Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.17.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89742	0.522
27DAP/17DAP	0.90669	0.791
39DAP/27DAP	1.27513	0.497
41DAP/39DAP	0.6409	0.062
42DAP/41DAP	1.40051	0.295
43DAP/42DAP	1.02685	0.937
47DAP/43DAP	0.93239	0.746
52DAP/47DAP	0.97601	0.8
57DAP/52DAP	1.10395	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09136	0.788
17DAP/reference	0.77887	0.012
27DAP/reference	1.18896	0.106
39DAP/reference	0.73771	0.17
41DAP/reference	0.81258	0.031
42DAP/reference	0.93814	0.259
43DAP/reference	1.05035	0.899
47DAP/reference	1.32216	0.353
52DAP/reference	2.13654	0.008
57DAP/reference	1.87577	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01734	0.899
27DAP/17DAP	1.19743	0.39
39DAP/27DAP	0.93991	0.54
41DAP/39DAP	1.25561	0.69
42DAP/41DAP	1.09759	0.719
43DAP/42DAP	0.84411	0.049
47DAP/43DAP	0.94174	0.656
52DAP/47DAP	0.85356	0.255
57DAP/52DAP	1.03453	0.917
57DAP/7DAP	0.80398	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79751	0.138
17DAP/reference	0.74314	0.049
27DAP/reference	0.99135	0.614
39DAP/reference	0.8543	0.064
41DAP/reference	0.88432	0.174
42DAP/reference	0.9309	0.32
43DAP/reference	0.81021	0.091
47DAP/reference	1.16527	0.761
52DAP/reference	0.69627	0.012
57DAP/reference	0.93878	0.26

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8613	0.257
17DAP/reference	0.76028	0.03
27DAP/reference	1.21823	0.244
39DAP/reference	1.51724	0.014
41DAP/reference	1.53497	0.014
42DAP/reference	1.26973	0.039
43DAP/reference	0.97948	0.468
47DAP/reference	0.85301	0.054
52DAP/reference	1.24204	0.074
57DAP/reference	0.81894	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86876	0.119
17DAP/reference	0.926	0.389
27DAP/reference	0.89269	0.155
39DAP/reference	0.89104	0.111
41DAP/reference	1.02332	1
42DAP/reference	1.32274	0.566
43DAP/reference	1.31759	0.19
47DAP/reference	1.15624	0.792
52DAP/reference	0.89487	0.289
57DAP/reference	2.0544	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11794	0.966
26DAP/20DAP	0.99117	1
34DAP/26DAP	1.05063	1
51DAP/34DAP	0.76015	0.084
52DAP/51DAP	0.93043	1
53DAP/52DAP	1.00305	1
55DAP/53DAP	1.03119	0.939
57DAP/55DAP	1.12	0.969
62DAP/57DAP	1.22563	0.767
68DAP/62DAP	2.81431	0.155
68DAP/14DAP	3.70544	0.025

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.37745	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.58639	0.07
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.62879
Mature Eggplant/Ripe Tomato	0.94602	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.3312	0.877
1-1-2/M82	1.02748	1
12-2/M82	0.63163	0.955
12-4/M82	0.98118	1
1-3/M82	1.20127	0.255
2-1-1/M82	1.07845	1
2-1/M82	1.22963	1
2-6/M82	0.82177	1
3-2/M82	1.35722
4-1-1/M82	1.09286	1
4-1/M82	0.96156
4-3-2/M82	0.78264
4-3/M82	0.99926	1
5-3/M82	1.23079	0.572
6-2/M82	1.07601	1
6-3/M82	1.08753
7-1/M82	1.00258	1
7-2/M82	1.07863
9-3-2/M82	1.04812	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66319	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.62511	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.07399	1
WT/WTpooled	N/A	N/A

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	1.09726	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02161	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.97145
DC3000/delta hrp 24h	1.54772	0.057

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22094	0.068
DC3000 delta B/DC3000 delta AB	1.24043	0.198

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02122	1
Var 0h	0.43756	1
Var 12h I row2-row1	1.06362	0.795
Var 12h NI row2-row1	1.25508	0.34
Var 36h I row2-row1	1.1102	0.283
Var 36h NI row2-row1	0.79069	0.45
Var 60h I row2-row1	1.08995	0.523
Var 60h NI row2-row1	0.79997	0.304
Time course 0hI-0hNI	0.88284	0.16
Time course 12hI-12hNI	1.02649	0.77
Time course 36hI-36hNI	1.20814	0.166
Time course 60hI-60hNI	1.33577	0.025

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.24424	0.139
transgenic ySAMdc/azygous control (red)	1.34254	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07564	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.64034	0.333
Manapal/WT (red)	0.83261	0.36