Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.8.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00279	0.951
27DAP/17DAP	1.44221	0.633
39DAP/27DAP	0.90742	0.573
41DAP/39DAP	0.92249	0.715
42DAP/41DAP	0.83518	1
43DAP/42DAP	1.32249	0.607
47DAP/43DAP	0.97017	0.879
52DAP/47DAP	1.44816	0.379
57DAP/52DAP	1.23841	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00123	0.787
17DAP/reference	1.1669	0.042
27DAP/reference	1.13681	0.121
39DAP/reference	1.19496	0.02
41DAP/reference	1.20976	0.034
42DAP/reference	0.85826	0.002
43DAP/reference	1.16236	0.142
47DAP/reference	0.97143	0.366
52DAP/reference	1.24024	1
57DAP/reference	0.87584	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84178	0.201
27DAP/17DAP	1.76842	0.038
39DAP/27DAP	0.84943	0.265
41DAP/39DAP	0.90548	0.662
42DAP/41DAP	0.87957	0.174
43DAP/42DAP	0.87331	0.027
47DAP/43DAP	1.12877	0.52
52DAP/47DAP	1.15062	0.563
57DAP/52DAP	1.07289	0.718
57DAP/7DAP	1.92584	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98085	0.613
17DAP/reference	0.90574	0.253
27DAP/reference	0.99407	0.656
39DAP/reference	0.9272	0.307
41DAP/reference	0.9165	0.284
42DAP/reference	0.79834	0.012
43DAP/reference	1.18024	0.483
47DAP/reference	1.02245	1
52DAP/reference	0.90307	0.232
57DAP/reference	0.847	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0414	0.719
17DAP/reference	0.94159	0.357
27DAP/reference	0.87244	0.111
39DAP/reference	0.84164	0.018
41DAP/reference	0.78569	0.04
42DAP/reference	0.78885	0.032
43DAP/reference	1.10926	0.447
47DAP/reference	0.91143	0.129
52DAP/reference	1.00148	0.713
57DAP/reference	1.07981	0.593

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87377	0.311
17DAP/reference	1.01507	0.87
27DAP/reference	0.67532	0.025
39DAP/reference	0.80563	0.179
41DAP/reference	0.59597	0.132
42DAP/reference	0.80388	0.287
43DAP/reference	0.63153	0.051
47DAP/reference	0.9792	0.538
52DAP/reference	0.93306	0.284
57DAP/reference	0.67686	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19015	0.966
26DAP/20DAP	1.03406	1
34DAP/26DAP	1.18148	0.819
51DAP/34DAP	0.92368	0.667
52DAP/51DAP	0.90849	1
53DAP/52DAP	0.9578	0.807
55DAP/53DAP	0.82488	0.149
57DAP/55DAP	1.31542	0.07
62DAP/57DAP	1.24635	0.047
68DAP/62DAP	0.77696	0.025
68DAP/14DAP	0.71166	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83823	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.60249	0.194
Mature Green Tomato/Ripe Tomato	0.92184	0.287
Immature Eggplant/Mature Eggplant	1.35296
Ripe Pepper/Ripe Tomato	0.88478	1
Mature Eggplant/Ripe Tomato	0.38011

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12608
1-1-2/M82	1.13162
12-2/M82	0.84158	0.721
12-4/M82	0.8975	0.319
1-3/M82	1.22424
2-1-1/M82	1.1777	0.375
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.98988	1
4-1-1/M82	N/A	N/A
4-1/M82	0.84152
4-3-2/M82	0.85078	0.487
4-3/M82	0.9138	1
5-3/M82	1.14097	1
6-2/M82	N/A	N/A
6-3/M82	0.99361
7-1/M82	0.78107	0.509
7-2/M82	1.04242
9-3-2/M82	0.88086	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97338	1
IL2-6/WTpooled	1.15203	0.584
IL7-5/WTpooled	0.78855	1
IL7-3/WTpooled	0.79279	0.31
IL12-4/WTpooled	0.8622	1
IL1-4/WTpooled	1.05049	1
WT/WTpooled	1.037	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	0.94774	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12298	0.921
DC3000/delta hrp 6h	1.31218	1
DC3000/delta hrp 12h	1.03788	1
DC3000/delta hrp 24h	1.01505	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.74043	0.132
DC3000 delta B/DC3000 delta AB	0.8565	0.087

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.70888	1
Exp 36h	0.98968	1
Exp 60h	0.86605	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01587	1
Var 0h	0.40819	0.457
Var 12h I row2-row1	1.03045	0.795
Var 12h NI row2-row1	0.83835	0.627
Var 36h I row2-row1	1.05587	1
Var 36h NI row2-row1	0.97752	0.852
Var 60h I row2-row1	0.84733	0.832
Var 60h NI row2-row1	0.95527	1
Time course 0hI-0hNI	1.03082	0.867
Time course 12hI-12hNI	0.97906	0.836
Time course 36hI-36hNI	0.93674	0.114
Time course 60hI-60hNI	0.37218	0.006

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)	0.9466	0.567
transgenic ySAMdc/azygous control (breaker)	1.02839	1
transgenic ySAMdc/azygous control (red)	0.90228	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10827	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08895	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1929	1
Manapal/WT (break)	1.33395	1
Manapal/WT (red)	1.22339	0.222