Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.3.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09428	0.912
27DAP/17DAP	0.94543	0.913
39DAP/27DAP	1.7209	0.068
41DAP/39DAP	0.60378	0.045
42DAP/41DAP	0.96634	1
43DAP/42DAP	1.15402	1
47DAP/43DAP	0.8058	0.416
52DAP/47DAP	1.1587	0.879
57DAP/52DAP	1.23693	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16019	0.76
17DAP/reference	0.95428	0.448
27DAP/reference	1.13058	0.232
39DAP/reference	1.03635	0.664
41DAP/reference	0.80982	0.016
42DAP/reference	0.89515	0.034
43DAP/reference	0.88377	0.049
47DAP/reference	0.90567	0.065
52DAP/reference	0.97854	0.515
57DAP/reference	1.07586	0.478

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07394	0.642
27DAP/17DAP	1.25941	0.148
39DAP/27DAP	0.84502	0.304
41DAP/39DAP	1.23668	1
42DAP/41DAP	1.01807	0.925
43DAP/42DAP	0.95353	0.665
47DAP/43DAP	0.94054	0.787
52DAP/47DAP	1.46328	0.188
57DAP/52DAP	1.43813	0.15
57DAP/7DAP	1.30767	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07194	0.461
17DAP/reference	1.13026	0.437
27DAP/reference	1.10505	0.664
39DAP/reference	1.13265	0.141
41DAP/reference	1.05979	0.46
42DAP/reference	1.34296	0.076
43DAP/reference	1.06361	0.537
47DAP/reference	1.01803	1
52DAP/reference	1.15789	0.105
57DAP/reference	1.11721	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89011	0.238
17DAP/reference	0.94159	0.357
27DAP/reference	0.91133	0.037
39DAP/reference	0.94148	0.339
41DAP/reference	0.91302	0.1
42DAP/reference	0.90841	0.028
43DAP/reference	0.74257	0.029
47DAP/reference	0.83606	0.01
52DAP/reference	0.87822	0.016
57DAP/reference	0.7606	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16188	0.052
17DAP/reference	1.26508	0.07
27DAP/reference	1.10719	0.271
39DAP/reference	1.07342	0.496
41DAP/reference	1.21107	0.1
42DAP/reference	1.11714	0.433
43DAP/reference	1.14011	0.362
47DAP/reference	1.00946	1
52DAP/reference	1.11416	0.694
57DAP/reference	1.15829	0.098

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.48822	0.966
26DAP/20DAP	2.3382	0.487
34DAP/26DAP	2.46682	1
51DAP/34DAP	1.93736	0.496
52DAP/51DAP	2.02763	0.037
53DAP/52DAP	0.79809	0.107
55DAP/53DAP	1.12606	0.162
57DAP/55DAP	0.55354	0.063
62DAP/57DAP	1.29272	0.024
68DAP/62DAP	0.89019	0.722
68DAP/14DAP	1.29947	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13865	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.23437	0.058
Mature Green Tomato/Ripe Tomato	1.18639	0.523
Immature Eggplant/Mature Eggplant	0.3415	0.063
Ripe Pepper/Ripe Tomato	0.71753	0.224
Mature Eggplant/Ripe Tomato	0.69055

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	1.06778
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.38062	0.508
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	1.3094
7-2/M82	N/A	N/A
9-3-2/M82	1.23513	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18084	0.277
IL2-6/WTpooled	0.44603
IL7-5/WTpooled	1.12803	0.792
IL7-3/WTpooled	1.52576
IL12-4/WTpooled	0.65088	0.554
IL1-4/WTpooled	1.02409	1
WT/WTpooled	0.98761	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	1.08305	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88469	0.868
DC3000/delta hrp 6h	1.18692	1
DC3000/delta hrp 12h	1.05634	1
DC3000/delta hrp 24h	0.89429	0.464

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14424	0.134
DC3000 delta B/DC3000 delta AB	1.19019	0.237

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97577	1
Exp 36h	0.83469	0.699
Exp 60h	0.7407	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98205	1
Var 0h	0.84054	0.933
Var 12h I row2-row1	0.88286	0.705
Var 12h NI row2-row1	1.1793	0.649
Var 36h I row2-row1	0.98497	1
Var 36h NI row2-row1	1.07207	1
Var 60h I row2-row1	0.80237	0.582
Var 60h NI row2-row1	0.94507	1
Time course 0hI-0hNI	0.99021	0.985
Time course 12hI-12hNI	1.04296	0.824
Time course 36hI-36hNI	1.08459	0.28
Time course 60hI-60hNI	1.18963	0.495

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)	1.0326	0.571
transgenic ySAMdc/azygous control (breaker)	0.86249	0.49
transgenic ySAMdc/azygous control (red)	1.30587	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03583	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.67186	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.76288	0.083
Manapal/WT (break)	2.74262	0.126
Manapal/WT (red)	1.0768	1