Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87272	0.381
27DAP/17DAP	0.86217	0.661
39DAP/27DAP	1.08126	0.944
41DAP/39DAP	1.27628	0.494
42DAP/41DAP	1.05597	0.992
43DAP/42DAP	0.82352	0.598
47DAP/43DAP	1.10974	0.756
52DAP/47DAP	1.6431	0.306
57DAP/52DAP	0.89309	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07089	0.23
17DAP/reference	0.98348	0.63
27DAP/reference	0.92335	0.194
39DAP/reference	1.03637	0.165
41DAP/reference	0.9938	0.814
42DAP/reference	1.1178	0.017
43DAP/reference	1.00675	0.957
47DAP/reference	0.99423	0.602
52DAP/reference	1.06187	0.272
57DAP/reference	0.86221	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01638	0.91
27DAP/17DAP	1.01426	0.957
39DAP/27DAP	1.0757	0.56
41DAP/39DAP	1.01665	0.914
42DAP/41DAP	1.03406	0.904
43DAP/42DAP	1.04163	0.627
47DAP/43DAP	1.07126	0.822
52DAP/47DAP	0.96864	0.898
57DAP/52DAP	0.95498	0.551
57DAP/7DAP	1.08086	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96715	0.326
17DAP/reference	0.90805	0.013
27DAP/reference	0.90633	0.033
39DAP/reference	0.94029	0.043
41DAP/reference	0.93692	0.067
42DAP/reference	0.94221	0.024
43DAP/reference	0.93215	0.035
47DAP/reference	0.97465	0.383
52DAP/reference	1.00963	0.941
57DAP/reference	0.92511	0.054

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11641	0.098
17DAP/reference	1.10981	0.139
27DAP/reference	1.1642	0.359
39DAP/reference	0.98872	0.416
41DAP/reference	1.0586	0.752
42DAP/reference	1.02614	1
43DAP/reference	1.22326	0.079
47DAP/reference	0.95753	0.188
52DAP/reference	1.10028	0.057
57DAP/reference	1.36185	0.055

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95961	0.214
17DAP/reference	1.0147	1
27DAP/reference	0.88385	0.025
39DAP/reference	0.87197	0.01
41DAP/reference	0.92735	0.032
42DAP/reference	0.94622	0.361
43DAP/reference	0.9927	0.712
47DAP/reference	0.97998	0.538
52DAP/reference	0.88339	0.319
57DAP/reference	0.85396	0.055

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08069	0.966
26DAP/20DAP	1.03583	1
34DAP/26DAP	0.97404	1
51DAP/34DAP	0.87896	0.264
52DAP/51DAP	0.98207	1
53DAP/52DAP	1.0094	1
55DAP/53DAP	1.131	0.599
57DAP/55DAP	0.97653	0.88
62DAP/57DAP	1.01137	1
68DAP/62DAP	0.80604	0.109
68DAP/14DAP	0.87386	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03169	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.56598	1
Mature Green Tomato/Ripe Tomato	1.0635	1
Immature Eggplant/Mature Eggplant	1.01664	0.633
Ripe Pepper/Ripe Tomato	1.94256	0.256
Mature Eggplant/Ripe Tomato	1.10154	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02389	1
1-1-2/M82	0.95969	1
12-2/M82	1.15134	1
12-4/M82	0.94699	0.619
1-3/M82	0.9683	1
2-1-1/M82	0.98328	0.465
2-1/M82	0.67049
2-6/M82	0.94341	0.501
3-2/M82	0.92989	1
4-1-1/M82	1.0349	1
4-1/M82	0.94967	1
4-3-2/M82	0.91802	1
4-3/M82	1.03912	1
5-3/M82	1.05276	1
6-2/M82	1.01931	1
6-3/M82	1.04927	1
7-1/M82	0.9155	0.509
7-2/M82	1.15827	0.385
9-3-2/M82	0.91476	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83796	0.243
IL2-6/WTpooled	1.12074	0.46
IL7-5/WTpooled	0.8031
IL7-3/WTpooled	0.91787	1
IL12-4/WTpooled	1.08043	0.839
IL1-4/WTpooled	0.99696	1
WT/WTpooled	1.20226	0.686

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	1.13664	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17678	0.503
DC3000/delta hrp 6h	1.01024	1
DC3000/delta hrp 12h	1.10696	1
DC3000/delta hrp 24h	1.01291	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86313	0.077
DC3000 delta B/DC3000 delta AB	1.06541	0.468

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.007	1
Exp 36h	0.90112	0.82
Exp 60h	1.01316	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97247	1
Var 0h	1.05874	0.936
Var 12h I row2-row1	1.10464	0.58
Var 12h NI row2-row1	1.05788	1
Var 36h I row2-row1	1.18793	1
Var 36h NI row2-row1	0.77429	0.478
Var 60h I row2-row1	1.11409	0.562
Var 60h NI row2-row1	0.99939	1
Time course 0hI-0hNI	0.99461	1
Time course 12hI-12hNI	1.00856	0.892
Time course 36hI-36hNI	1.0582	0.513
Time course 60hI-60hNI	1.23409	0.047

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)	0.92735	0.299
transgenic ySAMdc/azygous control (breaker)	1.4717	0.178
transgenic ySAMdc/azygous control (red)	1.14332	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11019	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16122	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89712	1
Manapal/WT (break)	1.10198	1
Manapal/WT (red)	1.0853	1