Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9555	0.713
27DAP/17DAP	0.90827	0.764
39DAP/27DAP	1.39546	0.323
41DAP/39DAP	0.82658	0.357
42DAP/41DAP	1.02772	1
43DAP/42DAP	1.0639	1
47DAP/43DAP	0.89897	0.66
52DAP/47DAP	1.20324	0.873
57DAP/52DAP	1.40755	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21002	0.154
17DAP/reference	0.98217	0.701
27DAP/reference	1.3888	0.011
39DAP/reference	0.98816	0.855
41DAP/reference	0.97811	0.667
42DAP/reference	1.32963	0.001
43DAP/reference	1.17947	0.518
47DAP/reference	1.37593	0.001
52DAP/reference	1.84129	0.014
57DAP/reference	1.78121	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00883	1
27DAP/17DAP	1.01029	1
39DAP/27DAP	0.96143	0.594
41DAP/39DAP	1.21589	0.641
42DAP/41DAP	1.07752	1
43DAP/42DAP	0.8555	0.121
47DAP/43DAP	1.05176	0.812
52DAP/47DAP	0.97626	0.902
57DAP/52DAP	1.05849	0.708
57DAP/7DAP	0.71309	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84884	0.138
17DAP/reference	0.70646	0.011
27DAP/reference	0.65121	0.01
39DAP/reference	0.73111	0.011
41DAP/reference	0.8723	0.184
42DAP/reference	0.86345	0.189
43DAP/reference	0.7001	0.015
47DAP/reference	0.87599	0.293
52DAP/reference	0.73638	0.035
57DAP/reference	0.81072	0.069

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30043	0.258
17DAP/reference	1.93751	0.009
27DAP/reference	1.25517	0.149
39DAP/reference	1.33645	0.018
41DAP/reference	1.22588	0.221
42DAP/reference	1.20153	0.14
43DAP/reference	1.12758	0.802
47DAP/reference	1.15977	0.098
52DAP/reference	1.5045	0.009
57DAP/reference	1.42432	0.094

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81767	0.077
17DAP/reference	1.01624	0.825
27DAP/reference	0.65617	0.036
39DAP/reference	0.76399	0.031
41DAP/reference	0.7671	0.037
42DAP/reference	0.86634	0.287
43DAP/reference	1.00528	0.568
47DAP/reference	1.08834	0.704
52DAP/reference	0.86587	0.385
57DAP/reference	1.31636	0.354

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11914	0.966
26DAP/20DAP	1.44847	0.109
34DAP/26DAP	0.85812	0.509
51DAP/34DAP	1.0392	0.814
52DAP/51DAP	0.82335	1
53DAP/52DAP	0.9596	0.83
55DAP/53DAP	0.79966	0.21
57DAP/55DAP	1.0354	0.969
62DAP/57DAP	0.84325	0.681
68DAP/62DAP	0.93321	0.722
68DAP/14DAP	1.23718	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.55596	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.06273	0.814
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.87223

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.8863
12-2/M82	N/A	N/A
12-4/M82	1.21932
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.70685	0.466
4-3-2/M82	1.24549	0.284
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.07039	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.7153	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.19463	1
IL12-4/WTpooled	0.8606	0.554
IL1-4/WTpooled	0.95638	1
WT/WTpooled	1.09287	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	1.15908	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.80475	1
DC3000/delta hrp 24h	0.51168	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27249	0.183
DC3000 delta B/DC3000 delta AB	1.16483	0.225

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	0.98906	1
Var 0h	0.892	1
Var 12h I row2-row1	0.92254	0.77
Var 12h NI row2-row1	1.1147	1
Var 36h I row2-row1	1.22269	0.305
Var 36h NI row2-row1	0.96832	0.791
Var 60h I row2-row1	0.86916	0.374
Var 60h NI row2-row1	0.83388	0.516
Time course 0hI-0hNI	0.86493	0.211
Time course 12hI-12hNI	1.05986	0.56
Time course 36hI-36hNI	1.3979	0.021
Time course 60hI-60hNI	2.0132	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.77444	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	1.1354	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)	N/A	N/A
Manapal/WT (red)	1.10429	1