Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.1.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.76339	0.523
27DAP/17DAP	1.3157	1
39DAP/27DAP	1.82976	0.693
41DAP/39DAP	0.79005	0.387
42DAP/41DAP	1.03333	1
43DAP/42DAP	1.14426	1
47DAP/43DAP	1.22415	0.965
52DAP/47DAP	1.38529	0.572
57DAP/52DAP	2.10916	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.78264	0.29
17DAP/reference	0.99195	0.957
27DAP/reference	1.0678	0.953
39DAP/reference	N/A	N/A
41DAP/reference	1.18546
42DAP/reference	3.06945	0.043
43DAP/reference	0.69555
47DAP/reference	1.7019	0.001
52DAP/reference	0.80654
57DAP/reference	0.28239

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85192	0.644
27DAP/17DAP	0.70221	0.537
39DAP/27DAP	0.63314
41DAP/39DAP	0.74652	0.096
42DAP/41DAP	0.7848	0.524
43DAP/42DAP	1.07658	1
47DAP/43DAP	1.15511	0.572
52DAP/47DAP	0.82013	0.528
57DAP/52DAP	1.70333
57DAP/7DAP	1.22092

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	6.23166	0.024
17DAP/reference	2.83889	0.006
27DAP/reference	1.3541	0.131
39DAP/reference	5.45747	0.005
41DAP/reference	2.55054	0.009
42DAP/reference	2.86655	0.007
43DAP/reference	2.32809	0.015
47DAP/reference	3.75181	0.077
52DAP/reference	1.30247	0.183
57DAP/reference	1.34153	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13638	0.687
17DAP/reference	0.66444	0.083
27DAP/reference	1.85417
39DAP/reference	0.74123	0.392
41DAP/reference	1.05721	1
42DAP/reference	4.00958
43DAP/reference	1.08501	0.769
47DAP/reference	2.42192	0.012
52DAP/reference	2.29957	0.106
57DAP/reference	N/A	N/A

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.77005	0.016
17DAP/reference	2.73202	0.043
27DAP/reference	2.3057	0.013
39DAP/reference	3.79311	0.004
41DAP/reference	2.23404	0.03
42DAP/reference	1.09286	0.848
43DAP/reference	1.74003	0.031
47DAP/reference	N/A	N/A
52DAP/reference	2.0443	0.705
57DAP/reference	0.55906	0.068

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	1.62151
34DAP/26DAP	1.27866	0.819
51DAP/34DAP	1.69875	0.869
52DAP/51DAP	0.93613	1
53DAP/52DAP	1.67507	0.261
55DAP/53DAP	0.97858	0.807
57DAP/55DAP	0.88534	0.688
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.54517
68DAP/14DAP	1.34122

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.3375

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	1.45648	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	2.18866
IL7-3/WTpooled	1.24966	1
IL12-4/WTpooled	0.64076	0.71
IL1-4/WTpooled	0.96324	1
WT/WTpooled	1.24156	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	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	N/A	N/A
DC3000/delta hrp 6h	0.99817	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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)	N/A	N/A
Manapal/WT (red)	N/A	N/A