Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.10.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12132	0.602
27DAP/17DAP	1.02285	0.905
39DAP/27DAP	0.9257	0.594
41DAP/39DAP	1.2274	0.403
42DAP/41DAP	1.07098	0.931
43DAP/42DAP	1.07427	1
47DAP/43DAP	1.01766	0.979
52DAP/47DAP	0.88293	0.662
57DAP/52DAP	1.09851	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97214	0.326
17DAP/reference	0.97627	0.536
27DAP/reference	0.89584	0.08
39DAP/reference	0.99986	1
41DAP/reference	0.92288	0.201
42DAP/reference	0.88371	0.003
43DAP/reference	1.00439	1
47DAP/reference	0.92785	0.042
52DAP/reference	0.98988	0.618
57DAP/reference	0.95478	0.131

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24062	0.774
27DAP/17DAP	1.14448	0.9
39DAP/27DAP	1.08635	0.728
41DAP/39DAP	1.07571	0.853
42DAP/41DAP	1.15469	0.961
43DAP/42DAP	1.02391	1
47DAP/43DAP	0.90015	0.559
52DAP/47DAP	1.32547	0.412
57DAP/52DAP	0.95423	0.668
57DAP/7DAP	0.69241	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15534	0.154
17DAP/reference	1.17135	0.059
27DAP/reference	1.13519	0.197
39DAP/reference	1.27975	0.008
41DAP/reference	1.18854	0.05
42DAP/reference	1.3017	0.076
43DAP/reference	1.39793	0.007
47DAP/reference	1.18959	0.311
52DAP/reference	1.31021	0.007
57DAP/reference	1.3027	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05287	0.47
17DAP/reference	0.921	0.26
27DAP/reference	1.00206	0.79
39DAP/reference	0.93723	0.097
41DAP/reference	0.90357	0.018
42DAP/reference	0.8702	0.032
43DAP/reference	0.91875	0.285
47DAP/reference	0.89746	0.026
52DAP/reference	0.99602	0.713
57DAP/reference	0.97145	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19728	0.138
17DAP/reference	1.032	0.887
27DAP/reference	1.27687	0.03
39DAP/reference	1.20889	0.018
41DAP/reference	1.25094	0.01
42DAP/reference	1.26583	0.074
43DAP/reference	1.29957	0.109
47DAP/reference	0.94997	0.12
52DAP/reference	1.11733	0.779
57DAP/reference	1.23683	0.758

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05818	0.817
26DAP/20DAP	0.94148	1
34DAP/26DAP	1.42873	0.819
51DAP/34DAP	1.40875	0.719
52DAP/51DAP	0.83283	1
53DAP/52DAP	0.89021	0.776
55DAP/53DAP	0.9542	0.478
57DAP/55DAP	1.35141	0.104
62DAP/57DAP	1.35861	0.515
68DAP/62DAP	1.087	0.808
68DAP/14DAP	1.04928	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18413	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.66745	0.19
Mature Green Tomato/Ripe Tomato	0.89663	0.411
Immature Eggplant/Mature Eggplant	1.05648	0.507
Ripe Pepper/Ripe Tomato	11.3774	0.233
Mature Eggplant/Ripe Tomato	1.56714	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99778	1
1-1-2/M82	0.98919	1
12-2/M82	0.99179	1
12-4/M82	0.95088	1
1-3/M82	0.99993	1
2-1-1/M82	1.27864
2-1/M82	0.98592
2-6/M82	0.99396	1
3-2/M82	0.97896
4-1-1/M82	0.94045	1
4-1/M82	0.88634	1
4-3-2/M82	0.98235	1
4-3/M82	1.1066	1
5-3/M82	1.02356	1
6-2/M82	0.81302	0.481
6-3/M82	0.92936	1
7-1/M82	0.92829
7-2/M82	0.96273	0.881
9-3-2/M82	0.85252	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.56632
IL2-6/WTpooled	1.21616	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.52452	1
IL12-4/WTpooled	1.9583	0.523
IL1-4/WTpooled	1.16443	1
WT/WTpooled	1.03278	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	1.1418

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01241	0.921
DC3000/delta hrp 6h	1.10412	1
DC3000/delta hrp 12h	0.92147	1
DC3000/delta hrp 24h	1.03361	0.633

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	1.2389	1
Exp 36h	1.14445	1
Exp 60h	1.51639	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96091	1
Var 0h	0.81656	0.933
Var 12h I row2-row1	0.78121	0.363
Var 12h NI row2-row1	0.80533	0.494
Var 36h I row2-row1	0.91129	1
Var 36h NI row2-row1	1.06972	1
Var 60h I row2-row1	0.78982	0.952
Var 60h NI row2-row1	1.24402	0.904
Time course 0hI-0hNI	0.98144	0.935
Time course 12hI-12hNI	0.90545	0.569
Time course 36hI-36hNI	0.77681	0.059
Time course 60hI-60hNI	0.46492	0.007

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)	1.00312	0.931
transgenic ySAMdc/azygous control (breaker)	0.98343	1
transgenic ySAMdc/azygous control (red)	1.1089	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00411	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12798	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87346	1
Manapal/WT (break)	0.7075	0.333
Manapal/WT (red)	1.11483	1