Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.16.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96528	0.699
27DAP/17DAP	0.89167	0.836
39DAP/27DAP	1.05916	1
41DAP/39DAP	1.61693	0.584
42DAP/41DAP	1.23596	0.978
43DAP/42DAP	0.86273	0.754
47DAP/43DAP	1.04281	0.943
52DAP/47DAP	1.60344	0.304
57DAP/52DAP	1.34759	0.93

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96475	0.476
17DAP/reference	0.97164	0.419
27DAP/reference	1.03016	0.684
39DAP/reference	0.95828	0.412
41DAP/reference	1.05154	0.587
42DAP/reference	0.87731	0.02
43DAP/reference	0.92724	0.259
47DAP/reference	0.93285	0.077
52DAP/reference	0.88344	0.032
57DAP/reference	1.0131	0.802

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82234	0.17
27DAP/17DAP	1.1055	0.826
39DAP/27DAP	1.03402	0.685
41DAP/39DAP	1.01698	1
42DAP/41DAP	0.98426	0.772
43DAP/42DAP	0.9989	0.991
47DAP/43DAP	1.08641	0.833
52DAP/47DAP	1.12725	0.742
57DAP/52DAP	0.90302	0.43
57DAP/7DAP	1.14303	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92318	0.146
17DAP/reference	0.96584	0.338
27DAP/reference	0.88331	0.055
39DAP/reference	0.86408	0.011
41DAP/reference	0.79888	0.02
42DAP/reference	0.91802	0.144
43DAP/reference	0.94227	0.23
47DAP/reference	0.88163	0.222
52DAP/reference	0.8498	0.046
57DAP/reference	0.87317	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85438	0.093
17DAP/reference	0.8698	0.022
27DAP/reference	0.7943	0.129
39DAP/reference	0.73267	0.018
41DAP/reference	0.89812	0.199
42DAP/reference	0.9167	0.321
43DAP/reference	0.86275	0.117
47DAP/reference	0.98403	0.559
52DAP/reference	0.8893	0.04
57DAP/reference	0.87822	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92696	0.087
17DAP/reference	0.93557	0.305
27DAP/reference	0.94521	0.397
39DAP/reference	0.9489	0.199
41DAP/reference	0.92275	0.185
42DAP/reference	0.85557	0.071
43DAP/reference	0.87893	0.171
47DAP/reference	0.98711	0.574
52DAP/reference	0.83127	0.211
57DAP/reference	0.82111	0.079

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96564	1
26DAP/20DAP	1.45915	0.357
34DAP/26DAP	0.82604	0.606
51DAP/34DAP	0.85956	0.522
52DAP/51DAP	1.16109	0.232
53DAP/52DAP	1.05265	0.83
55DAP/53DAP	1.38132	0.271
57DAP/55DAP	1.0208	1
62DAP/57DAP	1.13889	0.393
68DAP/62DAP	0.74102	0.195
68DAP/14DAP	0.76922	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79875	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	5.99687	0.058
Mature Green Tomato/Ripe Tomato	0.28177	0.017
Immature Eggplant/Mature Eggplant	3.47044	0.05
Ripe Pepper/Ripe Tomato	0.42291	0.224
Mature Eggplant/Ripe Tomato	0.37254	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89511	0.944
1-1-2/M82	0.91627	1
12-2/M82	1.13055	1
12-4/M82	0.99398	1
1-3/M82	0.79866	0.378
2-1-1/M82	0.97477
2-1/M82	N/A	N/A
2-6/M82	0.91572	1
3-2/M82	0.67668
4-1-1/M82	1.16458	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.56534
5-3/M82	0.97269	1
6-2/M82	0.81623	0.497
6-3/M82	1.07566	1
7-1/M82	N/A	N/A
7-2/M82	1.01208
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72178	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.79509	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.76685	0.476
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	0.8848	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09717	0.921
DC3000/delta hrp 6h	1.03403	0.95
DC3000/delta hrp 12h	1.1113	1
DC3000/delta hrp 24h	1.08132	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.74943
DC3000 delta B/DC3000 delta AB	1.06124	0.51

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15649	1
Exp 36h	1.26741	0.693
Exp 60h	1.11488	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00309	1
Var 0h	0.81908	0.933
Var 12h I row2-row1	1.11185	0.204
Var 12h NI row2-row1	1.37915	1
Var 36h I row2-row1	1.13973	0.309
Var 36h NI row2-row1	0.93707	0.743
Var 60h I row2-row1	0.91333	0.287
Var 60h NI row2-row1	0.84232	0.572
Time course 0hI-0hNI	1.09816	0.833
Time course 12hI-12hNI	1.02609	0.741
Time course 36hI-36hNI	1.20676	0.218
Time course 60hI-60hNI	5.16017	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)	1.85605	0.305
transgenic ySAMdc/azygous control (breaker)	1.16851	0.248
transgenic ySAMdc/azygous control (red)	1.00168	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97117	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.33594	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95588	1
Manapal/WT (break)	0.57951	0.297
Manapal/WT (red)	0.25927	1