Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.6.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85526	0.244
27DAP/17DAP	0.70892	0.206
39DAP/27DAP	1.27409	0.391
41DAP/39DAP	0.87908	0.524
42DAP/41DAP	0.59739	0.774
43DAP/42DAP	1.97468	0.26
47DAP/43DAP	0.37089	0.049
52DAP/47DAP	1.61232	0.228
57DAP/52DAP	0.88087	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04836	0.872
17DAP/reference	1.12086	0.068
27DAP/reference	0.99926	0.885
39DAP/reference	1.0439	0.214
41DAP/reference	1.10211	0.111
42DAP/reference	0.95988	0.169
43DAP/reference	1.09882	0.163
47DAP/reference	0.88034	0.016
52DAP/reference	0.8425	0.096
57DAP/reference	0.84446	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.46827	0.055
27DAP/17DAP	1.20952	0.664
39DAP/27DAP	0.45655	0.033
41DAP/39DAP	1.49424	0.656
42DAP/41DAP	0.9035	0.425
43DAP/42DAP	0.65616	0.028
47DAP/43DAP	0.97318	0.87
52DAP/47DAP	0.94762	0.814
57DAP/52DAP	1.22436	0.236
57DAP/7DAP	0.35563	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02184	0.999
17DAP/reference	0.96649	0.338
27DAP/reference	0.86264	0.048
39DAP/reference	0.74545	0.011
41DAP/reference	0.81456	0.06
42DAP/reference	0.79254	0.01
43DAP/reference	0.79934	0.031
47DAP/reference	0.86494	0.222
52DAP/reference	0.74067	0.012
57DAP/reference	0.78423	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05748	0.679
17DAP/reference	1.04118	0.628
27DAP/reference	0.88785	0.181
39DAP/reference	0.93552	0.306
41DAP/reference	0.90125	0.13
42DAP/reference	0.85804	0.042
43DAP/reference	1.15502	0.373
47DAP/reference	0.9994	0.749
52DAP/reference	1.04346	0.471
57DAP/reference	1.25726	0.08

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88892	0.249
17DAP/reference	1.0199	0.9
27DAP/reference	0.77379	0.023
39DAP/reference	0.73502	0.018
41DAP/reference	0.83243	0.04
42DAP/reference	0.76052	0.02
43DAP/reference	0.71054	0.023
47DAP/reference	0.99466	0.626
52DAP/reference	0.88272	0.334
57DAP/reference	0.64547	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99204	1
26DAP/20DAP	2.62204	0.088
34DAP/26DAP	0.70774	0.182
51DAP/34DAP	1.06236	0.775
52DAP/51DAP	1.03186	0.915
53DAP/52DAP	0.96719	0.854
55DAP/53DAP	0.95522	0.746
57DAP/55DAP	1.09185	0.764
62DAP/57DAP	1.49492	0.133
68DAP/62DAP	0.68179	0.314
68DAP/14DAP	1.25263	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29882	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.09302	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.7883
Mature Eggplant/Ripe Tomato	2.55754	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.997	1
1-1-2/M82	1.22969	1
12-2/M82	1.11949	1
12-4/M82	0.89398	1
1-3/M82	0.86531	0.501
2-1-1/M82	0.82281
2-1/M82	0.79538	0.322
2-6/M82	1.00353	1
3-2/M82	0.95528
4-1-1/M82	0.87174	1
4-1/M82	0.89905	1
4-3-2/M82	0.95429	1
4-3/M82	0.79067	0.72
5-3/M82	0.96606	1
6-2/M82	0.71721	0.497
6-3/M82	0.97655	1
7-1/M82	N/A	N/A
7-2/M82	0.89059	0.881
9-3-2/M82	0.73332	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12767	0.493
IL2-6/WTpooled	0.77198	0.473
IL7-5/WTpooled	1.10479	1
IL7-3/WTpooled	0.8887	1
IL12-4/WTpooled	0.96125	1
IL1-4/WTpooled	0.57403	0.699
WT/WTpooled	0.79065	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	1.06231	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06048	0.921
DC3000/delta hrp 6h	0.68026	0.95
DC3000/delta hrp 12h	1.21569	1
DC3000/delta hrp 24h	0.92198	0.395

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.80484	0.023
DC3000 delta B/DC3000 delta AB	0.79753	0.085

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18045	1
Exp 36h	1.16666	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	0.98685	1
Var 0h	0.55025	0.782
Var 12h I row2-row1	1.14333	0.654
Var 12h NI row2-row1	1.10237	1
Var 36h I row2-row1	0.95972	1
Var 36h NI row2-row1	1.16037	1
Var 60h I row2-row1	0.7055	0.292
Var 60h NI row2-row1	0.96139	1
Time course 0hI-0hNI	0.97119	0.881
Time course 12hI-12hNI	1.10289	0.445
Time course 36hI-36hNI	1.01191	0.874
Time course 60hI-60hNI	1.05451	0.673

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)	0.9725	0.348
transgenic ySAMdc/azygous control (breaker)	0.95342	0.49
transgenic ySAMdc/azygous control (red)	1.02527	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0042	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8342	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.11012	1
Manapal/WT (red)	0.89061	0.503