Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.7.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32753	0.739
27DAP/17DAP	1.34474	0.767
39DAP/27DAP	1.42942	0.391
41DAP/39DAP	1.2735	0.597
42DAP/41DAP	1.06358	1
43DAP/42DAP	0.94696	0.877
47DAP/43DAP	1.57895	0.234
52DAP/47DAP	0.80215	0.503
57DAP/52DAP	1.40645	0.567

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97354	0.455
17DAP/reference	1.80387	0.018
27DAP/reference	0.52091
39DAP/reference	0.90361	0.611
41DAP/reference	1.09379	1
42DAP/reference	1.04553	0.628
43DAP/reference	1.06308	1
47DAP/reference	1.09469	0.568
52DAP/reference	0.64846	0.015
57DAP/reference	0.991	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69352	0.135
27DAP/17DAP	1.21823	0.357
39DAP/27DAP	1.24136	0.575
41DAP/39DAP	1.08727	0.861
42DAP/41DAP	1.0411	1
43DAP/42DAP	0.89215	0.246
47DAP/43DAP	0.95448	0.701
52DAP/47DAP	1.03489	0.939
57DAP/52DAP	2.3528	0.567
57DAP/7DAP	0.8562	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89503	0.326
17DAP/reference	0.80251	0.011
27DAP/reference	0.69768	0.01
39DAP/reference	0.66936	0.049
41DAP/reference	0.80398	0.153
42DAP/reference	0.62617	0.01
43DAP/reference	0.90464	0.334
47DAP/reference	1.1059
52DAP/reference	1.21833	0.732
57DAP/reference	1.08073	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70521	0.031
17DAP/reference	0.88981	0.447
27DAP/reference	1.22664	0.66
39DAP/reference	1.33735	0.3
41DAP/reference	1.17238	0.705
42DAP/reference	1.1664
43DAP/reference	0.79566	0.166
47DAP/reference	0.6538
52DAP/reference	1.64143	0.021
57DAP/reference	0.74399	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16554	0.481
17DAP/reference	0.90573	0.601
27DAP/reference	N/A	N/A
39DAP/reference	0.85771	0.464
41DAP/reference	0.98697	0.682
42DAP/reference	0.82888	0.134
43DAP/reference	N/A	N/A
47DAP/reference	1.12761	0.461
52DAP/reference	0.94105	0.732
57DAP/reference	1.67222	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86267	1
26DAP/20DAP	0.83557	1
34DAP/26DAP	0.81959	0.861
51DAP/34DAP	0.93071	0.799
52DAP/51DAP	1.00895	1
53DAP/52DAP	1.45259	0.458
55DAP/53DAP	1.16247	1
57DAP/55DAP	1.42996	0.898
62DAP/57DAP	0.92472	0.681
68DAP/62DAP	0.7821
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.26519	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.45001	0.026
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	N/A	N/A
1-1-2/M82	1.27466
12-2/M82	N/A	N/A
12-4/M82	1.45731
1-3/M82	N/A	N/A
2-1-1/M82	1.32175
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.35297
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	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.30017	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.89761	1
IL7-5/WTpooled	0.5578
IL7-3/WTpooled	0.97509	1
IL12-4/WTpooled	0.72319	0.478
IL1-4/WTpooled	1.09168	1
WT/WTpooled	0.84542	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	1.24336	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.73909	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.2031	0.042
DC3000 delta B/DC3000 delta AB	0.72409	0.091

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	0.94247	1
Var 0h	1.04382	0.374
Var 12h I row2-row1	1.06524	0.613
Var 12h NI row2-row1	0.84992	0.713
Var 36h I row2-row1	1.27053	0.908
Var 36h NI row2-row1	1.05067	1
Var 60h I row2-row1	0.74074	0.582
Var 60h NI row2-row1	1.14484	0.904
Time course 0hI-0hNI	0.991	1
Time course 12hI-12hNI	1.09247	0.293
Time course 36hI-36hNI	1.22068	0.007
Time course 60hI-60hNI	1.54285	0.033

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)	2.1604	0.863
transgenic ySAMdc/azygous control (breaker)	1.02607	1
transgenic ySAMdc/azygous control (red)	1.08723	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.33744	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.00731	1
Manapal/WT (red)	2.66989	0.222