.78731	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93081	1
DC3000/delta hrp 6h	1.03966	1
DC3000/delta hrp 12h	1.58262	1
DC3000/delta hrp 24h	0.55341	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.68079	0.027
DC3000 delta B/DC3000 delta AB	0.69366	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96522	1
Exp 36h	0.56939	0.165
Exp 60h	0.5136	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98529	1
Var 0h	0.95647	1
Var 12h I row2-row1	0.74498	0.338
Var 12h NI row2-row1	0.9864	1
Var 36h I row2-row1	0.95509	0.805
Var 36h NI row2-row1	1.25324	0.276
Var 60h I row2-row1	1.01472	1
Var 60h NI row2-row1	0.97578	1
Time course 0hI-0hNI	0.96798	0.824
Time course 12hI-12hNI	1.0104	0.82
Time course 36hI-36hNI	1.054	0.401
Time course 60hI-60hNI	0.18534	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)	0.97508	0.454
transgenic ySAMdc/azygous control (breaker)	1.40385	0.248
transgenic ySAMdc/azygous control (red)	1.20516	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90228	0.208

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.41324	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.77085	0.083
Manapal/WT (break)	3.17873	0.13
Manapal/WT (red)	1.90129	0.133