Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.16.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11093	0.912
27DAP/17DAP	1.01988	1
39DAP/27DAP	1.26231	0.823
41DAP/39DAP	1.17265	0.663
42DAP/41DAP	1.08225	0.903
43DAP/42DAP	0.92342	0.888
47DAP/43DAP	1.12394	0.769
52DAP/47DAP	1.05319	0.721
57DAP/52DAP	1.2014	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84031	0.039
17DAP/reference	0.84869	0.053
27DAP/reference	1.06365	0.529
39DAP/reference	1.0245	0.747
41DAP/reference	0.90296	0.267
42DAP/reference	0.82654	0.005
43DAP/reference	1.06754	0.569
47DAP/reference	1.05223	0.318
52DAP/reference	1.06513	0.256
57DAP/reference	1.16185	0.127

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27529	0.593
27DAP/17DAP	0.99718	0.969
39DAP/27DAP	1.13861	0.388
41DAP/39DAP	1.13345	0.55
42DAP/41DAP	1.04878	0.879
43DAP/42DAP	0.91234	0.165
47DAP/43DAP	1.06261	0.837
52DAP/47DAP	0.9532	0.824
57DAP/52DAP	1.18009	0.318
57DAP/7DAP	1.11759	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78439	0.067
17DAP/reference	0.89541	0.144
27DAP/reference	1.07733	0.664
39DAP/reference	0.81843	0.025
41DAP/reference	0.79096	0.043
42DAP/reference	0.84121	0.046
43DAP/reference	0.77524	0.022
47DAP/reference	1.0843	0.458
52DAP/reference	0.73103	0.017
57DAP/reference	0.98083	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88371	0.129
17DAP/reference	0.80126	0.014
27DAP/reference	0.83398	0.076
39DAP/reference	0.87035	0.087
41DAP/reference	0.9384	0.277
42DAP/reference	0.86034	0.108
43DAP/reference	0.95977	0.486
47DAP/reference	0.90165	0.071
52DAP/reference	1.06268	0.747
57DAP/reference	0.85951	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87503	0.059
17DAP/reference	0.87845	0.186
27DAP/reference	0.85582	0.045
39DAP/reference	0.87697	0.101
41DAP/reference	0.90817	0.209
42DAP/reference	0.86386	0.071
43DAP/reference	0.91331	0.216
47DAP/reference	1.00176	0.667
52DAP/reference	1.39634	0.583
57DAP/reference	0.91308	0.229

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.27043	0.966
26DAP/20DAP	1.0373	1
34DAP/26DAP	2.10925	1
51DAP/34DAP	1.27386	0.692
52DAP/51DAP	0.78965	1
53DAP/52DAP	1.02677	0.935
55DAP/53DAP	0.91078	0.577
57DAP/55DAP	0.96505	0.799
62DAP/57DAP	0.6858	0.007
68DAP/62DAP	1.19775	0.36
68DAP/14DAP	1.62803	0.017

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15372	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8014	0.274
Mature Green Tomato/Ripe Tomato	1.15671	0.399
Immature Eggplant/Mature Eggplant	0.57694	0.1
Ripe Pepper/Ripe Tomato	1.04448	1
Mature Eggplant/Ripe Tomato	1.42857	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.58908
1-1-2/M82	1.04332
12-2/M82	N/A	N/A
12-4/M82	0.80458	0.33
1-3/M82	N/A	N/A
2-1-1/M82	0.70418
2-1/M82	0.80621
2-6/M82	0.83414
3-2/M82	0.82593
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.42101
5-3/M82	0.9879	1
6-2/M82	0.681
6-3/M82	1.11311
7-1/M82	N/A	N/A
7-2/M82	1.11687
9-3-2/M82	1.04624

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	0.99591	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03616	0.914
DC3000/delta hrp 6h	0.93791	0.95
DC3000/delta hrp 12h	1.04941	1
DC3000/delta hrp 24h	1.18599	0.212

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	0.98547	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07491	0.227
Exp 36h	1.12434	1
Exp 60h	1.12008	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97233	1
Var 0h	0.86858	0.933
Var 12h I row2-row1	1.02636	0.736
Var 12h NI row2-row1	1.16073	0.649
Var 36h I row2-row1	0.97005	1
Var 36h NI row2-row1	1.38541	1
Var 60h I row2-row1	1.02654	1
Var 60h NI row2-row1	0.91297	0.932
Time course 0hI-0hNI	1.00429	1
Time course 12hI-12hNI	1.08378	0.194
Time course 36hI-36hNI	1.35042	0.021
Time course 60hI-60hNI	1.6061	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)	1.07893	0.36
transgenic ySAMdc/azygous control (breaker)	0.98391	1
transgenic ySAMdc/azygous control (red)	0.91263	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98671	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82432	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88948	1
Manapal/WT (break)	0.9628	1
Manapal/WT (red)	1.25807	0.125