Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.18.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07678	1
27DAP/17DAP	0.47028	0.033
39DAP/27DAP	0.81305	0.443
41DAP/39DAP	0.73656	0.223
42DAP/41DAP	0.56354	0.397
43DAP/42DAP	1.09454	1
47DAP/43DAP	0.48614	0.055
52DAP/47DAP	1.00772	0.854
57DAP/52DAP	1.04332	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72146	0.074
17DAP/reference	0.48317	0.009
27DAP/reference	0.38899	0.012
39DAP/reference	0.35676	0.012
41DAP/reference	0.30419	0.008
42DAP/reference	0.31504	0.001
43DAP/reference	0.14848	0.012
47DAP/reference	0.16752	0.001
52DAP/reference	0.12939	0.01
57DAP/reference	0.16469	0.007

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.83009	0.036
27DAP/17DAP	0.74063	0.279
39DAP/27DAP	0.34773	0.028
41DAP/39DAP	1.41362	0.061
42DAP/41DAP	0.783	0.022
43DAP/42DAP	0.62276	0.022
47DAP/43DAP	1.04725	0.837
52DAP/47DAP	0.93449	0.726
57DAP/52DAP	0.81532	0.418
57DAP/7DAP	0.29457	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09365	0.576
17DAP/reference	0.82073	0.016
27DAP/reference	0.54605	0.01
39DAP/reference	0.49941	0.011
41DAP/reference	0.40957	0.013
42DAP/reference	0.39654	0.01
43DAP/reference	0.32721	0.01
47DAP/reference	0.27427	0.03
52DAP/reference	0.39465	0.01
57DAP/reference	0.4627	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59758	0.034
17DAP/reference	0.60663	0.047
27DAP/reference	0.6813	0.087
39DAP/reference	0.38186	0.01
41DAP/reference	0.382	0.005
42DAP/reference	0.35285	0.011
43DAP/reference	0.24728	0.002
47DAP/reference	0.2311	0.007
52DAP/reference	0.22027	0.003
57DAP/reference	0.1641	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.01877	0.017
17DAP/reference	1.77919	0.111
27DAP/reference	1.31643	0.062
39DAP/reference	1.06174	1
41DAP/reference	0.69628	0.025
42DAP/reference	0.5522	0.028
43DAP/reference	0.64947	0.024
47DAP/reference	0.25104	0.004
52DAP/reference	0.31756	0.055
57DAP/reference	1.65861	0.56

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9857	1
26DAP/20DAP	1.04289	1
34DAP/26DAP	0.84244	0.479
51DAP/34DAP	0.4018	0.049
52DAP/51DAP	0.98904	1
53DAP/52DAP	0.51234	0.049
55DAP/53DAP	0.53553	0.017
57DAP/55DAP	1.0068	1
62DAP/57DAP	1.56598	0.133
68DAP/62DAP	1.17941	0.912
68DAP/14DAP	0.47792	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.58194	0.065

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.19315	0.058
Mature Green Tomato/Ripe Tomato	6.48766	0.015
Immature Eggplant/Mature Eggplant	0.48985	0.058
Ripe Pepper/Ripe Tomato	3.60107	1
Mature Eggplant/Ripe Tomato	6.84374	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.81039	0.651
1-1-2/M82	1.00623	1
12-2/M82	0.67637	0.862
12-4/M82	0.9844	1
1-3/M82	N/A	N/A
2-1-1/M82	0.9166
2-1/M82	0.98027
2-6/M82	N/A	N/A
3-2/M82	1.04801	0.461
4-1-1/M82	1.52326
4-1/M82	N/A	N/A
4-3-2/M82	1.62042	0.241
4-3/M82	1.18886	1
5-3/M82	1.48766	0.572
6-2/M82	1.3169
6-3/M82	0.957	1
7-1/M82	1.1514	0.992
7-2/M82	0.97258	1
9-3-2/M82	1.21965	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29134	0.277
IL2-6/WTpooled	1.2918	0.361
IL7-5/WTpooled	1.30296	0.792
IL7-3/WTpooled	1.44606	1
IL12-4/WTpooled	1.08456	0.737
IL1-4/WTpooled	0.89614	0.834
WT/WTpooled	1.0541	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	0.92374	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00192	1
DC3000/delta hrp 6h	0.97097	0.95
DC3000/delta hrp 12h	0.96674	1
DC3000/delta hrp 24h	1.05332	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.73114
DC3000 delta B/DC3000 delta AB	0.60312	0.035

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00472	1
Exp 36h	0.91414	0.699
Exp 60h	0.8519	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97674	1
Var 0h	1.17376	0.594
Var 12h I row2-row1	1.20506	0.613
Var 12h NI row2-row1	0.97858	0.906
Var 36h I row2-row1	1.04819	1
Var 36h NI row2-row1	1.03063	1
Var 60h I row2-row1	1.35809	0.562
Var 60h NI row2-row1	1.06016	1
Time course 0hI-0hNI	1.04266	1
Time course 12hI-12hNI	1.1081	0.482
Time course 36hI-36hNI	1.02806	0.857
Time course 60hI-60hNI	0.62793	0.081

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)	1.11906	0.571
transgenic ySAMdc/azygous control (breaker)	2.26132	0.166
transgenic ySAMdc/azygous control (red)	1.15616	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.4702	0.078

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.23942	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.07423	0.083
Manapal/WT (break)	2.92314	0.123
Manapal/WT (red)	0.94642	0.607