Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.8.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94441	0.652
27DAP/17DAP	0.90957	0.745
39DAP/27DAP	1.06492	0.858
41DAP/39DAP	1.07467	0.603
42DAP/41DAP	1.09707	0.954
43DAP/42DAP	0.94304	0.801
47DAP/43DAP	0.95796	0.835
52DAP/47DAP	1.21007	0.637
57DAP/52DAP	0.95559	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91712	0.058
17DAP/reference	1.02012	0.546
27DAP/reference	0.97716	0.694
39DAP/reference	0.96081	0.455
41DAP/reference	0.82528	0.085
42DAP/reference	0.92992	0.003
43DAP/reference	0.97158	0.675
47DAP/reference	0.94886	0.05
52DAP/reference	0.83135	0.053
57DAP/reference	1.0267	0.802

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98397	0.732
27DAP/17DAP	1.03549	0.893
39DAP/27DAP	1.02876	0.643
41DAP/39DAP	1.03322	0.876
42DAP/41DAP	1.0247	0.852
43DAP/42DAP	1.05501	0.297
47DAP/43DAP	1.00078	1
52DAP/47DAP	0.96489	0.617
57DAP/52DAP	0.9863	0.784
57DAP/7DAP	1.04394	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92294	0.059
17DAP/reference	0.98234	0.144
27DAP/reference	1.01897	0.453
39DAP/reference	1.0591	0.141
41DAP/reference	1.05066	0.524
42DAP/reference	1.1312	0.046
43DAP/reference	1.01401	0.873
47DAP/reference	0.974	0.222
52DAP/reference	0.99281	0.679
57DAP/reference	1.00371	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0003	0.97
17DAP/reference	0.95863	0.297
27DAP/reference	0.89348	0.076
39DAP/reference	0.97045	0.314
41DAP/reference	0.89493	0.048
42DAP/reference	0.98583	0.594
43DAP/reference	0.91706	0.128
47DAP/reference	1.05432	0.498
52DAP/reference	0.99145	0.576
57DAP/reference	1.00701	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97559	0.23
17DAP/reference	0.92108	0.182
27DAP/reference	0.95393	0.097
39DAP/reference	0.97666	0.36
41DAP/reference	1.00079	1
42DAP/reference	0.95544	0.445
43DAP/reference	0.96288	0.305
47DAP/reference	0.95094	0.12
52DAP/reference	1.06179	0.631
57DAP/reference	0.8468	0.08

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99984	1
26DAP/20DAP	1.01986	1
34DAP/26DAP	0.99276	1
51DAP/34DAP	1.01458	0.883
52DAP/51DAP	0.97041	1
53DAP/52DAP	1.00205	1
55DAP/53DAP	1.0067	1
57DAP/55DAP	1.06591	0.986
62DAP/57DAP	1.12878	0.393
68DAP/62DAP	1.26674	0.375
68DAP/14DAP	1.46599	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.25086	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.30222
Mature Green Tomato/Ripe Tomato	1.15975	0.399
Immature Eggplant/Mature Eggplant	1.09687	0.554
Ripe Pepper/Ripe Tomato	0.99144	1
Mature Eggplant/Ripe Tomato	1.19767	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93456	0.616
1-1-2/M82	0.99053	1
12-2/M82	1.0684	1
12-4/M82	0.9972	1
1-3/M82	0.95825	1
2-1-1/M82	1.10892	0.764
2-1/M82	1.21563
2-6/M82	0.98185	1
3-2/M82	1.03157	0.967
4-1-1/M82	0.95469	1
4-1/M82	0.98487	1
4-3-2/M82	1.03871	1
4-3/M82	1.07	1
5-3/M82	1.04119	1
6-2/M82	1.05038	1
6-3/M82	1.00883	1
7-1/M82	0.98326	0.803
7-2/M82	0.96982	0.578
9-3-2/M82	0.97222	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.41205	0.581
IL1-4/WTpooled	0.87573
WT/WTpooled	N/A	N/A

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	1.14261	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98316	1
DC3000/delta hrp 6h	0.66138	0.95
DC3000/delta hrp 12h	1.06943	1
DC3000/delta hrp 24h	1.00657	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20183	0.042
DC3000 delta B/DC3000 delta AB	1.19416	0.225

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96174	1
Exp 36h	0.71449	0.539
Exp 60h	0.76069	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99561	1
Var 0h	0.80359	0.98
Var 12h I row2-row1	1.12324	0.544
Var 12h NI row2-row1	1.03091	1
Var 36h I row2-row1	1.37055	0.368
Var 36h NI row2-row1	1.01575	1
Var 60h I row2-row1	0.94349	0.832
Var 60h NI row2-row1	0.93401	0.572
Time course 0hI-0hNI	0.96068	0.639
Time course 12hI-12hNI	1.04979	0.445
Time course 36hI-36hNI	1.30481	0.023
Time course 60hI-60hNI	1.66376	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)	0.98394	0.789
transgenic ySAMdc/azygous control (breaker)	1.46442	0.178
transgenic ySAMdc/azygous control (red)	1.20401	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95488	0.059

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17546	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.04928	0.083
Manapal/WT (break)	1.53791	0.381
Manapal/WT (red)	1.14904	0.413