Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76699	0.297
27DAP/17DAP	1.30567	0.752
39DAP/27DAP	1.27238	0.458
41DAP/39DAP	0.89533	0.6
42DAP/41DAP	1.47602	0.136
43DAP/42DAP	1.02492	0.937
47DAP/43DAP	0.99711	0.895
52DAP/47DAP	1.18146	0.696
57DAP/52DAP	1.22904	0.645

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89407	0.217
17DAP/reference	0.8363	0.022
27DAP/reference	0.85723	0.163
39DAP/reference	0.94373	0.467
41DAP/reference	0.90941	0.267
42DAP/reference	1.14397	0.68
43DAP/reference	1.43343	0.008
47DAP/reference	1.49394	0.001
52DAP/reference	1.13151	0.476
57DAP/reference	1.29429	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04662	0.774
27DAP/17DAP	1.03807	0.954
39DAP/27DAP	1.14804	0.383
41DAP/39DAP	1.01412	1
42DAP/41DAP	1.06695	0.916
43DAP/42DAP	1.08552	0.554
47DAP/43DAP	1.06034	0.88
52DAP/47DAP	0.97065	0.898
57DAP/52DAP	1.09739	0.679
57DAP/7DAP	1.13414	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00719	1
17DAP/reference	1.08919	0.896
27DAP/reference	1.0302	0.974
39DAP/reference	1.06026	0.705
41DAP/reference	0.95316	0.412
42DAP/reference	1.01529	1
43DAP/reference	1.11945	0.408
47DAP/reference	1.03875	1
52DAP/reference	0.95552	0.363
57DAP/reference	0.86147	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18822	0.582
17DAP/reference	0.92418	0.26
27DAP/reference	0.88292	0.212
39DAP/reference	0.72461	0.083
41DAP/reference	0.80697	0.083
42DAP/reference	0.9759	0.534
43DAP/reference	1.12884	0.605
47DAP/reference	1.08812	0.377
52DAP/reference	0.81054	0.06
57DAP/reference	0.87481	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05393	0.723
17DAP/reference	0.89737	0.217
27DAP/reference	0.93951	0.27
39DAP/reference	1.09905	0.175
41DAP/reference	1.06392	0.411
42DAP/reference	1.18115	0.3
43DAP/reference	1.14583	0.396
47DAP/reference	1.28531	0.009
52DAP/reference	1.47491	0.042
57DAP/reference	1.34855	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.41255	0.817
26DAP/20DAP	0.89731	1
34DAP/26DAP	0.91042	0.841
51DAP/34DAP	1.07837	0.925
52DAP/51DAP	0.9599	1
53DAP/52DAP	1.23063	0.738
55DAP/53DAP	0.94705	0.686
57DAP/55DAP	1.11204	0.898
62DAP/57DAP	1.17943	0.393
68DAP/62DAP	1.18076	0.939
68DAP/14DAP	1.47556	0.041

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.1686	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.47615
Mature Green Tomato/Ripe Tomato	0.38591	0.019
Immature Eggplant/Mature Eggplant	1.5815
Ripe Pepper/Ripe Tomato	0.40319	0.224
Mature Eggplant/Ripe Tomato	0.85753	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.27361	0.877
1-1-2/M82	1.05611	1
12-2/M82	0.81451	0.464
12-4/M82	0.924	1
1-3/M82	1.81932	0.277
2-1-1/M82	1.05869	0.457
2-1/M82	0.83685	0.345
2-6/M82	1.38316	0.364
3-2/M82	0.76575
4-1-1/M82	1.3395	0.998
4-1/M82	1.26188	1
4-3-2/M82	1.60155	0.241
4-3/M82	1.92987	0.268
5-3/M82	1.35687	0.572
6-2/M82	1.88971	0.253
6-3/M82	0.98567	1
7-1/M82	0.94161	1
7-2/M82	1.48558	0.291
9-3-2/M82	1.54793	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.32816
IL2-6/WTpooled	1.06208	0.584
IL7-5/WTpooled	0.89871
IL7-3/WTpooled	1.0335	1
IL12-4/WTpooled	0.93016	1
IL1-4/WTpooled	1.07451	0.426
WT/WTpooled	0.90458	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	0.92894	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9388	1
DC3000/delta hrp 6h	1.0812	1
DC3000/delta hrp 12h	0.73029	1
DC3000/delta hrp 24h	0.64727	0.036

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.35234	0.087
DC3000 delta B/DC3000 delta AB	0.95385	0.483

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.13837	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04675	1
Var 0h	1.0769	1
Var 12h I row2-row1	1.22863	0.202
Var 12h NI row2-row1	1.22832	0.649
Var 36h I row2-row1	0.80914	0.805
Var 36h NI row2-row1	1.21479	0.482
Var 60h I row2-row1	0.92801	0.582
Var 60h NI row2-row1	1.08341	1
Time course 0hI-0hNI	1.05462	0.852
Time course 12hI-12hNI	1.14958	0.204
Time course 36hI-36hNI	1.1787	0.218
Time course 60hI-60hNI	1.19755	0.426

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)	0.95668	0.567
transgenic ySAMdc/azygous control (breaker)	1.50427	0.162
transgenic ySAMdc/azygous control (red)	1.07328	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98031	0.196

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79929	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97317	1
Manapal/WT (break)	0.90223	1
Manapal/WT (red)	0.92309	0.274