Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-7.4.18.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31644	0.272
27DAP/17DAP	1.11874	0.859
39DAP/27DAP	0.68088	0.397
41DAP/39DAP	0.88869	0.574
42DAP/41DAP	1.08984	0.903
43DAP/42DAP	1.24777	0.962
47DAP/43DAP	1.14223	0.584
52DAP/47DAP	1.18953	0.821
57DAP/52DAP	1.10839	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01571	0.928
17DAP/reference	1.09028	0.399
27DAP/reference	1.04907	0.569
39DAP/reference	1.08363	0.524
41DAP/reference	1.09253	0.265
42DAP/reference	0.99655	0.531
43DAP/reference	1.09029	0.403
47DAP/reference	0.97227	0.366
52DAP/reference	1.01609	1
57DAP/reference	0.97557	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00143	0.899
27DAP/17DAP	1.02651	0.995
39DAP/27DAP	0.93354	0.622
41DAP/39DAP	1.14442	0.497
42DAP/41DAP	1.02281	0.925
43DAP/42DAP	0.95237	0.336
47DAP/43DAP	0.99301	0.961
52DAP/47DAP	0.97918	0.905
57DAP/52DAP	0.94966	0.617
57DAP/7DAP	0.80694	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7743	0.086
17DAP/reference	0.76155	0.012
27DAP/reference	0.96091	0.375
39DAP/reference	0.74157	0.012
41DAP/reference	0.86242	0.094
42DAP/reference	0.78304	0.013
43DAP/reference	0.6873	0.011
47DAP/reference	0.82771	0.101
52DAP/reference	0.95281	0.363
57DAP/reference	0.78089	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20795	0.196
17DAP/reference	1.18698	0.043
27DAP/reference	1.06665	0.735
39DAP/reference	1.22108	0.16
41DAP/reference	0.87571	0.066
42DAP/reference	1.10315	0.398
43DAP/reference	1.57274	0.02
47DAP/reference	1.17026	0.022
52DAP/reference	1.11245	0.181
57DAP/reference	1.21137	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83895	0.065
17DAP/reference	1.03095	1
27DAP/reference	0.78123	0.049
39DAP/reference	0.89276	0.122
41DAP/reference	0.95687	0.417
42DAP/reference	0.88386	0.059
43DAP/reference	0.72098	0.022
47DAP/reference	1.06426	0.339
52DAP/reference	0.74531	0.142
57DAP/reference	0.82745	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01594	1
26DAP/20DAP	1.15631	0.421
34DAP/26DAP	0.89551	0.712
51DAP/34DAP	1.00044	0.917
52DAP/51DAP	1.1253	0.722
53DAP/52DAP	1.03889	0.858
55DAP/53DAP	1.0761	0.719
57DAP/55DAP	1.24137	0.34
62DAP/57DAP	1.07391	0.935
68DAP/62DAP	0.75149	0.245
68DAP/14DAP	0.74968	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82981	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50078	N/A
Mature Green Tomato/Ripe Tomato	1.60139	0.017
Immature Eggplant/Mature Eggplant	0.7301	0.062
Ripe Pepper/Ripe Tomato	1.15215	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95166	0.944
1-1-2/M82	1.03963	1
12-2/M82	1.22876	1
12-4/M82	1.0323	1
1-3/M82	0.87718	0.441
2-1-1/M82	2.5582	0.764
2-1/M82	1.74188	N/A
2-6/M82	1.17285	0.452
3-2/M82	0.92848	1
4-1-1/M82	0.99292	1
4-1/M82	1.66835	N/A
4-3-2/M82	0.89964	N/A
4-3/M82	1.1042	N/A
5-3/M82	1.00739	1
6-2/M82	0.80281	N/A
6-3/M82	0.90855	1
7-1/M82	0.84043	1
7-2/M82	0.94045	0.57
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84611	0.243
IL2-6/WTpooled	1.10814	0.788
IL7-5/WTpooled	1.39473	1
IL7-3/WTpooled	1.23199	0.362
IL12-4/WTpooled	0.94442	1
IL1-4/WTpooled	0.94106	1
WT/WTpooled	0.95245	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	1.22118	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03836	0.921
DC3000/delta hrp 6h	0.60609	0.844
DC3000/delta hrp 12h	1.15834	1
DC3000/delta hrp 24h	0.97879	0.897

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	1.10835	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03143	1
Var 0h	1.01707	1
Var 12h I row2-row1	1.04733	0.22
Var 12h NI row2-row1	0.73496	0.627
Var 36h I row2-row1	1.08769	0.908
Var 36h NI row2-row1	0.87431	0.645
Var 60h I row2-row1	1.71835	0.562
Var 60h NI row2-row1	1.03352	1
Time course 0hI-0hNI	0.93408	0.346
Time course 12hI-12hNI	1.06733	0.639
Time course 36hI-36hNI	1.16105	0.218
Time course 60hI-60hNI	1.17763	0.069

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)	0.9212	0.251
transgenic ySAMdc/azygous control (breaker)	1.71825	0.178
transgenic ySAMdc/azygous control (red)	1.01888	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00839	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80617	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10395	1
Manapal/WT (break)	1.05632	1
Manapal/WT (red)	0.96418	0.607