Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.1.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.66572	0.052
27DAP/17DAP	1.13135	0.847
39DAP/27DAP	0.90167	0.564
41DAP/39DAP	0.74187	0.169
42DAP/41DAP	0.82837	0.397
43DAP/42DAP	0.84631	0.495
47DAP/43DAP	0.89427	0.645
52DAP/47DAP	0.90629	0.702
57DAP/52DAP	1.27212	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97228	0.489
17DAP/reference	1.01178	0.787
27DAP/reference	1.01238	0.894
39DAP/reference	0.99936	0.991
41DAP/reference	1.00806	1
42DAP/reference	1.14913	0.005
43DAP/reference	1.01909	0.866
47DAP/reference	1.13426	0.035
52DAP/reference	1.18101	0.036
57DAP/reference	1.09974	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41094	0.036
27DAP/17DAP	0.95563	0.748
39DAP/27DAP	0.78546	0.072
41DAP/39DAP	1.19388	0.656
42DAP/41DAP	0.96137	0.717
43DAP/42DAP	0.68675	0.042
47DAP/43DAP	0.98904	0.954
52DAP/47DAP	0.81864	0.186
57DAP/52DAP	0.98011	0.798
57DAP/7DAP	0.89073	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1659	0.311
17DAP/reference	1.14128	0.18
27DAP/reference	1.25698	0.026
39DAP/reference	1.17839	0.073
41DAP/reference	1.14788	0.064
42DAP/reference	1.02773	1
43DAP/reference	1.04001	0.974
47DAP/reference	1.1438	0.421
52DAP/reference	0.9633	0.435
57DAP/reference	1.10295	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14308	0.319
17DAP/reference	1.2818	0.176
27DAP/reference	1.15367	0.041
39DAP/reference	1.17505	0.021
41DAP/reference	1.11483	0.177
42DAP/reference	0.95414	0.321
43DAP/reference	0.99836	0.736
47DAP/reference	0.98936	0.625
52DAP/reference	1.35084	0.061
57DAP/reference	1.07006	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23404	0.146
17DAP/reference	1.1049	0.545
27DAP/reference	1.17316	0.059
39DAP/reference	1.08295	0.466
41DAP/reference	1.15371	0.031
42DAP/reference	1.12171	0.251
43DAP/reference	1.04612	0.667
47DAP/reference	1.01332	1
52DAP/reference	1.09688	0.499
57DAP/reference	1.16451	0.164

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91945	0.997
26DAP/20DAP	1.26602	0.713
34DAP/26DAP	1.7152	0.096
51DAP/34DAP	1.35135	0.232
52DAP/51DAP	0.92631	1
53DAP/52DAP	1.49768	0.502
55DAP/53DAP	0.88984	0.686
57DAP/55DAP	0.78921	0.375
62DAP/57DAP	1.14363	0.868
68DAP/62DAP	0.91021	0.505
68DAP/14DAP	1.23428	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.45547	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.41365	0.089
Mature Green Tomato/Ripe Tomato	3.28771	0.016
Immature Eggplant/Mature Eggplant	0.80315	0.058
Ripe Pepper/Ripe Tomato	0.39698	0.293
Mature Eggplant/Ripe Tomato	0.14354	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05527	0.591
1-1-2/M82	1.41703
12-2/M82	0.85359	0.955
12-4/M82	0.99883	1
1-3/M82	N/A	N/A
2-1-1/M82	1.12308	0.764
2-1/M82	N/A	N/A
2-6/M82	1.45764	0.405
3-2/M82	N/A	N/A
4-1-1/M82	1.38845
4-1/M82	1.19736	1
4-3-2/M82	N/A	N/A
4-3/M82	1.42668	1
5-3/M82	1.04171	1
6-2/M82	1.47356
6-3/M82	0.60213
7-1/M82	N/A	N/A
7-2/M82	1.39885
9-3-2/M82	1.46743

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05947	0.277
IL2-6/WTpooled	1.33957	0.659
IL7-5/WTpooled	1.41338	1
IL7-3/WTpooled	1.083	1
IL12-4/WTpooled	1.01557	1
IL1-4/WTpooled	1.08211	0.426
WT/WTpooled	1.2285	0.911

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	1.07112	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9901	1
DC3000/delta hrp 6h	0.96489	0.95
DC3000/delta hrp 12h	0.94741	1
DC3000/delta hrp 24h	0.91273	0.403

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.40499	0.042
DC3000 delta B/DC3000 delta AB	1.045	0.71

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01396	1
Exp 36h	1.03452	1
Exp 60h	0.97218	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9903	1
Var 0h	1.19599	0.98
Var 12h I row2-row1	0.96195	0.705
Var 12h NI row2-row1	1.09361	0.34
Var 36h I row2-row1	1.03148	1
Var 36h NI row2-row1	1.54714	1
Var 60h I row2-row1	0.99451	1
Var 60h NI row2-row1	1.0894	0.904
Time course 0hI-0hNI	0.92625	0.254
Time course 12hI-12hNI	0.96401	0.738
Time course 36hI-36hNI	0.91897	0.148
Time course 60hI-60hNI	0.61849	0.006

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)	0.9406	0.324
transgenic ySAMdc/azygous control (breaker)	0.96812	1
transgenic ySAMdc/azygous control (red)	0.96559	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01854	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16849	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84936	1
Manapal/WT (break)	1.10208	0.381
Manapal/WT (red)	1.33969	0.164