Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.14.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20798	0.739
27DAP/17DAP	1.31837	0.742
39DAP/27DAP	0.93803	0.62
41DAP/39DAP	1.13531	0.359
42DAP/41DAP	1.02837	1
43DAP/42DAP	0.93655	0.708
47DAP/43DAP	1.16322	0.293
52DAP/47DAP	0.89175	0.683
57DAP/52DAP	1.63369	0.641

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88007	0.045
17DAP/reference	0.95525	0.321
27DAP/reference	0.93451	0.265
39DAP/reference	0.98621	0.816
41DAP/reference	1.06406	0.365
42DAP/reference	0.91883	0.081
43DAP/reference	0.94148	0.36
47DAP/reference	1.05195	0.478
52DAP/reference	1.02781	0.73
57DAP/reference	0.9848	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45853	0.127
27DAP/17DAP	0.93377	0.748
39DAP/27DAP	0.90014	0.594
41DAP/39DAP	1.25046	0.214
42DAP/41DAP	1.06354	0.984
43DAP/42DAP	0.41412	0.022
47DAP/43DAP	1.24708	0.65
52DAP/47DAP	1.00322	0.93
57DAP/52DAP	1.28925	0.632
57DAP/7DAP	0.7949	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13579	0.231
17DAP/reference	0.97367	0.389
27DAP/reference	1.10954	0.131
39DAP/reference	0.81232	0.031
41DAP/reference	1.11932	0.43
42DAP/reference	0.69017	0.027
43DAP/reference	0.79676	0.022
47DAP/reference	0.95607	0.293
52DAP/reference	0.79045	0.04
57DAP/reference	0.86255	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05534	0.915
17DAP/reference	0.95822	0.378
27DAP/reference	1.0623	0.682
39DAP/reference	0.91729	0.208
41DAP/reference	0.83426	0.058
42DAP/reference	0.84476	0.046
43DAP/reference	1.12954	0.242
47DAP/reference	1.01477	1
52DAP/reference	0.86585	0.02
57DAP/reference	0.95674	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14086	0.196
17DAP/reference	0.91726	0.322
27DAP/reference	1.06861	0.596
39DAP/reference	0.98434	0.591
41DAP/reference	0.97221	0.56
42DAP/reference	0.85506	0.134
43DAP/reference	0.79307	0.023
47DAP/reference	0.89406	0.139
52DAP/reference	0.70982	0.118
57DAP/reference	0.8757	0.129

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02547	1
26DAP/20DAP	1.08743	0.865
34DAP/26DAP	1.12273	0.542
51DAP/34DAP	1.31169	0.103
52DAP/51DAP	0.83175	0.151
53DAP/52DAP	2.01458	0.017
55DAP/53DAP	1.12414	0.317
57DAP/55DAP	0.74927	0.21
62DAP/57DAP	0.59092	0.003
68DAP/62DAP	1.17044	0.747
68DAP/14DAP	1.29061	0.059

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.22691	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70962	0.193
Mature Green Tomato/Ripe Tomato	1.05597	0.948
Immature Eggplant/Mature Eggplant	1.4963	0.05
Ripe Pepper/Ripe Tomato	3.54314	0.256
Mature Eggplant/Ripe Tomato	3.42626	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94856
1-1-2/M82	0.9698
12-2/M82	0.84698	0.862
12-4/M82	0.75905
1-3/M82	N/A	N/A
2-1-1/M82	0.66949
2-1/M82	N/A	N/A
2-6/M82	1.34625
3-2/M82	1.20287	0.463
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	2.24217
4-3/M82	1.74786	0.268
5-3/M82	1.12817	1
6-2/M82	N/A	N/A
6-3/M82	0.86647	1
7-1/M82	1.00881
7-2/M82	1.63357	1
9-3-2/M82	1.75552

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01173	1
IL2-6/WTpooled	0.87793	0.473
IL7-5/WTpooled	0.99636	1
IL7-3/WTpooled	1.22404	1
IL12-4/WTpooled	1.05187	0.891
IL1-4/WTpooled	1.00151	1
WT/WTpooled	1.01497	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	0.98224	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91047	1
DC3000/delta hrp 6h	0.99545	0.95
DC3000/delta hrp 12h	0.97838	1
DC3000/delta hrp 24h	0.69332	0.053

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	1.34236	0.503

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03059	1
Exp 36h	1.0255	1
Exp 60h	0.91781	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02488	1
Var 0h	1.06621	0.782
Var 12h I row2-row1	0.90735	0.565
Var 12h NI row2-row1	1.05253	0.649
Var 36h I row2-row1	0.97979	1
Var 36h NI row2-row1	1.74075	0.482
Var 60h I row2-row1	0.72003	0.306
Var 60h NI row2-row1	1.02938	1
Time course 0hI-0hNI	1.03044	0.799
Time course 12hI-12hNI	0.91237	0.219
Time course 36hI-36hNI	0.76376	0.023
Time course 60hI-60hNI	1.14131	0.08

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)	0.83356	0.286
transgenic ySAMdc/azygous control (breaker)	0.90338	0.49
transgenic ySAMdc/azygous control (red)	1.04788	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08153	0.066

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04181	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92037	1
Manapal/WT (break)	0.83755	1
Manapal/WT (red)	1.43627	0.413