Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.12.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89531	0.683
27DAP/17DAP	0.84528	0.889
39DAP/27DAP	1.28246	0.798
41DAP/39DAP	1.56921	0.58
42DAP/41DAP	1.82016	0.773
43DAP/42DAP	1.09686	0.945
47DAP/43DAP	0.96388	0.716
52DAP/47DAP	1.87386	0.327
57DAP/52DAP	0.77943	0.72

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.46449	0.052
17DAP/reference	1.05134	0.492
27DAP/reference	1.10156	0.735
39DAP/reference	1.15629	0.111
41DAP/reference	1.29832	0.038
42DAP/reference	1.45308	0.001
43DAP/reference	1.42648	0.014
47DAP/reference	3.1647	0.001
52DAP/reference	3.10117	0.007
57DAP/reference	1.94443	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9676
27DAP/17DAP	0.69028	0.684
39DAP/27DAP	0.89823
41DAP/39DAP	2.02591	0.112
42DAP/41DAP	1.22087	1
43DAP/42DAP	0.5391
47DAP/43DAP	1.90586
52DAP/47DAP	1.8461	0.148
57DAP/52DAP	0.9976	0.804
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01065	1
17DAP/reference	1.16184	0.574
27DAP/reference	0.98448	0.571
39DAP/reference	0.83322	0.025
41DAP/reference	0.79495	0.044
42DAP/reference	0.8714	0.111
43DAP/reference	0.8608	0.192
47DAP/reference	0.94304	0.504
52DAP/reference	0.94888	0.15
57DAP/reference	1.02691	0.694

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30944	0.279
17DAP/reference	1.54456	0.03
27DAP/reference	1.52101	0.111
39DAP/reference	1.0859	0.543
41DAP/reference	1.21327	0.172
42DAP/reference	1.30856	0.015
43DAP/reference	1.10263	0.662
47DAP/reference	1.20253	0.011
52DAP/reference	0.95136	0.38
57DAP/reference	0.92698	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20103	0.202
17DAP/reference	1.24332	0.15
27DAP/reference	1.18086	0.179
39DAP/reference	1.04088	0.633
41DAP/reference	0.93519	0.331
42DAP/reference	1.2471	0.146
43DAP/reference	1.39101	0.198
47DAP/reference	1.76228	0.009
52DAP/reference	1.37633	0.42
57DAP/reference	3.52255	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.50705	1
51DAP/34DAP	1.55238	0.829
52DAP/51DAP	0.961	1
53DAP/52DAP	0.6368	0.553
55DAP/53DAP	7.42365
57DAP/55DAP	1.30153	0.906
62DAP/57DAP	0.78191	0.466
68DAP/62DAP	1.86759	0.066
68DAP/14DAP	0.94758	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.45857

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99046	0.783
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.67892	0.062
Ripe Pepper/Ripe Tomato	0.32105	0.224
Mature Eggplant/Ripe Tomato	0.70335

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.35226	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.83483	0.294
IL12-4/WTpooled	0.9732	1
IL1-4/WTpooled	0.99469	1
WT/WTpooled	1.06888	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.15655	1
DC3000/delta hrp 12h	1.18713	1
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.78111	0.328
Exp 36h	0.87613	0.699
Exp 60h	0.87117	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.19407	0.782
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.04143	0.431
transgenic ySAMdc/azygous control (breaker)	0.95306	1
transgenic ySAMdc/azygous control (red)	0.96576	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92207	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13751	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17201	0.307
Manapal/WT (break)	1.11978	1
Manapal/WT (red)	1.51776	0.137