Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.3.19.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7386	0.303
27DAP/17DAP	0.95386	0.894
39DAP/27DAP	1.50852	0.907
41DAP/39DAP	0.75406	0.387
42DAP/41DAP	1.0619	1
43DAP/42DAP	1.62475	0.756
47DAP/43DAP	1.09893	0.909
52DAP/47DAP	1.26283	0.786
57DAP/52DAP	0.76003	0.688

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83322	0.073
17DAP/reference	0.84325	0.069
27DAP/reference	0.99726	0.822
39DAP/reference	0.92969	0.24
41DAP/reference	0.78479	0.154
42DAP/reference	0.88291	0.037
43DAP/reference	0.89355	0.056
47DAP/reference	0.91122	0.038
52DAP/reference	0.96122	0.416
57DAP/reference	1.06021	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.71513	0.072
27DAP/17DAP	1.15095	0.798
39DAP/27DAP	1.33315	0.07
41DAP/39DAP	1.03321	1
42DAP/41DAP	1.07619	0.694
43DAP/42DAP	1.16365	0.478
47DAP/43DAP	1.25134	0.213
52DAP/47DAP	1.14599	0.718
57DAP/52DAP	1.05766	0.925
57DAP/7DAP	1.30805	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91615	0.203
17DAP/reference	0.9558	0.389
27DAP/reference	0.7959	0.014
39DAP/reference	1.23157	0.012
41DAP/reference	0.86481	0.127
42DAP/reference	0.93114	0.222
43DAP/reference	0.88581	0.183
47DAP/reference	0.96443	0.671
52DAP/reference	0.91485	0.179
57DAP/reference	0.91283	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82316	0.064
17DAP/reference	0.72214	0.005
27DAP/reference	0.80049	0.043
39DAP/reference	0.77418	0.047
41DAP/reference	0.85298	0.112
42DAP/reference	0.85624	0.089
43DAP/reference	0.74653	0.007
47DAP/reference	0.91047	0.022
52DAP/reference	0.88074	0.086
57DAP/reference	0.77014	0.018

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98209	0.607
17DAP/reference	0.8806	0.143
27DAP/reference	0.94195	0.218
39DAP/reference	0.81989	0.012
41DAP/reference	0.83412	0.043
42DAP/reference	0.82143	0.108
43DAP/reference	0.80473	0.068
47DAP/reference	0.94337	0.357
52DAP/reference	0.75566	0.107
57DAP/reference	1.07251	0.531

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11635	0.966
26DAP/20DAP	1.26201	0.53
34DAP/26DAP	1.01456	1
51DAP/34DAP	1.47632	0.043
52DAP/51DAP	0.98325	1
53DAP/52DAP	1.57904	0.697
55DAP/53DAP	0.82634	0.169
57DAP/55DAP	0.83173	0.282
62DAP/57DAP	0.7962	0.28
68DAP/62DAP	1.18063	0.214
68DAP/14DAP	1.02517	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.30868	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70678	0.215
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.54839	0.05
Ripe Pepper/Ripe Tomato	1.07485	1
Mature Eggplant/Ripe Tomato	1.14344	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.67023	0.877
1-1-2/M82	1.14352	1
12-2/M82	1.02042	N/A
12-4/M82	0.94052	0.298
1-3/M82	1.34711	N/A
2-1-1/M82	0.82769	0.465
2-1/M82	1.02361	N/A
2-6/M82	0.88487	N/A
3-2/M82	1.31634	N/A
4-1-1/M82	1.05734	1
4-1/M82	N/A	N/A
4-3-2/M82	0.98086	N/A
4-3/M82	1.41885	1
5-3/M82	0.91887	1
6-2/M82	0.97319	1
6-3/M82	0.98398	1
7-1/M82	1.12161	N/A
7-2/M82	0.97473	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.38632	0.243
IL2-6/WTpooled	2.29048	0.395
IL7-5/WTpooled	1.22108	1
IL7-3/WTpooled	0.44453	0.293
IL12-4/WTpooled	0.83313	1
IL1-4/WTpooled	0.6894	0.476
WT/WTpooled	0.94251	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	0.9917	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95036	1
DC3000/delta hrp 6h	1.07545	0.95
DC3000/delta hrp 12h	1.09326	1
DC3000/delta hrp 24h	2.06596	0.024

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.69739	0.16
DC3000 delta B/DC3000 delta AB	1.26032	0.201

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90991	1
Exp 36h	1.38006	0.693
Exp 60h	1.18169	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98514	1
Var 0h	1.73733	0.98
Var 12h I row2-row1	1.18618	0.443
Var 12h NI row2-row1	1.23989	0.649
Var 36h I row2-row1	1.17165	0.601
Var 36h NI row2-row1	1.1826	1
Var 60h I row2-row1	0.72796	0.285
Var 60h NI row2-row1	0.96804	1
Time course 0hI-0hNI	0.99937	1
Time course 12hI-12hNI	1.29175	0.599
Time course 36hI-36hNI	2.02003	0.006
Time course 60hI-60hNI	3.76137	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)	0.94273	0.338
transgenic ySAMdc/azygous control (breaker)	0.62001	0.139
transgenic ySAMdc/azygous control (red)	0.98706	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04853	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02805	0.277

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)	0.99511	1