Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06578	0.812
27DAP/17DAP	0.90019	0.777
39DAP/27DAP	0.77146	0.27
41DAP/39DAP	0.97918	0.893
42DAP/41DAP	1.08021	0.945
43DAP/42DAP	1.13382	0.861
47DAP/43DAP	0.99279	0.926
52DAP/47DAP	0.89374	0.682
57DAP/52DAP	1.18278	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92226	0.317
17DAP/reference	0.96735	0.503
27DAP/reference	0.94342	0.484
39DAP/reference	1.06838	0.07
41DAP/reference	0.9207	0.542
42DAP/reference	0.87852	0.002
43DAP/reference	1.11316	0.787
47DAP/reference	0.86026	0.065
52DAP/reference	0.93632	0.341
57DAP/reference	0.9665	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93265	0.595
27DAP/17DAP	1.17103	0.546
39DAP/27DAP	0.73342	0.065
41DAP/39DAP	1.00914	1
42DAP/41DAP	1.06115	0.763
43DAP/42DAP	0.95939	0.709
47DAP/43DAP	0.88163	0.074
52DAP/47DAP	0.99806	0.935
57DAP/52DAP	0.80264	0.169
57DAP/7DAP	0.51046	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84399	0.146
17DAP/reference	0.99608	1
27DAP/reference	0.92376	0.43
39DAP/reference	0.9444	0.307
41DAP/reference	1.17163	0.314
42DAP/reference	1.02544	1
43DAP/reference	1.05152	0.974
47DAP/reference	1.01212	1
52DAP/reference	1.33806	0.009
57DAP/reference	1.49696	0.087

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9197	0.248
17DAP/reference	0.83037	0.056
27DAP/reference	0.9064	0.173
39DAP/reference	0.89601	0.079
41DAP/reference	0.96979	0.373
42DAP/reference	0.84667	0.055
43DAP/reference	0.72135	0.034
47DAP/reference	0.90755	0.053
52DAP/reference	0.89785	0.072
57DAP/reference	0.78324	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04628	1
17DAP/reference	0.98552	0.778
27DAP/reference	1.09292
39DAP/reference	1.25154	0.613
41DAP/reference	1.60211	0.15
42DAP/reference	1.02586	0.743
43DAP/reference	1.01947	1
47DAP/reference	1.18951	0.073
52DAP/reference	1.3391	0.201
57DAP/reference	1.23382	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20884	0.966
26DAP/20DAP	0.96218	1
34DAP/26DAP	0.83972	0.394
51DAP/34DAP	1.48658	0.041
52DAP/51DAP	0.76443	0.151
53DAP/52DAP	1.00622	0.983
55DAP/53DAP	0.81536	0.325
57DAP/55DAP	0.86152	0.475
62DAP/57DAP	0.75199	0.005
68DAP/62DAP	1.86643	0.045
68DAP/14DAP	1.36867	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09059	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.54628	0.058
Mature Green Tomato/Ripe Tomato	3.52091	0.016
Immature Eggplant/Mature Eggplant	0.29984
Ripe Pepper/Ripe Tomato	1.81043	1
Mature Eggplant/Ripe Tomato	1.94195	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.68781
12-2/M82	0.98019
12-4/M82	1.47598	1
1-3/M82	N/A	N/A
2-1-1/M82	0.59891
2-1/M82	N/A	N/A
2-6/M82	2.15777
3-2/M82	1.45258	0.463
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.17647
4-3/M82	0.94491
5-3/M82	0.76273	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.77873
7-2/M82	1.33879
9-3-2/M82	1.28463	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87231	1
IL2-6/WTpooled	1.15892	0.788
IL7-5/WTpooled	1.54361	0.722
IL7-3/WTpooled	0.9043	0.418
IL12-4/WTpooled	1.00806	1
IL1-4/WTpooled	1.00972	1
WT/WTpooled	1.02032	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	0.92887	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90892	0.868
DC3000/delta hrp 6h	0.97222	0.95
DC3000/delta hrp 12h	1.01611	1
DC3000/delta hrp 24h	0.71368	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72919	0.273
DC3000 delta B/DC3000 delta AB	0.85864	0.157

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93142	1
Exp 36h	0.80692	0.661
Exp 60h	0.82975	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0157	1
Var 0h	1.43597	0.782
Var 12h I row2-row1	0.89188	0.335
Var 12h NI row2-row1	1.00867	1
Var 36h I row2-row1	1.41014	0.41
Var 36h NI row2-row1	1.04276	1
Var 60h I row2-row1	1.12832
Var 60h NI row2-row1	1.05092	1
Time course 0hI-0hNI	0.93427	0.39
Time course 12hI-12hNI	0.96338	0.711
Time course 36hI-36hNI	0.89625	0.068
Time course 60hI-60hNI	0.28339	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)	1.07232	0.372
transgenic ySAMdc/azygous control (breaker)	1.33744	0.178
transgenic ySAMdc/azygous control (red)	1.38607	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0458	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.51818	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.98573	0.083
Manapal/WT (break)	4.58924	0.14
Manapal/WT (red)	3.3776	0.126