Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.5.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21733	0.414
27DAP/17DAP	1.14022	0.864
39DAP/27DAP	0.76006	0.397
41DAP/39DAP	1.10722	0.569
42DAP/41DAP	1.02192	1
43DAP/42DAP	1.07994	1
47DAP/43DAP	1.05198	0.999
52DAP/47DAP	0.71018	0.335
57DAP/52DAP	1.0398	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0241	0.5
17DAP/reference	1.0296	0.342
27DAP/reference	1.02408	0.587
39DAP/reference	1.08143	0.359
41DAP/reference	1.16864	0.122
42DAP/reference	0.9752	0.218
43DAP/reference	1.08974	0.269
47DAP/reference	1.02284	0.478
52DAP/reference	0.85058	0.091
57DAP/reference	0.92344	0.051

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85644	0.211
27DAP/17DAP	1.06708	0.976
39DAP/27DAP	1.15746	0.512
41DAP/39DAP	1.02863	1
42DAP/41DAP	1.05584	0.8
43DAP/42DAP	1.02435	0.788
47DAP/43DAP	1.06779	0.853
52DAP/47DAP	0.93715	0.763
57DAP/52DAP	0.86784	0.43
57DAP/7DAP	0.91143	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91936	0.078
17DAP/reference	0.94254	0.072
27DAP/reference	0.93376	0.02
39DAP/reference	0.94263	0.012
41DAP/reference	0.8996	0.016
42DAP/reference	0.87285	0.01
43DAP/reference	0.90352	0.042
47DAP/reference	0.87779	0.079
52DAP/reference	0.93926	0.196
57DAP/reference	0.87384	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0865	0.11
17DAP/reference	1.1155	0.12
27DAP/reference	0.96204	0.317
39DAP/reference	0.9859	0.455
41DAP/reference	0.96287	0.34
42DAP/reference	1.05278	0.664
43DAP/reference	1.11247	0.272
47DAP/reference	0.99835	0.79
52DAP/reference	1.00583	1
57DAP/reference	1.19418	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97933	0.526
17DAP/reference	1.02196	0.876
27DAP/reference	0.99435	0.763
39DAP/reference	0.95803	0.009
41DAP/reference	0.95385	0.209
42DAP/reference	0.88288	0.087
43DAP/reference	0.92241	0.073
47DAP/reference	0.96307	0.396
52DAP/reference	0.93275	0.351
57DAP/reference	0.63897	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09506	0.878
26DAP/20DAP	0.77191	0.512
34DAP/26DAP	1.03057	1
51DAP/34DAP	0.85288	0.281
52DAP/51DAP	1.02162	0.915
53DAP/52DAP	1.06324	0.819
55DAP/53DAP	1.17259	0.382
57DAP/55DAP	1.01418	0.944
62DAP/57DAP	1.05771	0.04
68DAP/62DAP	0.91283	0.641
68DAP/14DAP	0.89556	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99077	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.94402	0.715
Immature Eggplant/Mature Eggplant	1.51824
Ripe Pepper/Ripe Tomato	0.22135
Mature Eggplant/Ripe Tomato	0.88721	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05812	0.742
1-1-2/M82	1.11556	1
12-2/M82	1.39821
12-4/M82	1.01023	1
1-3/M82	0.87715	0.441
2-1-1/M82	1.04512
2-1/M82	1.07747	1
2-6/M82	1.15494	0.594
3-2/M82	0.96036	1
4-1-1/M82	1.11199	1
4-1/M82	0.59851	1
4-3-2/M82	0.97125	1
4-3/M82	1.23742	0.268
5-3/M82	0.88925	0.642
6-2/M82	0.91571	1
6-3/M82	0.98832	1
7-1/M82	1.06065	0.539
7-2/M82	1.03988	1
9-3-2/M82	1.13914	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9751	1
IL7-5/WTpooled	0.6586	1
IL7-3/WTpooled	0.81033
IL12-4/WTpooled	0.96524	1
IL1-4/WTpooled	1.04858	1
WT/WTpooled	1.03438	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	0.84897	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04914	0.921
DC3000/delta hrp 6h	1.05509	0.95
DC3000/delta hrp 12h	0.97236	1
DC3000/delta hrp 24h	1.04923	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.64535
DC3000 delta B/DC3000 delta AB	0.76782	0.04

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95613	1
Exp 36h	0.80268	0.266
Exp 60h	0.94808	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00543	1
Var 0h	0.52972	0.374
Var 12h I row2-row1	0.89601	0.418
Var 12h NI row2-row1	0.85828	0.443
Var 36h I row2-row1	1.08583	1
Var 36h NI row2-row1	1.12818	1
Var 60h I row2-row1	1.07715	0.44
Var 60h NI row2-row1	1.06282	0.904
Time course 0hI-0hNI	0.9937	1
Time course 12hI-12hNI	0.97271	0.745
Time course 36hI-36hNI	0.78144	0.034
Time course 60hI-60hNI	0.26879	0.005

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)	0.89056	0.348
transgenic ySAMdc/azygous control (breaker)	0.97314	1
transgenic ySAMdc/azygous control (red)	0.99784	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96406	0.181

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94069	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87024	1
Manapal/WT (break)	0.69474	0.333
Manapal/WT (red)	0.90033	0.274