Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24934	0.697
27DAP/17DAP	0.94259	0.766
39DAP/27DAP	1.08493	1
41DAP/39DAP	1.22134	0.859
42DAP/41DAP	1.18032	0.929
43DAP/42DAP	1.27495	0.894
47DAP/43DAP	1.39817	0.776
52DAP/47DAP	0.918	0.688
57DAP/52DAP	1.19524	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98675	0.727
17DAP/reference	1.05771	0.813
27DAP/reference	1.08611	0.953
39DAP/reference	1.0508	0.903
41DAP/reference	1.15924	0.421
42DAP/reference	1.1965	0.338
43DAP/reference	1.28045	0.325
47DAP/reference	0.89986	0.191
52DAP/reference	1.0683	1
57DAP/reference	1.15637	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10702	0.642
27DAP/17DAP	0.97161	0.887
39DAP/27DAP	1.04733	0.643
41DAP/39DAP	1.04186	0.861
42DAP/41DAP	0.98777	0.776
43DAP/42DAP	0.93478	0.466
47DAP/43DAP	0.94188	0.63
52DAP/47DAP	1.25602	0.319
57DAP/52DAP	1.41268	0.145
57DAP/7DAP	1.39251	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67859	0.104
17DAP/reference	0.85371	0.072
27DAP/reference	1.26751	0.026
39DAP/reference	0.8426	0.064
41DAP/reference	0.7947	0.02
42DAP/reference	1.01408	1
43DAP/reference	0.72907	0.016
47DAP/reference	0.72849	0.101
52DAP/reference	0.68357	0.012
57DAP/reference	0.74508	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61656	0.022
17DAP/reference	0.53614	0.007
27DAP/reference	0.84812	0.327
39DAP/reference	1.20908	0.769
41DAP/reference	0.81328	0.127
42DAP/reference	0.90962	0.392
43DAP/reference	1.56721	0.208
47DAP/reference	1.02284	0.678
52DAP/reference	1.04068	1
57DAP/reference	1.08497	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73437	0.052
17DAP/reference	0.86909	0.217
27DAP/reference	0.7989	0.046
39DAP/reference	0.76537	0.04
41DAP/reference	0.94532	0.459
42DAP/reference	1.05554	0.627
43DAP/reference	0.76313	0.066
47DAP/reference	0.67168
52DAP/reference	0.87623	0.415
57DAP/reference	0.83594	0.212

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80636	1
26DAP/20DAP	0.90031	0.317
34DAP/26DAP	1.39166	0.819
51DAP/34DAP	0.96505	0.758
52DAP/51DAP	1.44217	0.052
53DAP/52DAP	0.8616	0.307
55DAP/53DAP	1.21705	0.534
57DAP/55DAP	1.1835	0.902
62DAP/57DAP	1.2407	0.569
68DAP/62DAP	1.07772	0.787
68DAP/14DAP	0.74998	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85607	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.8153	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.57433
Mature Eggplant/Ripe Tomato	0.95091	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.21962
1-1-2/M82	1.12765	1
12-2/M82	N/A	N/A
12-4/M82	0.90565	1
1-3/M82	1.85045
2-1-1/M82	1.09842	0.764
2-1/M82	1.37508
2-6/M82	N/A	N/A
3-2/M82	1.28329
4-1-1/M82	N/A	N/A
4-1/M82	1.5099
4-3-2/M82	N/A	N/A
4-3/M82	0.88718	1
5-3/M82	1.00937	1
6-2/M82	N/A	N/A
6-3/M82	1.46475	1
7-1/M82	0.71198	0.803
7-2/M82	1.41628
9-3-2/M82	1.15973

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.34578	0.624
IL1-4/WTpooled	1.00886
WT/WTpooled	N/A	N/A

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	1.07243	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97926	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.19257	1
DC3000/delta hrp 24h	1.03945	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94317	0.629
DC3000 delta B/DC3000 delta AB	0.95643	0.589

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03398	1
Var 0h	0.76334	0.933
Var 12h I row2-row1	0.91224	0.418
Var 12h NI row2-row1	1.01584	1
Var 36h I row2-row1	1.10305	0.742
Var 36h NI row2-row1	1.04559	1
Var 60h I row2-row1	0.78742	0.439
Var 60h NI row2-row1	1.07155	1
Time course 0hI-0hNI	1.03643	0.833
Time course 12hI-12hNI	0.93427	0.568
Time course 36hI-36hNI	1.04143	0.722
Time course 60hI-60hNI	0.94347	0.319

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)	1.66009	0.931
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.7595	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18973	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.15695	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.99484	1
Manapal/WT (red)	1.32673	0.413