Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.1.11.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80576	0.159
27DAP/17DAP	0.95927	0.947
39DAP/27DAP	0.91783	0.608
41DAP/39DAP	1.01837	1
42DAP/41DAP	1.16639	0.933
43DAP/42DAP	0.96018	0.89
47DAP/43DAP	0.80844	0.424
52DAP/47DAP	0.89442	0.736
57DAP/52DAP	0.87803	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98338	0.63
17DAP/reference	0.93944	0.091
27DAP/reference	1.08923	0.271
39DAP/reference	0.98449	0.762
41DAP/reference	0.90054	0.154
42DAP/reference	1.08385	0.252
43DAP/reference	0.96212	0.555
47DAP/reference	0.89276	0.035
52DAP/reference	0.85159	0.077
57DAP/reference	1.12029	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17122	0.213
27DAP/17DAP	0.96427	0.878
39DAP/27DAP	0.98965	0.977
41DAP/39DAP	1.24099	0.748
42DAP/41DAP	0.9589	0.704
43DAP/42DAP	0.8194	0.041
47DAP/43DAP	0.93987	0.588
52DAP/47DAP	1.05819	0.819
57DAP/52DAP	1.04222	0.832
57DAP/7DAP	1.11456	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9234	0.27
17DAP/reference	0.92122	0.124
27DAP/reference	1.00938	1
39DAP/reference	0.88092	0.043
41DAP/reference	0.83616	0.09
42DAP/reference	0.89541	0.169
43DAP/reference	0.90495	0.126
47DAP/reference	1.15619	0.43
52DAP/reference	0.7817	0.019
57DAP/reference	0.91325	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06594	0.67
17DAP/reference	0.83585	0.075
27DAP/reference	1.06992	0.888
39DAP/reference	1.09523	0.602
41DAP/reference	0.95551	0.364
42DAP/reference	1.03746	1
43DAP/reference	0.89009	0.212
47DAP/reference	1.11379	0.218
52DAP/reference	1.01529	1
57DAP/reference	0.85897	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92548	0.335
17DAP/reference	0.92362	0.398
27DAP/reference	0.85951	0.089
39DAP/reference	0.917	0.222
41DAP/reference	0.93272	0.293
42DAP/reference	0.9866	0.816
43DAP/reference	0.80943	0.023
47DAP/reference	0.96867	0.478
52DAP/reference	1.03393	0.946
57DAP/reference	1.0058	0.779

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89639	0.997
26DAP/20DAP	2.73458	0.156
34DAP/26DAP	0.7492	0.399
51DAP/34DAP	1.58486	0.121
52DAP/51DAP	1.0158	0.904
53DAP/52DAP	1.10124	0.398
55DAP/53DAP	0.81994	0.03
57DAP/55DAP	1.11916	1
62DAP/57DAP	0.9081	0.681
68DAP/62DAP	1.65121	0.039
68DAP/14DAP	2.98655	0.027

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86646	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71762	0.232
Mature Green Tomato/Ripe Tomato	8.65591	0.166
Immature Eggplant/Mature Eggplant	1.5347	0.15
Ripe Pepper/Ripe Tomato	1.54264	0.256
Mature Eggplant/Ripe Tomato	1.41197	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87911	0.944
1-1-2/M82	1.16456	1
12-2/M82	1.16243	1
12-4/M82	0.92304	1
1-3/M82	1.90507	0.479
2-1-1/M82	0.98279	1
2-1/M82	1.05651	1
2-6/M82	0.6153	0.501
3-2/M82	1.13553	0.463
4-1-1/M82	1.31526	N/A
4-1/M82	1.30151	N/A
4-3-2/M82	1.08587	1
4-3/M82	0.90474	0.72
5-3/M82	1.17083	0.572
6-2/M82	1.41663	0.253
6-3/M82	1.11993	1
7-1/M82	0.97585	1
7-2/M82	1.17631	0.324
9-3-2/M82	1.14865	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29741	0.277
IL2-6/WTpooled	0.94149	1
IL7-5/WTpooled	1.38611	0.792
IL7-3/WTpooled	1.18085	1
IL12-4/WTpooled	1.14961	0.513
IL1-4/WTpooled	1.13686	0.426
WT/WTpooled	0.989	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	1.14688	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.8528	0.734
DC3000/delta hrp 6h	0.87345	0.95
DC3000/delta hrp 12h	0.88976	1
DC3000/delta hrp 24h	1.04398	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0663	0.408
DC3000 delta B/DC3000 delta AB	1.15807	0.212

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85771	1
Exp 36h	1.72735	1
Exp 60h	1.43982	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03709	1
Var 0h	0.60983	1
Var 12h I row2-row1	1.09632	0.613
Var 12h NI row2-row1	1.06363	1
Var 36h I row2-row1	1.06437	1
Var 36h NI row2-row1	1.0266	1
Var 60h I row2-row1	0.83959	0.292
Var 60h NI row2-row1	1.07755	0.904
Time course 0hI-0hNI	0.93058	0.618
Time course 12hI-12hNI	1.17117	0.467
Time course 36hI-36hNI	1.11662	0.128
Time course 60hI-60hNI	1.61649	0.019

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)	0.97304	0.614
transgenic ySAMdc/azygous control (breaker)	0.72203	0.129
transgenic ySAMdc/azygous control (red)	1.01786	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.27105	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80542	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.40884	0.307
Manapal/WT (break)	1.03517	1
Manapal/WT (red)	0.82775	0.216