Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92353	0.596
27DAP/17DAP	0.76239	0.272
39DAP/27DAP	1.07923	0.956
41DAP/39DAP	0.84894	0.422
42DAP/41DAP	1.05346	0.994
43DAP/42DAP	1.13555	0.816
47DAP/43DAP	0.97712	0.89
52DAP/47DAP	1.0952	0.96
57DAP/52DAP	1.33235	0.477

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16931	0.735
17DAP/reference	1.2523	0.33
27DAP/reference	1.30422	0.405
39DAP/reference	1.7369	0.075
41DAP/reference	1.17695	0.48
42DAP/reference	1.28827	0.05
43DAP/reference	1.01935	0.904
47DAP/reference	1.27881	0.011
52DAP/reference	1.2014	0.878
57DAP/reference	1.44842	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.46035	0.057
27DAP/17DAP	1.11471	1
39DAP/27DAP	0.634	0.11
41DAP/39DAP	0.913	0.696
42DAP/41DAP	0.90281	0.37
43DAP/42DAP	0.88255	0.224
47DAP/43DAP	0.92003	0.647
52DAP/47DAP	1.5221	0.174
57DAP/52DAP	1.24325	0.405
57DAP/7DAP	0.73189	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.50101	0.035
17DAP/reference	0.98358	0.447
27DAP/reference	1.83713	0.008
39DAP/reference	0.97519	0.474
41DAP/reference	1.61148	0.013
42DAP/reference	2.50501	0.014
43DAP/reference	4.31506	0.006
47DAP/reference	2.87058	0.051
52DAP/reference	2.3685	0.007
57DAP/reference	0.91018	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37929	0.241
17DAP/reference	1.19145	0.756
27DAP/reference	1.46454	0.31
39DAP/reference	1.05826	0.682
41DAP/reference	1.10932	0.439
42DAP/reference	1.19081	0.136
43DAP/reference	0.77974	0.157
47DAP/reference	1.34997	0.045
52DAP/reference	1.25179	0.322
57DAP/reference	1.26881	0.593

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20632	0.212
17DAP/reference	0.92552	0.571
27DAP/reference	1.35358	0.075
39DAP/reference	1.30505	0.005
41DAP/reference	1.30342	0.019
42DAP/reference	2.65071	0.011
43DAP/reference	2.19983	0.013
47DAP/reference	1.15531	0.68
52DAP/reference	1.67326	0.065
57DAP/reference	1.41823	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94207	1
26DAP/20DAP	0.87808	1
34DAP/26DAP	0.9496	0.936
51DAP/34DAP	1.53124	0.581
52DAP/51DAP	1.2622	0.676
53DAP/52DAP	0.93924	0.75
55DAP/53DAP	1.46704	0.068
57DAP/55DAP	0.89312	0.601
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.95949	0.81
68DAP/14DAP	0.55309

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.54128	0.027

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.41713	0.149
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.69024
Mature Eggplant/Ripe Tomato	0.48254	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08345	0.742
1-1-2/M82	1.20409	1
12-2/M82	1.01486	1
12-4/M82	0.93646	0.273
1-3/M82	1.64226	0.479
2-1-1/M82	0.91031	0.92
2-1/M82	0.8402	0.74
2-6/M82	1.29842	0.594
3-2/M82	1.01061
4-1-1/M82	1.09426	1
4-1/M82	0.80469
4-3-2/M82	1.5232
4-3/M82	0.96314	0.72
5-3/M82	1.12938	1
6-2/M82	1.11459	0.253
6-3/M82	0.85503	1
7-1/M82	0.92998	1
7-2/M82	1.28728	0.324
9-3-2/M82	0.92344

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13711	0.277
IL2-6/WTpooled	1.03675	0.441
IL7-5/WTpooled	1.27919	0.792
IL7-3/WTpooled	1.17988	1
IL12-4/WTpooled	1.17937	0.737
IL1-4/WTpooled	1.22981	1
WT/WTpooled	0.98649	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	1.41297	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03898	0.921
DC3000/delta hrp 6h	0.90741	0.95
DC3000/delta hrp 12h	1.97536	1
DC3000/delta hrp 24h	1.11463	0.103

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60552	0.024
DC3000 delta B/DC3000 delta AB	0.55339	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.38366	1
Exp 60h	1.07684	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95232	1
Var 0h	0.97866	1
Var 12h I row2-row1	0.73631	0.338
Var 12h NI row2-row1	0.96063	0.82
Var 36h I row2-row1	0.916	0.805
Var 36h NI row2-row1	1.17033	1
Var 60h I row2-row1	1.22859	0.562
Var 60h NI row2-row1	1.01733	1
Time course 0hI-0hNI	0.95284	0.725
Time course 12hI-12hNI	0.99626	1
Time course 36hI-36hNI	0.90835	0.166
Time course 60hI-60hNI	0.12921	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)	1.07756	0.748
transgenic ySAMdc/azygous control (breaker)	0.91365	0.49
transgenic ySAMdc/azygous control (red)	0.9781	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94032	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08965	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07397	1
Manapal/WT (break)	1.11172	1
Manapal/WT (red)	0.95275	0.728