Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.9.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03132	0.977
27DAP/17DAP	1.17074	0.819
39DAP/27DAP	1.09333	0.99
41DAP/39DAP	0.95051	0.785
42DAP/41DAP	0.87754	0.774
43DAP/42DAP	0.95593	0.858
47DAP/43DAP	0.8702	0.568
52DAP/47DAP	1.25131	0.534
57DAP/52DAP	0.86482	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91096	0.154
17DAP/reference	0.92128	0.069
27DAP/reference	0.94866	0.359
39DAP/reference	0.97621	0.554
41DAP/reference	0.92334	0.341
42DAP/reference	0.88969	0.003
43DAP/reference	0.93966	0.5
47DAP/reference	0.90692	0.018
52DAP/reference	0.78441	0.05
57DAP/reference	0.94101	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84238	0.185
27DAP/17DAP	0.98698	0.919
39DAP/27DAP	1.11601	0.373
41DAP/39DAP	1.07769	0.176
42DAP/41DAP	1.06877	0.401
43DAP/42DAP	0.95643	0.522
47DAP/43DAP	1.04237	0.788
52DAP/47DAP	1.024	0.915
57DAP/52DAP	1.00959	1
57DAP/7DAP	1.32886	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95143	0.157
17DAP/reference	0.94217	0.072
27DAP/reference	0.94547	0.088
39DAP/reference	0.96917	0.095
41DAP/reference	0.89536	0.076
42DAP/reference	0.82658	0.01
43DAP/reference	0.91869	0.175
47DAP/reference	0.98425	0.671
52DAP/reference	0.89981	0.163
57DAP/reference	0.95459	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03809	0.424
17DAP/reference	1.05038	0.367
27DAP/reference	0.92703	0.34
39DAP/reference	0.91236	0.298
41DAP/reference	0.94473	0.242
42DAP/reference	0.9028	0.15
43DAP/reference	0.90745	0.17
47DAP/reference	0.92271	0.126
52DAP/reference	0.93705	0.047
57DAP/reference	0.99158	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95773	0.052
17DAP/reference	0.99623	0.839
27DAP/reference	0.94191	0.089
39DAP/reference	1.01177	0.773
41DAP/reference	0.97605	0.293
42DAP/reference	0.92025	0.361
43DAP/reference	0.92864	0.256
47DAP/reference	0.90402	0.023
52DAP/reference	0.95508	0.538
57DAP/reference	0.75939	0.035

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97463	1
26DAP/20DAP	0.95151	0.512
34DAP/26DAP	1.06372	0.819
51DAP/34DAP	1.72696	0.032
52DAP/51DAP	1.06151	0.579
53DAP/52DAP	1.53041	0.057
55DAP/53DAP	1.11962
57DAP/55DAP	1.01584	0.875
62DAP/57DAP	0.78195	0.088
68DAP/62DAP	1.15107	0.664
68DAP/14DAP	1.01864	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80017	0.059

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.56808	0.287
Mature Green Tomato/Ripe Tomato	0.81534	0.038
Immature Eggplant/Mature Eggplant	0.66619	0.067
Ripe Pepper/Ripe Tomato	0.85281	1
Mature Eggplant/Ripe Tomato	0.69176	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87796	0.907
1-1-2/M82	0.98064	1
12-2/M82	1.17383	1
12-4/M82	0.91473	1
1-3/M82	1.08671	1
2-1-1/M82	1.26273	0.354
2-1/M82	0.96675	1
2-6/M82	1.03999	1
3-2/M82	0.91377	1
4-1-1/M82	0.98404	1
4-1/M82	0.83091	1
4-3-2/M82	0.90662	1
4-3/M82	0.98804	1
5-3/M82	1.08967	1
6-2/M82	1.10116	1
6-3/M82	1.01826	1
7-1/M82	0.92296	0.476
7-2/M82	1.05586	1
9-3-2/M82	0.86125	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.5718	0.277
IL2-6/WTpooled	0.79161	0.383
IL7-5/WTpooled	1.14297	0.792
IL7-3/WTpooled	1.54269	0.362
IL12-4/WTpooled	1.14993	0.785
IL1-4/WTpooled	0.92332	0.476
WT/WTpooled	0.9455	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	1.01466	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02601	0.921
DC3000/delta hrp 6h	1.01529	1
DC3000/delta hrp 12h	0.96188	1
DC3000/delta hrp 24h	0.87242	0.269

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00276	1
DC3000 delta B/DC3000 delta AB	1.36302	0.083

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19415	1
Exp 36h	0.97927	0.943
Exp 60h	1.16247	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0452	1
Var 0h	0.71611	0.332
Var 12h I row2-row1	0.96423	0.77
Var 12h NI row2-row1	1.02529	1
Var 36h I row2-row1	1.1177	1
Var 36h NI row2-row1	1.26598	1
Var 60h I row2-row1	0.80111	0.439
Var 60h NI row2-row1	0.90859	0.866
Time course 0hI-0hNI	1.12417	0.413
Time course 12hI-12hNI	1.02588	0.703
Time course 36hI-36hNI	1.33262	0.01
Time course 60hI-60hNI	2.83054	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)	1.12953	0.268
transgenic ySAMdc/azygous control (breaker)	1.46207	0.178
transgenic ySAMdc/azygous control (red)	0.87277	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90537	0.117

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8495	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.44952	0.09
Manapal/WT (break)	1.23724	1
Manapal/WT (red)	0.70539	0.181