Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25332	0.153
27DAP/17DAP	1.45004	0.744
39DAP/27DAP	0.98075	0.769
41DAP/39DAP	0.96389	0.798
42DAP/41DAP	1.17975	0.73
43DAP/42DAP	1.18562	0.768
47DAP/43DAP	0.94822	0.768
52DAP/47DAP	1.19828	0.886
57DAP/52DAP	0.98305	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22131	0.089
17DAP/reference	1.14354	0.178
27DAP/reference	1.22036	0.063
39DAP/reference	1.46571	0.025
41DAP/reference	1.22575	0.014
42DAP/reference	1.28388	0.002
43DAP/reference	1.07367	0.287
47DAP/reference	1.12038	0.593
52DAP/reference	1.05763	0.663
57DAP/reference	1.25086	0.153

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17536	0.356
27DAP/17DAP	0.97942	0.887
39DAP/27DAP	1.12516	0.587
41DAP/39DAP	0.91805	0.713
42DAP/41DAP	0.99483	0.85
43DAP/42DAP	1.20489	0.02
47DAP/43DAP	0.93189	0.418
52DAP/47DAP	1.04419	0.823
57DAP/52DAP	0.94046	0.511
57DAP/7DAP	1.84237	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93644	0.361
17DAP/reference	0.85899	0.064
27DAP/reference	1.12471	0.035
39DAP/reference	0.87569	0.083
41DAP/reference	0.89641	0.223
42DAP/reference	0.99148	0.612
43DAP/reference	0.89564	0.145
47DAP/reference	0.96049	0.293
52DAP/reference	0.82992	0.053
57DAP/reference	0.85096	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19342	0.531
17DAP/reference	1.41335	0.031
27DAP/reference	1.84266	0.012
39DAP/reference	1.24857	0.021
41DAP/reference	1.39988	0.081
42DAP/reference	1.71474	0.007
43DAP/reference	1.85414	0.022
47DAP/reference	1.89483	0.008
52DAP/reference	1.46213	0.016
57DAP/reference	1.16291	0.398

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01562	0.75
17DAP/reference	1.16091	0.685
27DAP/reference	0.88319	0.102
39DAP/reference	0.79447	0.019
41DAP/reference	1.07585	1
42DAP/reference	1.10753	0.658
43DAP/reference	0.90157	0.294
47DAP/reference	1.27191	0.073
52DAP/reference	0.97528	0.675
57DAP/reference	1.4313	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.38528	0.966
26DAP/20DAP	0.96838	1
34DAP/26DAP	1.23835	0.542
51DAP/34DAP	1.10516	0.597
52DAP/51DAP	1.1234	0.821
53DAP/52DAP	0.98232	0.876
55DAP/53DAP	1.41646	0.534
57DAP/55DAP	1.43526	0.348
62DAP/57DAP	0.90937	0.162
68DAP/62DAP	0.73708	0.076
68DAP/14DAP	0.67575	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.5765	0.055

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.67533	0.188
Mature Green Tomato/Ripe Tomato	1.33455	0.149
Immature Eggplant/Mature Eggplant	0.71735	0.07
Ripe Pepper/Ripe Tomato	1.02378	1
Mature Eggplant/Ripe Tomato	0.71068	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.33704	0.742
1-1-2/M82	1.388	1
12-2/M82	0.86387	0.281
12-4/M82	1.22159	1
1-3/M82	1.23523	0.248
2-1-1/M82	1.2694
2-1/M82	1.04294	1
2-6/M82	1.27445	0.695
3-2/M82	1.13991
4-1-1/M82	1.2176	1
4-1/M82	1.5085	1
4-3-2/M82	1.09424	1
4-3/M82	1.47946	1
5-3/M82	0.98151	1
6-2/M82	1.01371	1
6-3/M82	1.07215	1
7-1/M82	0.86127	0.803
7-2/M82	0.87735	0.599
9-3-2/M82	1.09999

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98395	1
IL2-6/WTpooled	1.61446	0.456
IL7-5/WTpooled	0.95824	1
IL7-3/WTpooled	0.84372	0.31
IL12-4/WTpooled	0.92725	1
IL1-4/WTpooled	1.23224	1
WT/WTpooled	1.00173	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	0.77503	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14407	0.921
DC3000/delta hrp 6h	1.04258	1
DC3000/delta hrp 12h	1.05526	1
DC3000/delta hrp 24h	0.97448	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.83922	0.297

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15104	1
Exp 36h	0.71612	0.539
Exp 60h	0.829	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05375	1
Var 0h	0.90118	0.261
Var 12h I row2-row1	0.87195	0.77
Var 12h NI row2-row1	0.98233	0.906
Var 36h I row2-row1	1.00838	1
Var 36h NI row2-row1	1.09556	1
Var 60h I row2-row1	2.62572	0.562
Var 60h NI row2-row1	1.00274	1
Time course 0hI-0hNI	1.03237	0.833
Time course 12hI-12hNI	0.98045	0.874
Time course 36hI-36hNI	0.91129	0.198
Time course 60hI-60hNI	0.50107	0.007

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)	0.98767	0.377
transgenic ySAMdc/azygous control (breaker)	1.30136	0.248
transgenic ySAMdc/azygous control (red)	1.16312	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95467	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.11348	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.8739	0.087
Manapal/WT (break)	1.57618	0.183
Manapal/WT (red)	1.26038	0.222