Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12013	0.681
27DAP/17DAP	1.01642	0.926
39DAP/27DAP	0.95379	0.663
41DAP/39DAP	1.26062	0.264
42DAP/41DAP	1.05179	0.912
43DAP/42DAP	1.04368	1
47DAP/43DAP	1.01928	0.909
52DAP/47DAP	0.98457	0.916
57DAP/52DAP	0.95521	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04268	0.207
17DAP/reference	0.98741	0.819
27DAP/reference	1.04419	0.322
39DAP/reference	1.04927	0.243
41DAP/reference	1.04653	0.48
42DAP/reference	1.08044	0.039
43DAP/reference	1.01644	0.596
47DAP/reference	1.03067	0.463
52DAP/reference	1.03895	0.695
57DAP/reference	1.00365	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97817	0.663
27DAP/17DAP	1.0486	0.905
39DAP/27DAP	1.05972	0.532
41DAP/39DAP	1.03716	0.817
42DAP/41DAP	1.03451	0.8
43DAP/42DAP	1.09154	0.112
47DAP/43DAP	0.98357	0.919
52DAP/47DAP	0.96839	0.726
57DAP/52DAP	1.00985	1
57DAP/7DAP	0.97741	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92045	0.108
17DAP/reference	0.90253	0.013
27DAP/reference	0.93208	0.042
39DAP/reference	0.98847	0.552
41DAP/reference	1.0276	0.577
42DAP/reference	1.00171	0.828
43DAP/reference	0.99627	0.665
47DAP/reference	0.97989	0.504
52DAP/reference	0.94454	0.115
57DAP/reference	0.97923	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01835	0.712
17DAP/reference	1.01049	0.904
27DAP/reference	0.97537	0.452
39DAP/reference	1.00143	0.722
41DAP/reference	1.0233	1
42DAP/reference	1.10783	0.24
43DAP/reference	1.00599	1
47DAP/reference	1.12199	0.067
52DAP/reference	1.01861	0.667
57DAP/reference	1.08524	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91379	0.045
17DAP/reference	0.94574	0.292
27DAP/reference	0.96333	0.257
39DAP/reference	0.91719	0.016
41DAP/reference	0.95833	0.237
42DAP/reference	0.8849	0.015
43DAP/reference	0.92365	0.081
47DAP/reference	1.01821	1
52DAP/reference	0.90011	0.284
57DAP/reference	0.84396	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03106	0.966
26DAP/20DAP	0.98691	1
34DAP/26DAP	1.05998	0.819
51DAP/34DAP	0.9244	0.618
52DAP/51DAP	1.02444	0.848
53DAP/52DAP	1.0925	0.608
55DAP/53DAP	0.99323	0.894
57DAP/55DAP	0.99327	0.902
62DAP/57DAP	0.9959	1
68DAP/62DAP	0.88956	0.464
68DAP/14DAP	1.12483	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95997	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.66123	0.162
Mature Green Tomato/Ripe Tomato	0.75043	0.107
Immature Eggplant/Mature Eggplant	1.15662	0.398
Ripe Pepper/Ripe Tomato	0.34359	0.224
Mature Eggplant/Ripe Tomato	0.36048

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.02402
12-2/M82	N/A	N/A
12-4/M82	1.01416
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	0.94288
4-1-1/M82	N/A	N/A
4-1/M82	1.07924	0.853
4-3-2/M82	0.84793	0.487
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	1.04981
7-2/M82	N/A	N/A
9-3-2/M82	0.96414	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.52932	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.74937	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.47438	1
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	1.18766	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.41411
DC3000/delta hrp 6h	1.17016	1
DC3000/delta hrp 12h	0.99427	1
DC3000/delta hrp 24h	1.08462	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01689	0.556
DC3000 delta B/DC3000 delta AB	1.03774	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	2.01993	1
Exp 36h	1.56797	0.693
Exp 60h	1.52649	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02904	1
Var 0h	2.31754	0.98
Var 12h I row2-row1	1.1431	0.254
Var 12h NI row2-row1	1.03545	1
Var 36h I row2-row1	0.91858	1
Var 36h NI row2-row1	0.88738	0.61
Var 60h I row2-row1	1.91322	1
Var 60h NI row2-row1	1.17005	0.904
Time course 0hI-0hNI	1.0195	1
Time course 12hI-12hNI	1.05859	0.65
Time course 36hI-36hNI	0.99678	0.768
Time course 60hI-60hNI	1.12976	0.115

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)	0.89187	0.348
transgenic ySAMdc/azygous control (breaker)	0.52143	0.124
transgenic ySAMdc/azygous control (red)	1.05281	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99271	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73843	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61872	0.172
Manapal/WT (break)	0.61054	0.333
Manapal/WT (red)	0.79459	0.503