Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.11.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08177	0.812
27DAP/17DAP	1.05011	1
39DAP/27DAP	0.78856	0.462
41DAP/39DAP	1.42716	0.423
42DAP/41DAP	1.01566	1
43DAP/42DAP	1.06116	0.937
47DAP/43DAP	1.22334	0.405
52DAP/47DAP	0.93292	0.783
57DAP/52DAP	0.99914	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02862	0.9
17DAP/reference	0.96616	0.63
27DAP/reference	0.98463	0.741
39DAP/reference	0.95745	0.6
41DAP/reference	0.91525	0.201
42DAP/reference	0.98752	0.398
43DAP/reference	1.06463	0.569
47DAP/reference	0.97089	0.392
52DAP/reference	0.95412	0.36
57DAP/reference	1.10928	0.122

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13315	0.326
27DAP/17DAP	1.1022	0.905
39DAP/27DAP	0.75221	0.062
41DAP/39DAP	1.02849	1
42DAP/41DAP	0.92204	0.541
43DAP/42DAP	1.0686	0.627
47DAP/43DAP	0.98127	0.896
52DAP/47DAP	0.91045	0.624
57DAP/52DAP	0.82864	0.221
57DAP/7DAP	1.62308	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32886	0.044
17DAP/reference	0.94937	0.338
27DAP/reference	0.771	0.035
39DAP/reference	0.83538	0.031
41DAP/reference	0.74175	0.021
42DAP/reference	0.86796	0.063
43DAP/reference	0.73139	0.027
47DAP/reference	1.00325	1
52DAP/reference	0.86367	0.057
57DAP/reference	0.87722	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08079	0.438
17DAP/reference	1.1928	0.083
27DAP/reference	1.04298	1
39DAP/reference	0.95796	0.442
41DAP/reference	0.85393	0.118
42DAP/reference	1.10874	0.649
43DAP/reference	1.12791	0.582
47DAP/reference	1.08778	0.282
52DAP/reference	0.92866	0.239
57DAP/reference	1.00007	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91439	0.29
17DAP/reference	0.94772	0.528
27DAP/reference	0.89227	0.147
39DAP/reference	1.05991	0.813
41DAP/reference	0.97532	0.512
42DAP/reference	0.89251	0.172
43DAP/reference	0.90552	0.143
47DAP/reference	0.82685	0.145
52DAP/reference	0.77627	0.186
57DAP/reference	0.8522	0.141

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21214	0.966
26DAP/20DAP	0.79134	0.317
34DAP/26DAP	1.01388	1
51DAP/34DAP	0.86436	0.587
52DAP/51DAP	1.32426	0.067
53DAP/52DAP	0.96759	0.854
55DAP/53DAP	1.07708	1
57DAP/55DAP	0.85563	0.437
62DAP/57DAP	1.02373	1
68DAP/62DAP	0.9068	0.668
68DAP/14DAP	1.54473	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97517	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.83198	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.10614	0.554
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.32077

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.05913	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0615	1
IL12-4/WTpooled	1.12334	0.695
IL1-4/WTpooled	1.52202	1
WT/WTpooled	1.01297	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	0.76882	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07037	0.921
DC3000/delta hrp 6h	0.63235
DC3000/delta hrp 12h	1.57359	1
DC3000/delta hrp 24h	1.05066	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.88902	0.418

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94161	1
Var 0h	5.52957	0.936
Var 12h I row2-row1	0.65624	0.705
Var 12h NI row2-row1	1.04262
Var 36h I row2-row1	0.96205	0.805
Var 36h NI row2-row1	0.99335	0.852
Var 60h I row2-row1	1.00403	1
Var 60h NI row2-row1	0.88898	0.977
Time course 0hI-0hNI	1.12219	0.537
Time course 12hI-12hNI	0.89923	0.221
Time course 36hI-36hNI	0.87687	0.025
Time course 60hI-60hNI	1.58629	0.06

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)	0.86969	0.32
transgenic ySAMdc/azygous control (breaker)	0.90762	0.49
transgenic ySAMdc/azygous control (red)	1.09829	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95873	0.069

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78757	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7976	0.172
Manapal/WT (break)	0.77569	0.299
Manapal/WT (red)	0.96084	0.181