Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9827	0.627
27DAP/17DAP	0.80372	0.496
39DAP/27DAP	1.55466	0.128
41DAP/39DAP	0.88316	0.555
42DAP/41DAP	1.26927	0.582
43DAP/42DAP	1.02894	1
47DAP/43DAP	1.15222	0.733
52DAP/47DAP	0.76983	0.293
57DAP/52DAP	1.3617	0.817

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7764	0.034
17DAP/reference	0.8267	0.021
27DAP/reference	0.96477	0.514
39DAP/reference	0.96742	0.651
41DAP/reference	0.85147	0.008
42DAP/reference	1.07229	0.414
43DAP/reference	1.12728	0.126
47DAP/reference	1.28996	0.008
52DAP/reference	1.17712	0.029
57DAP/reference	1.21753	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34279	0.068
27DAP/17DAP	0.91491	0.446
39DAP/27DAP	0.9865	0.919
41DAP/39DAP	1.20386	0.827
42DAP/41DAP	1.03035	1
43DAP/42DAP	0.64528	0.022
47DAP/43DAP	0.99168	0.971
52DAP/47DAP	1.24583	0.38
57DAP/52DAP	1.31153	0.161
57DAP/7DAP	1.18449	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80318	0.108
17DAP/reference	0.81004	0.108
27DAP/reference	0.96712	0.402
39DAP/reference	0.82667	0.039
41DAP/reference	0.7575	0.015
42DAP/reference	0.82619	0.02
43DAP/reference	0.87994	0.22
47DAP/reference	1.35414	0.075
52DAP/reference	0.87782	0.278
57DAP/reference	0.86033	0.101

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98203	0.72
17DAP/reference	0.80211	0.026
27DAP/reference	1.01417	0.711
39DAP/reference	0.88611	0.314
41DAP/reference	0.84614	0.043
42DAP/reference	0.84137	0.03
43DAP/reference	0.96331	0.527
47DAP/reference	0.95595	0.246
52DAP/reference	0.95332	0.351
57DAP/reference	0.86628	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84086	0.054
17DAP/reference	0.96845	0.615
27DAP/reference	1.46736	0.621
39DAP/reference	0.92814	0.101
41DAP/reference	0.92268	0.237
42DAP/reference	1.18533	0.49
43DAP/reference	0.88723	0.206
47DAP/reference	1.07536	0.519
52DAP/reference	1.25579	0.614
57DAP/reference	1.10642	0.324

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2133	0.966
26DAP/20DAP	0.91653	1
34DAP/26DAP	1.69613	0.542
51DAP/34DAP	1.11406	0.637
52DAP/51DAP	1.21703	0.439
53DAP/52DAP	1.0789	0.858
55DAP/53DAP	0.84973	0.149
57DAP/55DAP	0.80755	0.294
62DAP/57DAP	1.33426	0.868
68DAP/62DAP	1.10568	0.899
68DAP/14DAP	0.99893	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.37312	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90133
Mature Green Tomato/Ripe Tomato	0.7851	0.226
Immature Eggplant/Mature Eggplant	62.5297	0.05
Ripe Pepper/Ripe Tomato	0.12045	0.224
Mature Eggplant/Ripe Tomato	0.15722	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.84928	0.742
1-1-2/M82	1.10381	1
12-2/M82	0.92218	0.955
12-4/M82	1.41575	1
1-3/M82	1.10614
2-1-1/M82	1.13916
2-1/M82	N/A	N/A
2-6/M82	0.64678
3-2/M82	1.7041	0.426
4-1-1/M82	N/A	N/A
4-1/M82	0.77342
4-3-2/M82	0.75031	0.487
4-3/M82	1.20305	1
5-3/M82	1.19156	1
6-2/M82	1.13914	1
6-3/M82	0.67477	0.982
7-1/M82	N/A	N/A
7-2/M82	0.81226	0.527
9-3-2/M82	1.01058

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.932	1
IL2-6/WTpooled	0.75766	0.473
IL7-5/WTpooled	1.16192	0.792
IL7-3/WTpooled	0.87569	0.418
IL12-4/WTpooled	0.80304	0.581
IL1-4/WTpooled	0.8951	0.699
WT/WTpooled	1.07848	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	1.13476	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97115	1
DC3000/delta hrp 6h	1.29179	1
DC3000/delta hrp 12h	1.03658
DC3000/delta hrp 24h	0.86858	0.313

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14707	0.333
DC3000 delta B/DC3000 delta AB	1.14572	0.298

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84451	0.245
Exp 36h	1.34528	0.693
Exp 60h	1.36896	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98289	1
Var 0h	1.14353	1
Var 12h I row2-row1	0.91182	0.627
Var 12h NI row2-row1	1.17463	0.649
Var 36h I row2-row1	0.93544	1
Var 36h NI row2-row1	1.33173	1
Var 60h I row2-row1	0.91052	0.293
Var 60h NI row2-row1	0.92575	0.866
Time course 0hI-0hNI	0.93543	0.522
Time course 12hI-12hNI	1.04045	0.762
Time course 36hI-36hNI	1.19931	0.044
Time course 60hI-60hNI	1.0204	1

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)	0.75236	0.213
transgenic ySAMdc/azygous control (breaker)	0.85779	0.49
transgenic ySAMdc/azygous control (red)	1.1769	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11652	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99897	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77261	1
Manapal/WT (break)	0.80144	1
Manapal/WT (red)	1.56673	0.164