Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.9.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81702	0.436
27DAP/17DAP	0.86829	0.7
39DAP/27DAP	1.00478	0.782
41DAP/39DAP	0.86047	0.533
42DAP/41DAP	0.95652	1
43DAP/42DAP	0.78836	0.699
47DAP/43DAP	0.99089	0.868
52DAP/47DAP	1.07917	0.964
57DAP/52DAP	1.13518	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91786	0.344
17DAP/reference	1.11537	0.546
27DAP/reference	0.9043	0.395
39DAP/reference	0.97676	0.704
41DAP/reference	0.98112	0.667
42DAP/reference	0.87406	0.056
43DAP/reference	0.97013	0.708
47DAP/reference	0.94735	0.224
52DAP/reference	1.06178	0.8
57DAP/reference	1.29244	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91783	0.629
27DAP/17DAP	1.01293	1
39DAP/27DAP	0.85178	0.394
41DAP/39DAP	1.30374	0.817
42DAP/41DAP	0.70404	0.19
43DAP/42DAP	1.15525	0.746
47DAP/43DAP	0.9237	0.734
52DAP/47DAP	0.68928	0.338
57DAP/52DAP	1.13649	0.699
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96518	0.445
17DAP/reference	1.12619	0.477
27DAP/reference	0.99183	0.571
39DAP/reference	0.95612	0.411
41DAP/reference	0.9209	0.357
42DAP/reference	0.74834	0.02
43DAP/reference	0.85137	0.026
47DAP/reference	1.06317	0.732
52DAP/reference	0.87869	0.043
57DAP/reference	0.99998	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01997	0.952
17DAP/reference	1.03193	1
27DAP/reference	1.09385	0.81
39DAP/reference	0.9848	0.539
41DAP/reference	0.9152	0.284
42DAP/reference	0.91444	0.121
43DAP/reference	1.34195	0.14
47DAP/reference	1.03159	1
52DAP/reference	0.85276	0.037
57DAP/reference	1.03407	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98972	0.699
17DAP/reference	0.98353	0.709
27DAP/reference	1.1371	0.067
39DAP/reference	0.96284	0.43
41DAP/reference	1.039	0.867
42DAP/reference	1.0913	0.45
43DAP/reference	1.05015	0.84
47DAP/reference	1.17704	0.68
52DAP/reference	1.07356	0.979
57DAP/reference	0.95523	0.461

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9263	1
26DAP/20DAP	1.31487	1
34DAP/26DAP	1.34671	1
51DAP/34DAP	0.84729	0.722
52DAP/51DAP	1.26248	1
53DAP/52DAP	0.91296	0.758
55DAP/53DAP	1.21577	0.898
57DAP/55DAP	1.2669	0.841
62DAP/57DAP	1.01734	1
68DAP/62DAP	0.84524	0.641
68DAP/14DAP	1.0838	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.44103	0.347

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	0.94255
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98828	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.94206	1
DC3000/delta hrp 24h	1.34389	0.254

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	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	1.07047	1
Var 0h	0.92821	0.244
Var 12h I row2-row1	1.0149
Var 12h NI row2-row1	0.66753	1
Var 36h I row2-row1	0.89178
Var 36h NI row2-row1	0.4351	1
Var 60h I row2-row1	1.11662
Var 60h NI row2-row1	0.73917	1
Time course 0hI-0hNI	1.29455	0.764
Time course 12hI-12hNI	1.18064	0.354
Time course 36hI-36hNI	0.95082	0.468
Time course 60hI-60hNI	0.69673	0.047

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)	1.18169	0.612
transgenic ySAMdc/azygous control (breaker)	1.917	1
transgenic ySAMdc/azygous control (red)	1.05731	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95234	0.122

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.07872	0.13
Manapal/WT (red)	1.19137	0.413