Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13623	0.755
27DAP/17DAP	1.24399	0.809
39DAP/27DAP	0.86401	0.549
41DAP/39DAP	1.35106	0.451
42DAP/41DAP	1.05974	0.962
43DAP/42DAP	1.12559	0.962
47DAP/43DAP	1.13409	0.595
52DAP/47DAP	1.06092	0.918
57DAP/52DAP	1.02002	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86338	0.066
17DAP/reference	1.07038	0.148
27DAP/reference	0.9541	0.428
39DAP/reference	1.027	0.343
41DAP/reference	1.09881	0.365
42DAP/reference	0.85675	0.01
43DAP/reference	0.99676	0.882
47DAP/reference	0.94884	0.258
52DAP/reference	1.02879	0.951
57DAP/reference	1.13354	0.22

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01708	0.871
27DAP/17DAP	0.94614	0.821
39DAP/27DAP	1.04699	1
41DAP/39DAP	0.92592	0.849
42DAP/41DAP	1.12091	0.425
43DAP/42DAP	0.92849	0.482
47DAP/43DAP	0.92873	0.516
52DAP/47DAP	1.0599	0.804
57DAP/52DAP	0.93494	0.532
57DAP/7DAP	1.20145	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92611	0.296
17DAP/reference	0.96571	0.338
27DAP/reference	0.87212	0.101
39DAP/reference	1.00459	1
41DAP/reference	0.82168	0.09
42DAP/reference	0.954	0.393
43DAP/reference	1.08396	0.289
47DAP/reference	1.1283	0.298
52DAP/reference	0.84916	0.028
57DAP/reference	1.21238	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07993	0.582
17DAP/reference	0.81855	0.02
27DAP/reference	0.95171	0.269
39DAP/reference	0.7755	0.037
41DAP/reference	0.8413	0.073
42DAP/reference	0.93356	0.321
43DAP/reference	0.93418	0.361
47DAP/reference	0.90374	0.079
52DAP/reference	0.92687	0.171
57DAP/reference	0.95045	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87758	0.098
17DAP/reference	0.88339	0.135
27DAP/reference	1.11326	0.271
39DAP/reference	0.99237	0.693
41DAP/reference	0.93233	0.264
42DAP/reference	0.9814	0.671
43DAP/reference	0.84558	0.068
47DAP/reference	0.9738	0.478
52DAP/reference	0.96912	0.704
57DAP/reference	0.93566	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01205	1
26DAP/20DAP	1.62061	0.119
34DAP/26DAP	1.03815	1
51DAP/34DAP	1.18295	0.314
52DAP/51DAP	0.95492	1
53DAP/52DAP	0.97175	0.876
55DAP/53DAP	0.96426	0.784
57DAP/55DAP	0.73163	0.391
62DAP/57DAP	1.03751	1
68DAP/62DAP	1.08368	0.792
68DAP/14DAP	1.08982	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81339	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.98393	0.058
Mature Green Tomato/Ripe Tomato	1.04782	0.715
Immature Eggplant/Mature Eggplant	0.69672
Ripe Pepper/Ripe Tomato	1.48823	1
Mature Eggplant/Ripe Tomato	0.49473	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.25094	0.877
1-1-2/M82	1.03746	1
12-2/M82	0.6695
12-4/M82	0.89224	0.619
1-3/M82	N/A	N/A
2-1-1/M82	1.0364	1
2-1/M82	1.14465
2-6/M82	1.08761	1
3-2/M82	N/A	N/A
4-1-1/M82	1.09539
4-1/M82	1.08358
4-3-2/M82	1.04375	1
4-3/M82	0.9118	0.578
5-3/M82	1.01039	1
6-2/M82	1.5485
6-3/M82	0.72518	0.435
7-1/M82	0.96659
7-2/M82	1.16058
9-3-2/M82	1.08014	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.12752	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.88751	1
IL12-4/WTpooled	1.19365	0.503
IL1-4/WTpooled	0.90682
WT/WTpooled	1.06878	0.999

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	0.88234	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04024	0.921
DC3000/delta hrp 6h	0.96587	0.95
DC3000/delta hrp 12h	0.98709	1
DC3000/delta hrp 24h	1.08989	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.7316
DC3000 delta B/DC3000 delta AB	0.92105	0.638

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95896	1
Exp 36h	1.08855	0.371
Exp 60h	1.03687	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04768	1
Var 0h	1.19017	0.782
Var 12h I row2-row1	0.9299	0.705
Var 12h NI row2-row1	1.12989	0.649
Var 36h I row2-row1	0.86729	1
Var 36h NI row2-row1	0.93947	0.743
Var 60h I row2-row1	0.86325	0.292
Var 60h NI row2-row1	0.86571	0.932
Time course 0hI-0hNI	0.97713	0.903
Time course 12hI-12hNI	1.00635	0.88
Time course 36hI-36hNI	1.21437	0.028
Time course 60hI-60hNI	1.34213	0.009

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)	1.05149	0.372
transgenic ySAMdc/azygous control (breaker)	1.01903	1
transgenic ySAMdc/azygous control (red)	1.08424	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97353	0.191

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91112	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.25152	0.105
Manapal/WT (break)	1.0281	1
Manapal/WT (red)	0.84966	0.315