Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66435	0.131
27DAP/17DAP	1.34592	0.683
39DAP/27DAP	0.82727	0.449
41DAP/39DAP	1.37374	0.387
42DAP/41DAP	1.07	0.971
43DAP/42DAP	0.98421	0.93
47DAP/43DAP	0.99458	0.879
52DAP/47DAP	1.34235	0.43
57DAP/52DAP	0.88059	0.779

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06761	0.48
17DAP/reference	0.85323	0.079
27DAP/reference	0.85776	0.089
39DAP/reference	0.74859	0.013
41DAP/reference	0.79629	0.039
42DAP/reference	1.09267	0.2
43DAP/reference	0.89875	0.033
47DAP/reference	0.79869	0.002
52DAP/reference	0.73074	0.014
57DAP/reference	0.70267	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66522	0.035
27DAP/17DAP	1.02679	0.988
39DAP/27DAP	1.16877	0.56
41DAP/39DAP	1.18458	0.674
42DAP/41DAP	1.02066	1
43DAP/42DAP	1.17494	0.413
47DAP/43DAP	1.07011	0.817
52DAP/47DAP	1.93732	0.048
57DAP/52DAP	2.88259	0.03
57DAP/7DAP	1.28516	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85909	0.091
17DAP/reference	1.16028	0.147
27DAP/reference	0.83298	0.109
39DAP/reference	1.04882	1
41DAP/reference	0.89507	0.203
42DAP/reference	1.11779	0.534
43DAP/reference	2.14966	0.007
47DAP/reference	0.70491	0.222
52DAP/reference	0.81969	0.15
57DAP/reference	1.1909	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04609	0.687
17DAP/reference	0.73981	0.007
27DAP/reference	0.68244	0.019
39DAP/reference	0.60268	0.008
41DAP/reference	0.95206	0.348
42DAP/reference	0.74658	0.037
43DAP/reference	0.76601	0.023
47DAP/reference	0.81552	0.023
52DAP/reference	0.68848	0.014
57DAP/reference	0.82306	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80183	0.071
17DAP/reference	0.77274	0.139
27DAP/reference	1.09351	0.325
39DAP/reference	1.04026	1
41DAP/reference	0.87054	0.209
42DAP/reference	0.92619	0.445
43DAP/reference	1.14541	0.855
47DAP/reference	0.67848	0.005
52DAP/reference	2.22592	0.059
57DAP/reference	1.0495	0.92

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02211	1
26DAP/20DAP	0.82387	0.512
34DAP/26DAP	1.04829	1
51DAP/34DAP	0.84877	0.498
52DAP/51DAP	1.08656	0.467
53DAP/52DAP	0.91918	0.767
55DAP/53DAP	1.19851	0.181
57DAP/55DAP	0.82875	0.246
62DAP/57DAP	1.31913	0.185
68DAP/62DAP	0.79013	0.505
68DAP/14DAP	0.7202	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87215	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.3353	0.024
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.14687	0.224
Mature Eggplant/Ripe Tomato	0.14099	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.72249
1-1-2/M82	0.83399	0.804
12-2/M82	N/A	N/A
12-4/M82	0.95417	1
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	0.75893
4-3/M82	N/A	N/A
5-3/M82	0.81377	0.642
6-2/M82	N/A	N/A
6-3/M82	1.05937
7-1/M82	0.80626
7-2/M82	1.01382
9-3-2/M82	0.96616

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71317	0.243
IL2-6/WTpooled	1.00627	1
IL7-5/WTpooled	0.6457	1
IL7-3/WTpooled	0.70768	0.31
IL12-4/WTpooled	1.00569	1
IL1-4/WTpooled	0.83291	0.562
WT/WTpooled	1.10879	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	0.95329	1
DC3000/delta hrp 6h	1.2887	1
DC3000/delta hrp 12h	0.80892
DC3000/delta hrp 24h	11.3741	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.47109	0.047
DC3000 delta B/DC3000 delta AB	1.15692	0.279

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98416	1
Exp 36h	0.61488	0.539
Exp 60h	0.58769	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99466	1
Var 0h	0.92962	0.933
Var 12h I row2-row1	0.94971	0.467
Var 12h NI row2-row1	0.8156	0.713
Var 36h I row2-row1	0.97742	1
Var 36h NI row2-row1	0.81401	0.421
Var 60h I row2-row1	1.33494	0.562
Var 60h NI row2-row1	1.27356	0.904
Time course 0hI-0hNI	1.15133	0.63
Time course 12hI-12hNI	1.05803	0.773
Time course 36hI-36hNI	0.85256	0.047
Time course 60hI-60hNI	0.89548	0.081

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)	5.61594	0.256
transgenic ySAMdc/azygous control (breaker)	0.50448	0.251
transgenic ySAMdc/azygous control (red)	1.89631	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96773	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.48692	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27306	1
Manapal/WT (break)	0.8186	1
Manapal/WT (red)	0.6884	0.274