Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.4.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82317	0.303
27DAP/17DAP	0.88713	0.736
39DAP/27DAP	1.33699	0.325
41DAP/39DAP	0.97526	0.845
42DAP/41DAP	0.61263	0.262
43DAP/42DAP	0.74238	0.36
47DAP/43DAP	0.63683	0.107
52DAP/47DAP	1.54815	0.274
57DAP/52DAP	0.99058	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94731	0.336
17DAP/reference	0.98785	0.777
27DAP/reference	0.9528	0.275
39DAP/reference	0.95686	0.541
41DAP/reference	0.89887	0.085
42DAP/reference	0.89627	0.018
43DAP/reference	0.89778	0.287
47DAP/reference	0.97472	0.418
52DAP/reference	1.05024	0.407
57DAP/reference	1.00061	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.4315	0.034
27DAP/17DAP	1.73722	0.042
39DAP/27DAP	0.3366	0.071
41DAP/39DAP	1.30655	0.705
42DAP/41DAP	1.10484	0.976
43DAP/42DAP	1.54071	0.019
47DAP/43DAP	1.04038	0.93
52DAP/47DAP	0.74353	0.179
57DAP/52DAP	1.20477	0.36
57DAP/7DAP	0.58437	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13042	0.501
17DAP/reference	1.21691	0.297
27DAP/reference	1.14784	0.551
39DAP/reference	1.33208	0.05
41DAP/reference	1.27232	0.141
42DAP/reference	1.32687	0.132
43DAP/reference	1.11375	0.074
47DAP/reference	0.88602	0.128
52DAP/reference	1.17787	0.212
57DAP/reference	1.00854	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29668	0.43
17DAP/reference	0.88662	0.23
27DAP/reference	0.93861	0.229
39DAP/reference	1.07874	0.436
41DAP/reference	0.87125	0.083
42DAP/reference	0.85243	0.061
43DAP/reference	0.98209	0.592
47DAP/reference	0.89126	0.069
52DAP/reference	0.97147	0.576
57DAP/reference	0.89028	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21724	0.19
17DAP/reference	0.97007	0.647
27DAP/reference	0.96874	0.624
39DAP/reference	0.89267	0.271
41DAP/reference	1.02924	0.984
42DAP/reference	1.3886	0.124
43DAP/reference	1.02644	0.827
47DAP/reference	0.90973	0.306
52DAP/reference	0.92167	0.36
57DAP/reference	1.05848	0.673

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.46408	0.966
26DAP/20DAP	2.39269	0.097
34DAP/26DAP	0.87264	0.455
51DAP/34DAP	0.97308	0.791
52DAP/51DAP	0.89141	1
53DAP/52DAP	0.94699	0.783
55DAP/53DAP	0.94948	0.675
57DAP/55DAP	2.24803	0.348
62DAP/57DAP	1.26407	0.515
68DAP/62DAP	1.04793	1
68DAP/14DAP	1.24871	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.34312	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.17737	0.523
Immature Eggplant/Mature Eggplant	22.2044
Ripe Pepper/Ripe Tomato	0.88016	1
Mature Eggplant/Ripe Tomato	0.81283	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.53787	0.574
1-1-2/M82	1.11618
12-2/M82	N/A	N/A
12-4/M82	1.07205	0.611
1-3/M82	N/A	N/A
2-1-1/M82	1.35499
2-1/M82	N/A	N/A
2-6/M82	1.24614
3-2/M82	1.24118
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	1.04356
5-3/M82	0.94039	1
6-2/M82	1.05243
6-3/M82	1.10965
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.15672	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.13721	0.441
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01894	1
IL12-4/WTpooled	0.97789	1
IL1-4/WTpooled	1.03583
WT/WTpooled	1.03367	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	0.97635	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02337	0.914
DC3000/delta hrp 6h	1.25141	1
DC3000/delta hrp 12h	1.18118	1
DC3000/delta hrp 24h	1.58117	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79243	0.045
DC3000 delta B/DC3000 delta AB	0.79901	0.125

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09714	1
Exp 36h	1.2387	1
Exp 60h	1.53529	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.10297	0.936
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.03168	0.654
transgenic ySAMdc/azygous control (breaker)	1.41272	0.172
transgenic ySAMdc/azygous control (red)	0.98815	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99536	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70663	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89676	1
Manapal/WT (break)	1.01212	1
Manapal/WT (red)	0.57211	0.181