Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39782	0.365
27DAP/17DAP	0.8117	0.473
39DAP/27DAP	1.13644	0.8
41DAP/39DAP	1.50756	0.3
42DAP/41DAP	1.09473	0.937
43DAP/42DAP	0.66967	0.482
47DAP/43DAP	0.87463	0.568
52DAP/47DAP	1.86529	0.24
57DAP/52DAP	0.72078	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90882	0.083
17DAP/reference	1.07515	0.294
27DAP/reference	1.07632	0.17
39DAP/reference	1.07902	0.122
41DAP/reference	1.08022	0.516
42DAP/reference	0.97505	0.348
43DAP/reference	1.02689	0.758
47DAP/reference	0.98999	0.535
52DAP/reference	1.03635	0.8
57DAP/reference	1.02813	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15056	0.164
27DAP/17DAP	0.91449	0.508
39DAP/27DAP	1.06367	0.514
41DAP/39DAP	1.00986	1
42DAP/41DAP	1.01244	0.91
43DAP/42DAP	0.9436	0.482
47DAP/43DAP	0.98941	0.93
52DAP/47DAP	1.00136	0.941
57DAP/52DAP	0.9843	0.789
57DAP/7DAP	1.06187	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86855	0.224
17DAP/reference	0.89539	0.039
27DAP/reference	1.08536	0.246
39DAP/reference	0.89275	0.021
41DAP/reference	0.79907	0.042
42DAP/reference	0.79915	0.012
43DAP/reference	0.68057	0.013
47DAP/reference	0.87499	0.293
52DAP/reference	0.73497	0.057
57DAP/reference	0.69573	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16186	0.059
17DAP/reference	1.07468	0.278
27DAP/reference	1.30476	0.047
39DAP/reference	1.16488	0.164
41DAP/reference	1.00596	1
42DAP/reference	1.00088	0.723
43DAP/reference	1.39354	0.012
47DAP/reference	1.07231	0.513
52DAP/reference	1.17334	0.838
57DAP/reference	1.10301	0.26

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91969	0.045
17DAP/reference	1.02746	0.876
27DAP/reference	0.88755	0.067
39DAP/reference	0.85234	0.012
41DAP/reference	1.01826	0.826
42DAP/reference	1.07765	0.391
43DAP/reference	0.892	0.131
47DAP/reference	1.00535	1
52DAP/reference	0.87335	0.139
57DAP/reference	1.15575	0.2

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06715	0.966
26DAP/20DAP	0.75153	0.317
34DAP/26DAP	0.82553	0.256
51DAP/34DAP	0.98773	0.901
52DAP/51DAP	1.02913	0.792
53DAP/52DAP	0.99639	0.978
55DAP/53DAP	1.09388	0.826
57DAP/55DAP	1.00876	1
62DAP/57DAP	1.13929	0.902
68DAP/62DAP	0.8307	0.036
68DAP/14DAP	0.92237	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75011	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.84835	0.058
Mature Green Tomato/Ripe Tomato	2.3539	0.028
Immature Eggplant/Mature Eggplant	4.04371	0.05
Ripe Pepper/Ripe Tomato	17.6632	1
Mature Eggplant/Ripe Tomato	7.21932	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00995	1
1-1-2/M82	0.8867	1
12-2/M82	1.2577	1
12-4/M82	0.997	1
1-3/M82	0.78027	0.441
2-1-1/M82	1.24173
2-1/M82	N/A	N/A
2-6/M82	1.06354	0.594
3-2/M82	1.03778
4-1-1/M82	0.94011	1
4-1/M82	0.98868	1
4-3-2/M82	0.81496	1
4-3/M82	0.8491	0.611
5-3/M82	0.9666	1
6-2/M82	0.91948
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.99873	1
9-3-2/M82	0.80495	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.3666	0.362
IL12-4/WTpooled	0.64223	0.581
IL1-4/WTpooled	1.45124	1
WT/WTpooled	1.08133	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	1.044	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01807	0.921
DC3000/delta hrp 6h	1.07743	1
DC3000/delta hrp 12h	1.4417	0.474
DC3000/delta hrp 24h	0.70926	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.48232	0.023
DC3000 delta B/DC3000 delta AB	0.65524	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23412	1
Exp 36h	0.95768	0.879
Exp 60h	0.95748	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98787	1
Var 0h	0.90509	0.933
Var 12h I row2-row1	0.94239	0.627
Var 12h NI row2-row1	1.02716	1
Var 36h I row2-row1	1.12999	0.489
Var 36h NI row2-row1	1.04093	1
Var 60h I row2-row1	1.20961	0.562
Var 60h NI row2-row1	1.17388	0.904
Time course 0hI-0hNI	0.99576	1
Time course 12hI-12hNI	1.03361	0.816
Time course 36hI-36hNI	0.99959	0.811
Time course 60hI-60hNI	0.23814	0.006

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)	1.02349	1
transgenic ySAMdc/azygous control (breaker)	3.0686	0.162
transgenic ySAMdc/azygous control (red)	1.09812	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03288	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.64869	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.5633	0.09
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	5.96381	0.133