Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.19.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.71957	0.156
27DAP/17DAP	1.30482	0.742
39DAP/27DAP	1.43674	0.127
41DAP/39DAP	0.92494	0.681
42DAP/41DAP	1.35822	0.722
43DAP/42DAP	0.87331	0.776
47DAP/43DAP	0.60496	0.09
52DAP/47DAP	1.26837	0.75
57DAP/52DAP	0.88282	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77056	0.041
17DAP/reference	0.8169	0.033
27DAP/reference	0.95533	0.581
39DAP/reference	0.81937	0.159
41DAP/reference	0.67095	0.013
42DAP/reference	0.90521	0.043
43DAP/reference	0.96989	0.594
47DAP/reference	0.78985	0.055
52DAP/reference	1.01562	0.73
57DAP/reference	1.19038	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19053	0.699
27DAP/17DAP	1.06268	0.9
39DAP/27DAP	1.38015	0.143
41DAP/39DAP	1.50427	0.098
42DAP/41DAP	1.18807	0.927
43DAP/42DAP	1.01904	0.991
47DAP/43DAP	2.47205	0.024
52DAP/47DAP	1.24391	0.81
57DAP/52DAP	2.04623	0.029
57DAP/7DAP	9.64765	0.207

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18564	0.177
17DAP/reference	1.06538	0.18
27DAP/reference	1.04153	0.974
39DAP/reference	1.26813	0.086
41DAP/reference	1.07437	1
42DAP/reference	1.20822	0.174
43DAP/reference	1.40104	0.034
47DAP/reference	1.34917	0.084
52DAP/reference	1.18939	0.113
57DAP/reference	1.18276	0.198

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84324	0.124
17DAP/reference	0.91032	0.297
27DAP/reference	0.98068	0.537
39DAP/reference	1.11659	0.085
41DAP/reference	1.02685	0.925
42DAP/reference	1.10874	0.162
43DAP/reference	0.84964	0.144
47DAP/reference	1.10504	0.046
52DAP/reference	0.97336	0.433
57DAP/reference	0.87419	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11466	0.149
17DAP/reference	0.89497	0.172
27DAP/reference	1.22639	0.042
39DAP/reference	1.09774	0.203
41DAP/reference	1.11785	0.168
42DAP/reference	1.13545	0.146
43DAP/reference	1.02455	1
47DAP/reference	0.95555	0.434
52DAP/reference	1.02626	1
57DAP/reference	1.09651	0.311

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08252	0.966
26DAP/20DAP	1.01261	1
34DAP/26DAP	0.64425	0.224
51DAP/34DAP	1.58929	0.303
52DAP/51DAP	1.03648	1
53DAP/52DAP	2.456	0.025
55DAP/53DAP	2.61809	0.031
57DAP/55DAP	1.62265	0.424
62DAP/57DAP	0.82673	0.681
68DAP/62DAP	1.58347	0.028
68DAP/14DAP	2.48427	0.037

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.6228	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.30598	0.068
Mature Green Tomato/Ripe Tomato	1.47521	0.331
Immature Eggplant/Mature Eggplant	2.60853	0.05
Ripe Pepper/Ripe Tomato	4.53199	0.256
Mature Eggplant/Ripe Tomato	1.9348

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.08309
12-2/M82	1.44459
12-4/M82	0.76127
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	N/A	N/A
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	1.08125
5-3/M82	0.48389	0.49
6-2/M82	N/A	N/A
6-3/M82	0.89931
7-1/M82	0.41037
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	N/A	N/A
IL2-6/WTpooled	1.40636	0.441
IL7-5/WTpooled	3.94128
IL7-3/WTpooled	1.25325	1
IL12-4/WTpooled	1.07134	0.695
IL1-4/WTpooled	0.92052	0.699
WT/WTpooled	0.96975	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	1.07541	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.36474	0.875
DC3000/delta hrp 6h	1.18255	1
DC3000/delta hrp 12h	0.93553	1
DC3000/delta hrp 24h	3.26226	0.023

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.64327	0.11
DC3000 delta B/DC3000 delta AB	1.50803	0.079

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13378	1
Exp 36h	1.10122	1
Exp 60h	1.09406	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02291	1
Var 0h	0.95809	1
Var 12h I row2-row1	1.33615	0.544
Var 12h NI row2-row1	1.26445	0.281
Var 36h I row2-row1	0.78121	0.805
Var 36h NI row2-row1	0.88914	0.329
Var 60h I row2-row1	0.71159	0.285
Var 60h NI row2-row1	0.89058	0.297
Time course 0hI-0hNI	1.11901	0.603
Time course 12hI-12hNI	1.02208	0.868
Time course 36hI-36hNI	1.71773	0.005
Time course 60hI-60hNI	4.69629	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)	0.88653	0.428
transgenic ySAMdc/azygous control (breaker)	0.83667	0.251
transgenic ySAMdc/azygous control (red)	1.07794	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05876	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81378	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78927	0.172
Manapal/WT (break)	0.89766	1
Manapal/WT (red)	0.73193	0.181