Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.13.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13957	0.725
27DAP/17DAP	1.10686	0.905
39DAP/27DAP	1.22118	0.894
41DAP/39DAP	1.18382	0.293
42DAP/41DAP	0.91163	1
43DAP/42DAP	0.86043	0.795
47DAP/43DAP	1.09223	0.851
52DAP/47DAP	1.2427	0.662
57DAP/52DAP	0.97534	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07073	0.994
17DAP/reference	1.07205	0.369
27DAP/reference	1.01903	0.953
39DAP/reference	1.02468	0.903
41DAP/reference	1.00408	0.814
42DAP/reference	1.02783	0.869
43DAP/reference	1.04403	0.518
47DAP/reference	0.97445	0.418
52DAP/reference	1.08634	0.476
57DAP/reference	1.05604	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90082	0.542
27DAP/17DAP	1.44807	0.333
39DAP/27DAP	0.81283	0.079
41DAP/39DAP	1.17131	0.887
42DAP/41DAP	0.99539	0.752
43DAP/42DAP	1.01842	1
47DAP/43DAP	0.83225	0.617
52DAP/47DAP	1.05719	0.973
57DAP/52DAP	0.8225	0.454
57DAP/7DAP	1.51005	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85948	0.138
17DAP/reference	0.91406	0.192
27DAP/reference	0.87705	0.088
39DAP/reference	0.80258	0.064
41DAP/reference	0.83558	0.038
42DAP/reference	0.83416	0.019
43DAP/reference	0.94487	0.266
47DAP/reference	0.97684	0.671
52DAP/reference	0.72761	0.011
57DAP/reference	0.95988	0.396

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92222	0.362
17DAP/reference	1.02956	0.941
27DAP/reference	0.97266	0.501
39DAP/reference	0.94102	0.274
41DAP/reference	1.0872	0.382
42DAP/reference	1.00329	0.723
43DAP/reference	1.08651	0.751
47DAP/reference	1.08477	0.247
52DAP/reference	0.91336	0.111
57DAP/reference	0.99124	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8654	0.127
17DAP/reference	1.01551	0.918
27DAP/reference	0.96541	0.516
39DAP/reference	0.91509	0.179
41DAP/reference	0.80263	0.025
42DAP/reference	0.85663	0.108
43DAP/reference	0.7982	0.068
47DAP/reference	1.3331	0.011
52DAP/reference	1.16886	0.349
57DAP/reference	1.10786	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17011	0.966
26DAP/20DAP	0.88659
34DAP/26DAP	0.93208	0.944
51DAP/34DAP	1.4361	0.387
52DAP/51DAP	1.25871	0.396
53DAP/52DAP	1.00057	0.929
55DAP/53DAP	1.05732	1
57DAP/55DAP	1.21204	0.51
62DAP/57DAP	1.06177	0.935
68DAP/62DAP	1.06698	1
68DAP/14DAP	1.07551	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81477

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	1.02752
1-1-2/M82	1.28499
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	0.98327	1
3-2/M82	0.78052
4-1-1/M82	0.69736
4-1/M82	1.83033
4-3-2/M82	1.45871
4-3/M82	N/A	N/A
5-3/M82	0.93657	0.364
6-2/M82	N/A	N/A
6-3/M82	0.95156
7-1/M82	N/A	N/A
7-2/M82	0.88719	0.796
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	1.70849	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.61186	0.298
IL12-4/WTpooled	1.00038	1
IL1-4/WTpooled	1.2463
WT/WTpooled	0.99788	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	1.01512	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.08016	1
DC3000/delta hrp 24h	0.94903	0.618

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	0.97358	1
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	1.0694	0.98
Var 12h I row2-row1	1.08685	0.406
Var 12h NI row2-row1	0.79474
Var 36h I row2-row1	1.11726	1
Var 36h NI row2-row1	0.96116
Var 60h I row2-row1	1.81387	1
Var 60h NI row2-row1	1.01148
Time course 0hI-0hNI	1.38943	0.537
Time course 12hI-12hNI	0.81461	0.398
Time course 36hI-36hNI	1.45103	0.798
Time course 60hI-60hNI	0.91283	0.646

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)	11.4237	0.431
transgenic ySAMdc/azygous control (breaker)	0.45251	0.131
transgenic ySAMdc/azygous control (red)	1.29802	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97045	0.208

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.45729	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75574	1
Manapal/WT (break)	0.75385	0.333
Manapal/WT (red)	1.02226	1