Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.20.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12472	0.697
27DAP/17DAP	0.98728	1
39DAP/27DAP	0.94396	0.663
41DAP/39DAP	1.78099	0.282
42DAP/41DAP	0.99345	1
43DAP/42DAP	0.93125	0.877
47DAP/43DAP	0.99481	0.879
52DAP/47DAP	1.15316	0.811
57DAP/52DAP	0.85273	0.684

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21954	0.139
17DAP/reference	1.11788	0.132
27DAP/reference	0.97092	0.623
39DAP/reference	1.12004	0.218
41DAP/reference	1.12858	0.058
42DAP/reference	1.04596	0.324
43DAP/reference	1.05347	0.547
47DAP/reference	0.94556	0.258
52DAP/reference	1.01905	1
57DAP/reference	1.02728	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68359	0.496
27DAP/17DAP	1.28612	0.112
39DAP/27DAP	1.07324	0.799
41DAP/39DAP	1.05621	1
42DAP/41DAP	0.79774	0.026
43DAP/42DAP	1.0335	0.788
47DAP/43DAP	1.05148	0.788
52DAP/47DAP	1.01723	0.945
57DAP/52DAP	1.30682	0.105
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8314	0.115
17DAP/reference	0.76425	0.014
27DAP/reference	0.82565	0.024
39DAP/reference	0.81251	0.039
41DAP/reference	0.88468	0.076
42DAP/reference	0.90536	0.066
43DAP/reference	0.77465	0.019
47DAP/reference	0.90335	0.293
52DAP/reference	0.80555	0.021
57DAP/reference	0.8327	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30673	0.097
17DAP/reference	1.15168	0.278
27DAP/reference	1.09862	0.757
39DAP/reference	1.01394	0.722
41DAP/reference	1.04145	0.91
42DAP/reference	1.06216	0.532
43DAP/reference	1.53106	0.027
47DAP/reference	1.19346	0.081
52DAP/reference	1.1748	0.092
57DAP/reference	1.05361	0.552

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84496	0.098
17DAP/reference	1.04258	1
27DAP/reference	0.81407	0.069
39DAP/reference	0.86548	0.069
41DAP/reference	1.04612	0.826
42DAP/reference	0.92189	0.445
43DAP/reference	1.00472	0.767
47DAP/reference	0.98293	0.558
52DAP/reference	0.81684	0.177
57DAP/reference	1.05969	0.8

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03337	1
26DAP/20DAP	1.07894	0.813
34DAP/26DAP	0.64774	0.777
51DAP/34DAP	N/A	N/A
52DAP/51DAP	1.02724
53DAP/52DAP	1.08807	0.83
55DAP/53DAP	1.04887	1
57DAP/55DAP	1.39983	0.841
62DAP/57DAP	1.23568	0.069
68DAP/62DAP	1.24794	0.609
68DAP/14DAP	1.02095	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05032	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.2057	1
Mature Green Tomato/Ripe Tomato	0.63673	0.018
Immature Eggplant/Mature Eggplant	1.19539
Ripe Pepper/Ripe Tomato	4.16301
Mature Eggplant/Ripe Tomato	1.64017

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16726	0.877
1-1-2/M82	0.89702	1
12-2/M82	1.67164
12-4/M82	1.01491	1
1-3/M82	1.11353	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.76824	1
3-2/M82	0.81026	0.455
4-1-1/M82	0.70953
4-1/M82	1.10807	1
4-3-2/M82	0.561
4-3/M82	0.85566
5-3/M82	1.00948	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.47359
7-2/M82	0.90014	1
9-3-2/M82	0.81717	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.66473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.84115
IL12-4/WTpooled	1.09274
IL1-4/WTpooled	1.03055	1
WT/WTpooled	0.98055

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	1.09585	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11572	0.652
DC3000/delta hrp 6h	1.11805	1
DC3000/delta hrp 12h	0.96673	1
DC3000/delta hrp 24h	0.92508	0.455

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09595	1
Exp 36h	N/A	N/A
Exp 60h	0.80432	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08987	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.16009	0.196
Var 12h NI row2-row1	0.8544
Var 36h I row2-row1	0.81893	1
Var 36h NI row2-row1	1.0617	1
Var 60h I row2-row1	1.01967	0.562
Var 60h NI row2-row1	1.5905	0.904
Time course 0hI-0hNI	0.8833	0.266
Time course 12hI-12hNI	0.9927	1
Time course 36hI-36hNI	0.89664	0.156
Time course 60hI-60hNI	0.92215	0.161

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)	2.26022	0.571
transgenic ySAMdc/azygous control (breaker)	1.27198	1
transgenic ySAMdc/azygous control (red)	0.89976	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98899	0.588

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58953	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17397	0.105
Manapal/WT (break)	0.9816	1
Manapal/WT (red)	N/A	N/A