Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.5.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01234	0.839
27DAP/17DAP	0.96662	0.975
39DAP/27DAP	1.98882	0.063
41DAP/39DAP	0.88527	0.539
42DAP/41DAP	0.95747	1
43DAP/42DAP	1.21792	1
47DAP/43DAP	0.62048	0.069
52DAP/47DAP	1.22999	0.794
57DAP/52DAP	1.21204	0.87

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97526	0.562
17DAP/reference	1.04197	0.764
27DAP/reference	1.02741	0.909
39DAP/reference	0.98025	0.734
41DAP/reference	0.97411	0.667
42DAP/reference	1.04269	0.995
43DAP/reference	1.1188	0.074
47DAP/reference	0.94018	0.258
52DAP/reference	0.94046	0.319
57DAP/reference	1.11093	0.122

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8887	0.376
27DAP/17DAP	0.80187	0.121
39DAP/27DAP	0.94671	0.628
41DAP/39DAP	1.29336	0.727
42DAP/41DAP	1.049	1
43DAP/42DAP	1.06033	0.585
47DAP/43DAP	0.99611	0.954
52DAP/47DAP	0.93383	0.746
57DAP/52DAP	0.89859	0.349
57DAP/7DAP	0.64112	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10241	0.534
17DAP/reference	1.06054	1
27DAP/reference	1.06227	0.551
39DAP/reference	1.31629	0.007
41DAP/reference	1.02257	1
42DAP/reference	1.0333	0.828
43DAP/reference	1.17488	0.344
47DAP/reference	1.07002	1
52DAP/reference	1.15069	0.149
57DAP/reference	1.22231	0.04

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95496	0.669
17DAP/reference	1.59334	0.508
27DAP/reference	1.00771	0.619
39DAP/reference	1.03675	1
41DAP/reference	0.98239	0.481
42DAP/reference	0.98087	0.534
43DAP/reference	0.90974	0.344
47DAP/reference	0.99344	0.625
52DAP/reference	1.02737	1
57DAP/reference	1.02035	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88427	0.087
17DAP/reference	0.94449	0.537
27DAP/reference	1.07687	0.425
39DAP/reference	1.01894	0.889
41DAP/reference	1.06438	0.486
42DAP/reference	1.03809	1
43DAP/reference	1.07589	0.655
47DAP/reference	0.89431	0.306
52DAP/reference	1.22401	0.324
57DAP/reference	1.03807	0.924

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03435	1
26DAP/20DAP	1.30871	0.504
34DAP/26DAP	1.107	1
51DAP/34DAP	1.30328	0.049
52DAP/51DAP	0.74489	0.151
53DAP/52DAP	1.16801	0.47
55DAP/53DAP	0.87785	0.462
57DAP/55DAP	1.15527	0.865
62DAP/57DAP	0.92549	0.681
68DAP/62DAP	1.56211	0.202
68DAP/14DAP	0.70143	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.47501	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.14479	0.399
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.86042	0.801
12-2/M82	N/A	N/A
12-4/M82	1.53744
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	1.02156	1
4-1-1/M82	N/A	N/A
4-1/M82	1.81794
4-3-2/M82	1.82693	0.262
4-3/M82	N/A	N/A
5-3/M82	1.04275
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.00197
7-2/M82	N/A	N/A
9-3-2/M82	1.94668	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10585	1
IL2-6/WTpooled	1.06619	1
IL7-5/WTpooled	0.82517	1
IL7-3/WTpooled	0.99188	1
IL12-4/WTpooled	0.90544	0.554
IL1-4/WTpooled	1.11672	1
WT/WTpooled	0.87671	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	1.26995	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04153	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.59838	1
DC3000/delta hrp 24h	0.6774	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22212	0.441
DC3000 delta B/DC3000 delta AB	1.28049	0.232

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07141	1
Exp 36h	1.38177	0.489
Exp 60h	1.21808	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96085	1
Var 0h	1.05835	1
Var 12h I row2-row1	0.99363	1
Var 12h NI row2-row1	1.08801	1
Var 36h I row2-row1	1.19983	0.339
Var 36h NI row2-row1	0.77673	0.478
Var 60h I row2-row1	0.86082	0.285
Var 60h NI row2-row1	0.93664	0.818
Time course 0hI-0hNI	0.92985	0.485
Time course 12hI-12hNI	1.01808	0.824
Time course 36hI-36hNI	1.22739	0.017
Time course 60hI-60hNI	1.81175	0.008

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)	0.95011	0.286
transgenic ySAMdc/azygous control (breaker)	1.04253	1
transgenic ySAMdc/azygous control (red)	1.07816	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03187	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85157	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09347	0.307
Manapal/WT (break)	1.16749	0.381
Manapal/WT (red)	N/A	N/A