Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.15.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00417	0.77
27DAP/17DAP	1.17363	0.872
39DAP/27DAP	1.24185	0.638
41DAP/39DAP	1.00258	0.706
42DAP/41DAP	0.84251	0.774
43DAP/42DAP	0.9357	0.877
47DAP/43DAP	0.85822	0.55
52DAP/47DAP	0.91904	0.777
57DAP/52DAP	1.284	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9891	0.661
17DAP/reference	0.93272	0.224
27DAP/reference	0.98173	0.654
39DAP/reference	1.04031	0.654
41DAP/reference	0.86826	0.039
42DAP/reference	0.83548	0.003
43DAP/reference	0.9098	0.148
47DAP/reference	0.95702	0.279
52DAP/reference	1.04109	0.951
57DAP/reference	1.24999	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69634	0.194
27DAP/17DAP	0.90873	0.724
39DAP/27DAP	0.93746	0.622
41DAP/39DAP	0.99913	1
42DAP/41DAP	1.04145	1
43DAP/42DAP	0.6331	0.027
47DAP/43DAP	0.99755	0.928
52DAP/47DAP	0.86147	0.466
57DAP/52DAP	0.93644	0.641
57DAP/7DAP	1.00701	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98711	0.495
17DAP/reference	1.15983	0.025
27DAP/reference	1.05886	0.453
39DAP/reference	0.98479	0.552
41DAP/reference	1.04535	1
42DAP/reference	1.05365	0.686
43DAP/reference	1.02295	0.802
47DAP/reference	0.85125	0.057
52DAP/reference	0.81694	0.053
57DAP/reference	1.0357	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08757	0.712
17DAP/reference	0.82398	0.012
27DAP/reference	0.84844	0.074
39DAP/reference	0.86132	0.04
41DAP/reference	0.95256	0.218
42DAP/reference	0.8685	0.035
43DAP/reference	0.90216	0.217
47DAP/reference	0.83987	0.011
52DAP/reference	0.96743	0.407
57DAP/reference	0.92112	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09822	0.251
17DAP/reference	0.98493	0.709
27DAP/reference	1.20938	0.062
39DAP/reference	1.01376	0.935
41DAP/reference	1.05012	0.637
42DAP/reference	1.1423	0.287
43DAP/reference	0.99519	0.738
47DAP/reference	0.82924	0.093
52DAP/reference	0.82236	0.153
57DAP/reference	0.90454	0.113

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89479	0.997
26DAP/20DAP	1.24887	0.385
34DAP/26DAP	1.01576	1
51DAP/34DAP	1.99898	0.261
52DAP/51DAP	0.77602	1
53DAP/52DAP	1.94165	0.033
55DAP/53DAP	1.25181	0.196
57DAP/55DAP	0.55864	0.078
62DAP/57DAP	0.47138	0.003
68DAP/62DAP	1.31734	0.573
68DAP/14DAP	0.97104	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.16951	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64375	0.179
Mature Green Tomato/Ripe Tomato	4.11615	0.018
Immature Eggplant/Mature Eggplant	3.95885	0.05
Ripe Pepper/Ripe Tomato	67.0462
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	N/A	N/A
IL2-6/WTpooled	1.04105	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96977	1
IL12-4/WTpooled	0.85299	0.71
IL1-4/WTpooled	1.04524	1
WT/WTpooled	0.96433	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	0.9345	1

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	1.04756	1
DC3000/delta hrp 12h	1.06333	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31755	0.094
DC3000 delta B/DC3000 delta AB	0.92242	0.359

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83748	1
Exp 36h	1.08656	1
Exp 60h	1.06684	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00618	1
Var 0h	1.06816	0.98
Var 12h I row2-row1	1.01028	1
Var 12h NI row2-row1	0.95044	0.627
Var 36h I row2-row1	1.0915	1
Var 36h NI row2-row1	1.31569	1
Var 60h I row2-row1	0.86919	0.439
Var 60h NI row2-row1	0.92804	1
Time course 0hI-0hNI	0.93862	0.495
Time course 12hI-12hNI	0.97594	0.855
Time course 36hI-36hNI	1.03351	0.58
Time course 60hI-60hNI	1.61168	0.008

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)	1.18019	0.272
transgenic ySAMdc/azygous control (breaker)	0.86691	0.142
transgenic ySAMdc/azygous control (red)	0.82907	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99804	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94758	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11223	0.14
Manapal/WT (break)	0.78106	0.333
Manapal/WT (red)	1.02427	1