Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.8.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7819	0.09
27DAP/17DAP	1.05042	1
39DAP/27DAP	1.02476	0.899
41DAP/39DAP	2.32621	0.468
42DAP/41DAP	1.00592	1
43DAP/42DAP	1.03018	0.937
47DAP/43DAP	0.91792	0.699
52DAP/47DAP	0.86285	0.619
57DAP/52DAP	0.9154	0.903

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93655	0.362
17DAP/reference	0.87355	0.147
27DAP/reference	0.90808	0.075
39DAP/reference	0.95527	0.513
41DAP/reference	0.89765	0.154
42DAP/reference	0.81988	0.007
43DAP/reference	1.05006	0.899
47DAP/reference	0.84064	0.025
52DAP/reference	0.99047	0.618
57DAP/reference	1.01243	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80128	0.402
27DAP/17DAP	1.14594	0.626
39DAP/27DAP	0.84833	0.073
41DAP/39DAP	0.93529	0.804
42DAP/41DAP	1.00274	0.887
43DAP/42DAP	1.05239	0.478
47DAP/43DAP	1.08725	0.678
52DAP/47DAP	0.96033	0.899
57DAP/52DAP	1.25647	0.36
57DAP/7DAP	1.14938	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95001	0.495
17DAP/reference	1.01474	1
27DAP/reference	1.04647	0.804
39DAP/reference	1.07995	0.865
41DAP/reference	1.17718	0.232
42DAP/reference	1.1366	0.534
43DAP/reference	1.24386	0.118
47DAP/reference	1.0255	0.98
52DAP/reference	1.02857	0.802
57DAP/reference	0.88642	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97421	0.736
17DAP/reference	0.88646	0.287
27DAP/reference	1.04836	1
39DAP/reference	0.90108	0.147
41DAP/reference	0.95925	0.364
42DAP/reference	1.02135	1
43DAP/reference	0.98738	0.633
47DAP/reference	1.0517	0.527
52DAP/reference	0.78595	0.023
57DAP/reference	0.74291	0.02

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86727	0.049
17DAP/reference	0.88222	0.239
27DAP/reference	1.23497	0.056
39DAP/reference	1.00779	0.819
41DAP/reference	0.88937	0.05
42DAP/reference	1.14867	0.108
43DAP/reference	0.87291	0.066
47DAP/reference	0.99734	0.626
52DAP/reference	0.90068	0.472
57DAP/reference	0.9777	0.553

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32693	0.966
26DAP/20DAP	1.08537	0.798
34DAP/26DAP	0.94301	0.898
51DAP/34DAP	1.46613	0.108
52DAP/51DAP	0.9323	1
53DAP/52DAP	1.66503	0.055
55DAP/53DAP	1.10586	0.407
57DAP/55DAP	0.84644	0.475
62DAP/57DAP	0.86063	0.681
68DAP/62DAP	1.42136	0.573
68DAP/14DAP	1.47825	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8493	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8214	0.304
Mature Green Tomato/Ripe Tomato	1.12397	0.948
Immature Eggplant/Mature Eggplant	2.61436	0.05
Ripe Pepper/Ripe Tomato	4.00098	0.256
Mature Eggplant/Ripe Tomato	1.60882	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89817	0.613
1-1-2/M82	1.06706	1
12-2/M82	1.17475	0.519
12-4/M82	0.71782	0.33
1-3/M82	1.17423	0.277
2-1-1/M82	0.70892	0.465
2-1/M82	0.90178
2-6/M82	0.91439	1
3-2/M82	1.11985	0.395
4-1-1/M82	1.08056	1
4-1/M82	0.86615
4-3-2/M82	1.26776
4-3/M82	0.94501	1
5-3/M82	0.95681	1
6-2/M82	0.96658
6-3/M82	1.19465	1
7-1/M82	0.95493
7-2/M82	0.9848	1
9-3-2/M82	1.20789	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.03995	1
IL7-5/WTpooled	1.43147	0.792
IL7-3/WTpooled	0.96807	1
IL12-4/WTpooled	1.35661	0.595
IL1-4/WTpooled	1.33485	1
WT/WTpooled	0.9917	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	0.89843	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98736	1
DC3000/delta hrp 6h	0.93316	0.95
DC3000/delta hrp 12h	1.12541	1
DC3000/delta hrp 24h	1.84409	0.026

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80316	0.052
DC3000 delta B/DC3000 delta AB	0.66908	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.27787	1
Exp 36h	1.41361	0.489
Exp 60h	1.42284	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00445	1
Var 0h	1.23476	0.98
Var 12h I row2-row1	0.82306	0.39
Var 12h NI row2-row1	0.9331	0.494
Var 36h I row2-row1	1.04314	1
Var 36h NI row2-row1	0.96401	0.791
Var 60h I row2-row1	0.80855	0.285
Var 60h NI row2-row1	1.05499	1
Time course 0hI-0hNI	1.07049	0.603
Time course 12hI-12hNI	1.01519	0.88
Time course 36hI-36hNI	0.94436	0.225
Time course 60hI-60hNI	0.67289	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)	0.94662	0.485
transgenic ySAMdc/azygous control (breaker)	0.91329	0.49
transgenic ySAMdc/azygous control (red)	0.97977	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.23601	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.62727	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83116	1
Manapal/WT (break)	1.09012	1
Manapal/WT (red)	0.72934	0.181