Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.1.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82277	0.297
27DAP/17DAP	1.25199	0.798
39DAP/27DAP	1.02141	0.857
41DAP/39DAP	1.09364	0.387
42DAP/41DAP	0.82092	1
43DAP/42DAP	0.80012	0.741
47DAP/43DAP	1.10752	0.569
52DAP/47DAP	1.00775	0.908
57DAP/52DAP	1.2689	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25597	0.162
17DAP/reference	0.8837	0.018
27DAP/reference	0.86699	0.119
39DAP/reference	0.87304	0.058
41DAP/reference	0.81469	0.114
42DAP/reference	1.1844	0.084
43DAP/reference	0.88405	0.155
47DAP/reference	0.99552	0.602
52DAP/reference	1.16444	0.108
57DAP/reference	0.95792	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08381	0.785
27DAP/17DAP	1.16845	0.621
39DAP/27DAP	0.93227	0.648
41DAP/39DAP	1.17935	0.727
42DAP/41DAP	1.04276	1
43DAP/42DAP	1.15679	0.192
47DAP/43DAP	1.15065	0.245
52DAP/47DAP	1.55839	0.116
57DAP/52DAP	1.21906	0.363
57DAP/7DAP	1.02783	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99459	0.682
17DAP/reference	1.22004	0.092
27DAP/reference	0.94981	0.402
39DAP/reference	0.89741	0.17
41DAP/reference	0.92139	0.326
42DAP/reference	1.02949	0.828
43DAP/reference	1.096	0.637
47DAP/reference	1.09908	0.458
52DAP/reference	0.90222	0.196
57DAP/reference	0.96545	0.443

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16181	0.545
17DAP/reference	1.14419	0.21
27DAP/reference	1.35542	0.082
39DAP/reference	1.18228	0.239
41DAP/reference	1.38764	0.026
42DAP/reference	1.09237	0.207
43DAP/reference	0.9821	0.62
47DAP/reference	0.91877	0.102
52DAP/reference	1.21004	0.368
57DAP/reference	0.90928	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10981	0.809
17DAP/reference	0.99628	0.825
27DAP/reference	1.22095	0.34
39DAP/reference	1.01945	1
41DAP/reference	0.8369	0.096
42DAP/reference	0.96409	0.552
43DAP/reference	1.02489	1
47DAP/reference	0.85683	0.153
52DAP/reference	0.94873	0.596
57DAP/reference	1.30408	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89782	1
26DAP/20DAP	1.31318	0.524
34DAP/26DAP	0.75239	0.498
51DAP/34DAP	1.00977	0.911
52DAP/51DAP	1.57127	0.15
53DAP/52DAP	0.57413	0.069
55DAP/53DAP	1.02915	0.925
57DAP/55DAP	0.80801	0.259
62DAP/57DAP	1.00618	1
68DAP/62DAP	1.22762	0.869
68DAP/14DAP	1.10653	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59858	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.99174	0.058
Mature Green Tomato/Ripe Tomato	1.00423	0.898
Immature Eggplant/Mature Eggplant	1.48563	0.067
Ripe Pepper/Ripe Tomato	1.12157	1
Mature Eggplant/Ripe Tomato	6.02779	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9337
1-1-2/M82	1.01505
12-2/M82	N/A	N/A
12-4/M82	1.15861	0.611
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	0.92258	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	1.30103
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.53982
IL2-6/WTpooled	0.75355
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96251	1
IL12-4/WTpooled	0.28522	0.566
IL1-4/WTpooled	1.12584	0.378
WT/WTpooled	1.0928	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	0.77985	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99583	1
DC3000/delta hrp 6h	1.0048	0.95
DC3000/delta hrp 12h	0.91065	1
DC3000/delta hrp 24h	0.94718	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.83945	0.031
DC3000 delta B/DC3000 delta AB	0.96408	0.729

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11566	1
Exp 36h	1.23224	0.693
Exp 60h	0.98916	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94878	1
Var 0h	0.66258	1
Var 12h I row2-row1	0.82601	0.77
Var 12h NI row2-row1	0.962	0.82
Var 36h I row2-row1	0.8678	1
Var 36h NI row2-row1	1.64421	1
Var 60h I row2-row1	0.79737	0.832
Var 60h NI row2-row1	1.00451	1
Time course 0hI-0hNI	0.90446	0.384
Time course 12hI-12hNI	0.97104	0.831
Time course 36hI-36hNI	0.89714	0.072
Time course 60hI-60hNI	0.3241	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)	1.15659	0.384
transgenic ySAMdc/azygous control (breaker)	0.80189	0.173
transgenic ySAMdc/azygous control (red)	1.06032	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99852	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75983	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0043	1
Manapal/WT (break)	0.97797	1
Manapal/WT (red)	0.8264	0.424