Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.6.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6275	0.281
27DAP/17DAP	0.82886	0.626
39DAP/27DAP	0.90644	0.544
41DAP/39DAP	0.99589	0.911
42DAP/41DAP	1.07301	1
43DAP/42DAP	0.86465	0.705
47DAP/43DAP	0.99237	0.902
52DAP/47DAP	0.84116	0.589
57DAP/52DAP	1.22466	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84322	0.042
17DAP/reference	1.08599	0.33
27DAP/reference	1.04541	0.759
39DAP/reference	1.03422	0.816
41DAP/reference	0.9334	0.434
42DAP/reference	1.32725	0.001
43DAP/reference	1.09562	0.233
47DAP/reference	1.10606	0.318
52DAP/reference	1.06161	0.607
57DAP/reference	0.98313	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13028	0.679
27DAP/17DAP	0.95682	0.878
39DAP/27DAP	1.08693	0.654
41DAP/39DAP	0.94544	0.893
42DAP/41DAP	1.03996	1
43DAP/42DAP	0.90741	0.415
47DAP/43DAP	0.96813	0.855
52DAP/47DAP	0.81902	0.161
57DAP/52DAP	0.94821	0.668
57DAP/7DAP	1.67209	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1329	0.385
17DAP/reference	1.10579	0.688
27DAP/reference	1.10966	0.664
39DAP/reference	0.99338	0.64
41DAP/reference	0.98923	0.589
42DAP/reference	0.8924	0.178
43DAP/reference	1.18256	0.018
47DAP/reference	1.12306	0.158
52DAP/reference	1.19379	0.13
57DAP/reference	1.0128	0.775

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92095	0.286
17DAP/reference	1.01786	0.904
27DAP/reference	0.87266	0.087
39DAP/reference	0.9724	0.497
41DAP/reference	0.97154	0.412
42DAP/reference	0.93999	0.261
43DAP/reference	1.10207	0.713
47DAP/reference	1.07097	0.388
52DAP/reference	1.0514	0.747
57DAP/reference	0.94422	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07318	1
17DAP/reference	1.06843	0.767
27DAP/reference	0.88679	0.376
39DAP/reference	1.15417	0.39
41DAP/reference	0.78462	0.132
42DAP/reference	1.09254	0.789
43DAP/reference	0.99692	0.738
47DAP/reference	1.33092	0.037
52DAP/reference	1.34777	0.058
57DAP/reference	1.00085	0.779

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11738	0.966
26DAP/20DAP	0.80841	0.512
34DAP/26DAP	0.56839	0.092
51DAP/34DAP	1.0023	0.993
52DAP/51DAP	0.94483	1
53DAP/52DAP	1.10244	0.882
55DAP/53DAP	1.11084	0.429
57DAP/55DAP	1.18702	0.745
62DAP/57DAP	0.91821
68DAP/62DAP	1.75688	0.178
68DAP/14DAP	1.21066	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95481	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.79497	0.577
Immature Eggplant/Mature Eggplant	1.75003	0.05
Ripe Pepper/Ripe Tomato	0.80543	1
Mature Eggplant/Ripe Tomato	0.66597	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13423
1-1-2/M82	0.98502	1
12-2/M82	0.78822
12-4/M82	0.95287	1
1-3/M82	0.9881
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.05413	0.695
3-2/M82	1.17875
4-1-1/M82	N/A	N/A
4-1/M82	1.15509	1
4-3-2/M82	0.99645
4-3/M82	1.07096	1
5-3/M82	0.98434	1
6-2/M82	N/A	N/A
6-3/M82	1.02795	1
7-1/M82	1.20378	0.578
7-2/M82	1.10509
9-3-2/M82	0.9534	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11219	0.493
IL2-6/WTpooled	0.97082	1
IL7-5/WTpooled	0.76353
IL7-3/WTpooled	0.96534	1
IL12-4/WTpooled	0.93581	0.581
IL1-4/WTpooled	1.1811	0.426
WT/WTpooled	0.87562	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	1.03795	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09253	0.921
DC3000/delta hrp 6h	0.69322	0.95
DC3000/delta hrp 12h	1.01614	1
DC3000/delta hrp 24h	0.92845	0.438

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	0.9596	1
Exp 36h	1.373	1
Exp 60h	1.15115	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00551	1
Var 0h	0.92045	1
Var 12h I row2-row1	1.01122	1
Var 12h NI row2-row1	1.24632	0.281
Var 36h I row2-row1	0.84344	0.601
Var 36h NI row2-row1	3.3617	1
Var 60h I row2-row1	1.64288	1
Var 60h NI row2-row1	0.91445	1
Time course 0hI-0hNI	0.96545	0.799
Time course 12hI-12hNI	0.9471	0.551
Time course 36hI-36hNI	0.88967	0.084
Time course 60hI-60hNI	0.76489	0.007

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)	1.03706	0.541
transgenic ySAMdc/azygous control (breaker)	2.94571	0.172
transgenic ySAMdc/azygous control (red)	1.22939	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03933	0.247

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92593	1
Manapal/WT (break)	1.4673	0.381
Manapal/WT (red)	1.68052	0.137