Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.204	0.443
27DAP/17DAP	1.01167	0.994
39DAP/27DAP	0.91018	0.62
41DAP/39DAP	1.7471	0.273
42DAP/41DAP	0.93567	1
43DAP/42DAP	1.01386	0.937
47DAP/43DAP	0.82128	0.455
52DAP/47DAP	1.13518	0.724
57DAP/52DAP	1.00483	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9383	0.254
17DAP/reference	0.99566	0.904
27DAP/reference	0.87655	0.057
39DAP/reference	0.91688	0.2
41DAP/reference	1.02227	0.624
42DAP/reference	0.99082	0.455
43DAP/reference	0.95535	0.234
47DAP/reference	0.99053	0.535
52DAP/reference	0.92868	0.183
57DAP/reference	0.83625	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98092	0.716
27DAP/17DAP	0.98746	0.887
39DAP/27DAP	1.04554	0.548
41DAP/39DAP	1.02275	0.921
42DAP/41DAP	0.99289	0.864
43DAP/42DAP	0.96469	0.618
47DAP/43DAP	0.98969	0.947
52DAP/47DAP	1.00665	0.986
57DAP/52DAP	1.05125	0.638
57DAP/7DAP	1.16993	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8094	0.095
17DAP/reference	0.76463	0.02
27DAP/reference	0.79009	0.025
39DAP/reference	0.99717	0.745
41DAP/reference	0.95442	0.259
42DAP/reference	0.93461	0.289
43DAP/reference	0.83254	0.022
47DAP/reference	0.90058	0.168
52DAP/reference	0.99723	0.679
57DAP/reference	0.9407	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03182	0.812
17DAP/reference	0.99315	0.728
27DAP/reference	0.96765	0.501
39DAP/reference	0.94556	0.33
41DAP/reference	0.91421	0.237
42DAP/reference	0.93415	0.237
43DAP/reference	1.06321	0.54
47DAP/reference	0.88843	0.062
52DAP/reference	1.03221	0.498
57DAP/reference	1.14589	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86774	0.05
17DAP/reference	0.89391	0.308
27DAP/reference	0.81587	0.038
39DAP/reference	0.8268	0.033
41DAP/reference	0.93791	0.417
42DAP/reference	0.90322	0.361
43DAP/reference	0.95039	0.398
47DAP/reference	0.88267	0.072
52DAP/reference	0.83722	0.167
57DAP/reference	0.65284	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00501	1
26DAP/20DAP	0.96029	1
34DAP/26DAP	1.00477	1
51DAP/34DAP	0.99161	0.917
52DAP/51DAP	1.06429	0.439
53DAP/52DAP	1.04141	0.738
55DAP/53DAP	0.99123	0.852
57DAP/55DAP	0.94431	0.731
62DAP/57DAP	1.31911	0.8
68DAP/62DAP	0.79369	0.055
68DAP/14DAP	0.94229	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95066	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.986	0.826
Mature Green Tomato/Ripe Tomato	0.72176	0.148
Immature Eggplant/Mature Eggplant	1.77497	0.05
Ripe Pepper/Ripe Tomato	1.95013	0.256
Mature Eggplant/Ripe Tomato	2.10445	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95473	0.944
1-1-2/M82	1.09898
12-2/M82	0.81388
12-4/M82	1.05767	1
1-3/M82	0.6575
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.03236
3-2/M82	1.06753
4-1-1/M82	0.92389
4-1/M82	0.86338	1
4-3-2/M82	0.82503	1
4-3/M82	N/A	N/A
5-3/M82	0.95533	0.49
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.99389
7-2/M82	0.82872
9-3-2/M82	0.92246	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.46451	0.243
IL2-6/WTpooled	1.1386
IL7-5/WTpooled	0.78664	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.90968	0.71
IL1-4/WTpooled	0.77238	0.699
WT/WTpooled	1.21548	0.855

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	1.24052	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96028	1
DC3000/delta hrp 6h	1.07197	1
DC3000/delta hrp 12h	1.142	1
DC3000/delta hrp 24h	1.021	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04519	0.183
DC3000 delta B/DC3000 delta AB	1.0316	0.571

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95897	1
Exp 36h	0.91535	0.879
Exp 60h	1.1744	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98368	1
Var 0h	0.92977	0.933
Var 12h I row2-row1	1.15154	0.222
Var 12h NI row2-row1	1.08062	1
Var 36h I row2-row1	0.90695	1
Var 36h NI row2-row1	0.90008	0.61
Var 60h I row2-row1	1.1073	1
Var 60h NI row2-row1	1.49703	0.904
Time course 0hI-0hNI	1.08724	0.852
Time course 12hI-12hNI	1.09891	0.603
Time course 36hI-36hNI	1.01625	0.651
Time course 60hI-60hNI	1.31641	0.009

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)	1.02066	0.347
transgenic ySAMdc/azygous control (breaker)	0.84872	0.142
transgenic ySAMdc/azygous control (red)	0.93882	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9957	0.737

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07137	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0664	0.307
Manapal/WT (break)	1.19718	0.381
Manapal/WT (red)	N/A	N/A