Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99446	0.83
27DAP/17DAP	0.99541	1
39DAP/27DAP	1.93433	0.188
41DAP/39DAP	1.44953	0.273
42DAP/41DAP	0.72167	0.774
43DAP/42DAP	1.24707	0.755
47DAP/43DAP	0.838	0.484
52DAP/47DAP	1.31287	0.699
57DAP/52DAP	1.36492	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17867	0.197
17DAP/reference	0.97529	0.567
27DAP/reference	0.80356	0.027
39DAP/reference	0.93743	0.455
41DAP/reference	0.92359	0.341
42DAP/reference	1.10757	0.108
43DAP/reference	1.10387	0.518
47DAP/reference	0.94507	0.137
52DAP/reference	1.05772	0.8
57DAP/reference	1.26078	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17393	0.736
27DAP/17DAP	1.20118	0.626
39DAP/27DAP	1.05719	0.742
41DAP/39DAP	1.63986	0.075
42DAP/41DAP	1.02843	1
43DAP/42DAP	1.37155	0.035
47DAP/43DAP	1.06375	0.941
52DAP/47DAP	0.90374	0.837
57DAP/52DAP	1.43354	0.173
57DAP/7DAP	1.28636	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83813	0.071
17DAP/reference	0.94499	0.295
27DAP/reference	0.79068	0.015
39DAP/reference	0.85805	0.017
41DAP/reference	0.80105	0.046
42DAP/reference	0.7144	0.01
43DAP/reference	0.8383	0.027
47DAP/reference	1.01228	1
52DAP/reference	0.82326	0.066
57DAP/reference	0.83789	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94819	0.564
17DAP/reference	0.81492	0.134
27DAP/reference	1.04254	0.639
39DAP/reference	0.98804	0.554
41DAP/reference	0.9478	0.348
42DAP/reference	0.93766	0.392
43DAP/reference	0.93941	0.45
47DAP/reference	1.02695	1
52DAP/reference	1.07424	0.702
57DAP/reference	0.76632	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90703	0.268
17DAP/reference	0.92839	0.342
27DAP/reference	0.88868	0.147
39DAP/reference	0.78566	0.024
41DAP/reference	0.84345	0.021
42DAP/reference	0.80312	0.036
43DAP/reference	0.9107	0.256
47DAP/reference	0.96312	0.409
52DAP/reference	1.29461	0.601
57DAP/reference	1.33745	0.285

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.7376	0.966
26DAP/20DAP	1.1767	0.608
34DAP/26DAP	0.70415	0.311
51DAP/34DAP	1.04673	0.581
52DAP/51DAP	0.71574	0.151
53DAP/52DAP	0.94652	0.79
55DAP/53DAP	0.92571	0.648
57DAP/55DAP	1.39695	0.188
62DAP/57DAP	1.20299	0.622
68DAP/62DAP	0.91052	0.747
68DAP/14DAP	1.08213	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02419	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.17545

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.81217
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	1.31127
3-2/M82	N/A	N/A
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	0.93176	0.46
5-3/M82	0.83578
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04285	1
IL2-6/WTpooled	1.07258	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.07158	1
IL12-4/WTpooled	1.18371	0.737
IL1-4/WTpooled	0.94969	0.444
WT/WTpooled	1.05128	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	1.61006

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.2981	0.503
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.11239	1
DC3000/delta hrp 24h	1.52751	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.64791
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	1.23938	1
Var 0h	0.96202	1
Var 12h I row2-row1	0.84832	0.338
Var 12h NI row2-row1	1.01179	1
Var 36h I row2-row1	1.27506	0.601
Var 36h NI row2-row1	0.75807	1
Var 60h I row2-row1	0.86882	0.832
Var 60h NI row2-row1	0.95909	1
Time course 0hI-0hNI	1.44784	0.833
Time course 12hI-12hNI	0.78846	0.714
Time course 36hI-36hNI	1.26843	0.044
Time course 60hI-60hNI	2.3954	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)	1.16547	0.397
transgenic ySAMdc/azygous control (breaker)	0.94234	1
transgenic ySAMdc/azygous control (red)	0.91069	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96969	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.55146	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06482	1
Manapal/WT (break)	1.04149	1
Manapal/WT (red)	N/A	N/A