Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.14.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34883	0.085
27DAP/17DAP	1.1123	0.872
39DAP/27DAP	0.91869	0.573
41DAP/39DAP	1.04819	0.806
42DAP/41DAP	0.7628	0.774
43DAP/42DAP	1.10972	0.985
47DAP/43DAP	1.48813	0.172
52DAP/47DAP	0.92337	0.734
57DAP/52DAP	1.11853	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21712	0.139
17DAP/reference	1.1484	0.068
27DAP/reference	1.06011	0.277
39DAP/reference	1.04783	0.445
41DAP/reference	1.1928	0.012
42DAP/reference	1.12888	0.076
43DAP/reference	1.0778	0.269
47DAP/reference	1.23231	0.023
52DAP/reference	1.05	0.548
57DAP/reference	0.87312	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04893	0.934
27DAP/17DAP	1.11895	0.636
39DAP/27DAP	0.79945	0.247
41DAP/39DAP	0.80558	0.299
42DAP/41DAP	0.97291	0.717
43DAP/42DAP	1.28727	0.554
47DAP/43DAP	0.87253	0.048
52DAP/47DAP	1.16747	0.573
57DAP/52DAP	1.12269	0.594
57DAP/7DAP	1.03167

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78868	0.078
17DAP/reference	0.7484	0.012
27DAP/reference	0.93704	0.171
39DAP/reference	0.86064	0.109
41DAP/reference	0.94812	0.311
42DAP/reference	0.86721	0.09
43DAP/reference	0.90883	0.252
47DAP/reference	1.02502	1
52DAP/reference	0.72792	0.012
57DAP/reference	0.79712	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40215	0.063
17DAP/reference	1.34006	0.079
27DAP/reference	1.35248	0.029
39DAP/reference	1.5534	0.015
41DAP/reference	1.17278	0.525
42DAP/reference	1.0019	0.723
43DAP/reference	1.47034	0.297
47DAP/reference	1.16102	0.045
52DAP/reference	1.38971	0.145
57DAP/reference	1.39519	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95733	0.422
17DAP/reference	1.08179	0.712
27DAP/reference	0.89568	0.23
39DAP/reference	0.91666	0.163
41DAP/reference	0.81841	0.025
42DAP/reference	1.15475	0.51
43DAP/reference	1.08173	0.803
47DAP/reference	1.17242	0.519
52DAP/reference	0.92566	0.472
57DAP/reference	1.0822	0.581

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.68696
26DAP/20DAP	0.98573	1
34DAP/26DAP	0.70397	0.186
51DAP/34DAP	0.91742	0.64
52DAP/51DAP	1.0268	0.808
53DAP/52DAP	1.09198	0.895
55DAP/53DAP	0.90937	0.675
57DAP/55DAP	1.27041	0.805
62DAP/57DAP	1.0328	1
68DAP/62DAP	0.71006	0.195
68DAP/14DAP	0.71304	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70243	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.35525	0.113
Mature Green Tomato/Ripe Tomato	1.78454	0.023
Immature Eggplant/Mature Eggplant	1.30094	0.05
Ripe Pepper/Ripe Tomato	0.90057	0.293
Mature Eggplant/Ripe Tomato	1.09248	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.78939	0.708
1-1-2/M82	0.96577
12-2/M82	0.90486
12-4/M82	1.11895	1
1-3/M82	0.97167
2-1-1/M82	0.91035
2-1/M82	N/A	N/A
2-6/M82	0.99253
3-2/M82	N/A	N/A
4-1-1/M82	1.06053
4-1/M82	1.05199
4-3-2/M82	0.85262	1
4-3/M82	1.03396
5-3/M82	1.01734	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.06264
9-3-2/M82	1.0902

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	0.88409	1
IL12-4/WTpooled	1.33129	0.557
IL1-4/WTpooled	1.35222	1
WT/WTpooled	0.98569	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	0.77823	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96919	1
DC3000/delta hrp 6h	1.1042	1
DC3000/delta hrp 12h	1.04977	1
DC3000/delta hrp 24h	1.11542	0.202

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	0.76681	0.162

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.54759	1
Exp 36h	1.09058	1
Exp 60h	1.00029	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99309	1
Var 0h	0.71233	1
Var 12h I row2-row1	0.89153	0.344
Var 12h NI row2-row1	0.92869	0.713
Var 36h I row2-row1	0.74298	0.908
Var 36h NI row2-row1	1.27164	1
Var 60h I row2-row1	1.03056	1
Var 60h NI row2-row1	1.04202	1
Time course 0hI-0hNI	0.94866	0.617
Time course 12hI-12hNI	0.995	1
Time course 36hI-36hNI	0.90514	0.15
Time course 60hI-60hNI	0.33818	0.005

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)	1.02235	0.312
transgenic ySAMdc/azygous control (breaker)	1.07335	1
transgenic ySAMdc/azygous control (red)	0.98871	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9639	0.143

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89108	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.67108	0.172
Manapal/WT (break)	0.63999	0.299
Manapal/WT (red)	0.73776	0.36