Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31373	0.303
27DAP/17DAP	0.90441	0.72
39DAP/27DAP	0.90296	0.641
41DAP/39DAP	1.07754	0.516
42DAP/41DAP	1.09208	0.938
43DAP/42DAP	1.05779	1
47DAP/43DAP	1.0675	0.756
52DAP/47DAP	1.05944	0.987
57DAP/52DAP	1.04034	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05739	0.46
17DAP/reference	0.95091	0.342
27DAP/reference	0.93737	0.484
39DAP/reference	1.06506	0.734
41DAP/reference	0.80457	0.021
42DAP/reference	0.95319	0.218
43DAP/reference	1.02907	1
47DAP/reference	0.86761	0.046
52DAP/reference	0.96869	0.504
57DAP/reference	1.00563	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.46566	0.525
27DAP/17DAP	1.46228	0.74
39DAP/27DAP	1.0306	0.943
41DAP/39DAP	0.69311	0.299
42DAP/41DAP	0.95478	0.746
43DAP/42DAP	0.88651	0.415
47DAP/43DAP	0.98892	0.846
52DAP/47DAP	1.28421	0.449
57DAP/52DAP	1.01492	0.793
57DAP/7DAP	1.31947	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88404	0.224
17DAP/reference	0.96671	0.389
27DAP/reference	0.9636	0.402
39DAP/reference	0.92768	0.307
41DAP/reference	0.76408	0.058
42DAP/reference	0.80988	0.055
43DAP/reference	0.98774	0.58
47DAP/reference	0.82756	0.168
52DAP/reference	0.69152	0.01
57DAP/reference	0.87383	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8661	0.19
17DAP/reference	0.84848	0.139
27DAP/reference	0.91902	0.292
39DAP/reference	0.99283	0.586
41DAP/reference	0.85459	0.11
42DAP/reference	0.83919	0.067
43DAP/reference	0.88609	0.196
47DAP/reference	0.85854	0.087
52DAP/reference	0.95149	0.302
57DAP/reference	0.92823	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94491	0.422
17DAP/reference	0.87025	0.224
27DAP/reference	0.84516	0.155
39DAP/reference	0.86713	0.179
41DAP/reference	0.87952	0.167
42DAP/reference	1.01362	0.816
43DAP/reference	1.01629	0.894
47DAP/reference	0.90329	0.114
52DAP/reference	0.80988	0.091
57DAP/reference	0.96124	0.438

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1808	0.966
26DAP/20DAP	0.71726	0.244
34DAP/26DAP	1.3295	1
51DAP/34DAP	0.7741	0.22
52DAP/51DAP	1.60798	0.626
53DAP/52DAP	1.27562	0.643
55DAP/53DAP	0.89857	0.709
57DAP/55DAP	0.70323	0.151
62DAP/57DAP	1.22799	0.005
68DAP/62DAP	1.05281	0.939
68DAP/14DAP	1.32538	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78883	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.48524
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.06239
IL12-4/WTpooled	0.81848
IL1-4/WTpooled	0.91171
WT/WTpooled	1.08862	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	1.00671

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9202	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.99285	1
DC3000/delta hrp 24h	1.34886	0.129

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.82187	1
Exp 36h	1.57268	0.693
Exp 60h	1.69993	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.63321	0.196
Var 12h I row2-row1	1.44884	0.506
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.50408
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.56664	1
Time course 0hI-0hNI	1.19811	0.852
Time course 12hI-12hNI	0.98826	1
Time course 36hI-36hNI	3.26895	0.316
Time course 60hI-60hNI	3.0164	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)	1.26743	1
transgenic ySAMdc/azygous control (breaker)	0.77916	0.251
transgenic ySAMdc/azygous control (red)	1.11672	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97106	0.248

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70531	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.82144	1
Manapal/WT (break)	0.93768	0.333
Manapal/WT (red)	0.57853	0.181