Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.16.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03882	0.938
27DAP/17DAP	0.85959	0.637
39DAP/27DAP	1.39053	0.546
41DAP/39DAP	0.86995	0.483
42DAP/41DAP	1.05145	1
43DAP/42DAP	1.0425	0.945
47DAP/43DAP	1.01444	0.895
52DAP/47DAP	1.01155	0.875
57DAP/52DAP	1.16522	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09587	0.441
17DAP/reference	1.0114	0.606
27DAP/reference	0.94658	0.24
39DAP/reference	1.01255	0.679
41DAP/reference	1.01633	0.759
42DAP/reference	0.985	0.305
43DAP/reference	1.02822	0.547
47DAP/reference	0.96537	0.242
52DAP/reference	0.9057	0.067
57DAP/reference	0.9237	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17507	0.278
27DAP/17DAP	0.90501	0.748
39DAP/27DAP	1.36818	0.553
41DAP/39DAP	0.98583	1
42DAP/41DAP	2.63558	0.401
43DAP/42DAP	1.21012	0.554
47DAP/43DAP	1.03896	0.985
52DAP/47DAP	1.21264	0.512
57DAP/52DAP	1.19535	0.431
57DAP/7DAP	1.00445	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14981	0.28
17DAP/reference	0.98138	0.518
27DAP/reference	0.95735	0.159
39DAP/reference	1.14201	0.166
41DAP/reference	1.14447	0.045
42DAP/reference	1.11367	0.233
43DAP/reference	0.92856	0.159
47DAP/reference	0.98421	0.671
52DAP/reference	1.32798	0.017
57DAP/reference	1.10476	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09682	0.077
17DAP/reference	1.05807	0.098
27DAP/reference	1.06591	0.437
39DAP/reference	1.05103	0.556
41DAP/reference	1.05234	0.91
42DAP/reference	0.96009	0.261
43DAP/reference	1.06277	0.59
47DAP/reference	0.95133	0.126
52DAP/reference	1.0032	1
57DAP/reference	1.12308	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06384	0.329
17DAP/reference	1.01529	0.988
27DAP/reference	1.01435	0.934
39DAP/reference	1.21651	0.019
41DAP/reference	1.06516	0.455
42DAP/reference	1.12299	0.347
43DAP/reference	0.96903	0.523
47DAP/reference	0.94914	0.357
52DAP/reference	0.92923	0.405
57DAP/reference	0.93323	0.195

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87812	1
26DAP/20DAP	0.96982	1
34DAP/26DAP	0.78094	0.803
51DAP/34DAP	1.50103	0.06
52DAP/51DAP	1.06698	0.925
53DAP/52DAP	1.30856	0.413
55DAP/53DAP	1.20591	0.855
57DAP/55DAP	1.19016	0.881
62DAP/57DAP	0.77107	0.28
68DAP/62DAP	0.84553	0.245
68DAP/14DAP	1.04885	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.36046	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02087	1
Mature Green Tomato/Ripe Tomato	1.2812	0.399
Immature Eggplant/Mature Eggplant	2.93832	0.05
Ripe Pepper/Ripe Tomato	0.73553	1
Mature Eggplant/Ripe Tomato	0.56057	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87146
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.7469	1
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	1.03114	1
4-3/M82	0.71412
5-3/M82	0.52005	0.49
6-2/M82	N/A	N/A
6-3/M82	1.08591
7-1/M82	0.38674
7-2/M82	1.06225
9-3-2/M82	0.96428	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.77948	0.365
IL2-6/WTpooled	0.97943	1
IL7-5/WTpooled	0.63566
IL7-3/WTpooled	1.21389	1
IL12-4/WTpooled	1.22054	0.673
IL1-4/WTpooled	1.10676	1
WT/WTpooled	0.92725	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.33477	0.875
DC3000/delta hrp 6h	1.10677	1
DC3000/delta hrp 12h	1.0722	1
DC3000/delta hrp 24h	1.06039	0.69

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02857	1
Exp 36h	1.39391	0.693
Exp 60h	1.37499	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.89795	1
Var 0h	1.1503	0.374
Var 12h I row2-row1	1.10597	0.692
Var 12h NI row2-row1	0.90518	0.906
Var 36h I row2-row1	1.08133	1
Var 36h NI row2-row1	1.73744	1
Var 60h I row2-row1	0.41746
Var 60h NI row2-row1	1.82229	0.904
Time course 0hI-0hNI	0.98058	0.903
Time course 12hI-12hNI	1.03121	0.779
Time course 36hI-36hNI	0.76077	0.117
Time course 60hI-60hNI	0.7251	0.161

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)	1.18679	0.321
transgenic ySAMdc/azygous control (breaker)	0.85596	0.49
transgenic ySAMdc/azygous control (red)	1.03535	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97785	0.248

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.57476	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07911	0.307
Manapal/WT (break)	1.03406	1
Manapal/WT (red)	0.928	0.424