Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00474	0.867
27DAP/17DAP	0.98784	0.964
39DAP/27DAP	1.82852	0.603
41DAP/39DAP	1.08376	0.914
42DAP/41DAP	1.93844	0.114
43DAP/42DAP	1.05661	1
47DAP/43DAP	0.64017	0.086
52DAP/47DAP	0.84885	0.609
57DAP/52DAP	1.14624	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20909	0.068
17DAP/reference	1.13001	0.064
27DAP/reference	0.98848	0.725
39DAP/reference	1.00531	0.941
41DAP/reference	0.99038	0.814
42DAP/reference	0.86959	0.003
43DAP/reference	1.01919	1
47DAP/reference	0.92659	0.116
52DAP/reference	0.8231	0.041
57DAP/reference	0.95038	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8364	0.126
27DAP/17DAP	0.83936	0.39
39DAP/27DAP	0.89604	0.444
41DAP/39DAP	1.36235	0.455
42DAP/41DAP	0.76395	0.018
43DAP/42DAP	0.77526	0.079
47DAP/43DAP	1.14692	0.369
52DAP/47DAP	0.6907	0.074
57DAP/52DAP	0.86369	0.264
57DAP/7DAP	0.77443	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.27998	0.028
17DAP/reference	1.68411	0.007
27DAP/reference	1.31784	0.026
39DAP/reference	1.15215	0.044
41DAP/reference	1.40555	0.024
42DAP/reference	1.2601	0.059
43DAP/reference	1.14215	0.083
47DAP/reference	0.93827	0.383
52DAP/reference	1.15109	0.328
57DAP/reference	1.02456	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03994	0.894
17DAP/reference	1.00287	0.805
27DAP/reference	1.01006	0.598
39DAP/reference	0.86134	0.081
41DAP/reference	0.90145	0.058
42DAP/reference	1.0578	0.534
43DAP/reference	0.97272	0.561
47DAP/reference	0.96168	0.379
52DAP/reference	0.95242	0.187
57DAP/reference	1.01596	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.84098	0.018
17DAP/reference	1.3141	0.241
27DAP/reference	1.28773	0.034
39DAP/reference	1.36967	0.039
41DAP/reference	1.02157	0.984
42DAP/reference	1.03231	0.979
43DAP/reference	0.97666	0.614
47DAP/reference	0.97663	0.509
52DAP/reference	0.92244	0.385
57DAP/reference	0.7454	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85803	0.787
26DAP/20DAP	0.82644	0.244
34DAP/26DAP	0.9641	0.94
51DAP/34DAP	0.90791	0.624
52DAP/51DAP	1.0195	0.848
53DAP/52DAP	1.41028	0.196
55DAP/53DAP	1.10443	0.842
57DAP/55DAP	0.91328	0.647
62DAP/57DAP	1.13752	0.303
68DAP/62DAP	1.05102	0.971
68DAP/14DAP	0.77772	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78878	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	0.74947
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.77377
4-3/M82	N/A	N/A
5-3/M82	0.76286
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0836	1
IL2-6/WTpooled	0.89247	1
IL7-5/WTpooled	0.89185
IL7-3/WTpooled	1.30287	1
IL12-4/WTpooled	1.12815	0.538
IL1-4/WTpooled	0.94354	0.834
WT/WTpooled	0.88622	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	1.23955	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05647
DC3000/delta hrp 6h	1.51422	1
DC3000/delta hrp 12h	0.90272	1
DC3000/delta hrp 24h	2.11752	0.174

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.58257	0.027
DC3000 delta B/DC3000 delta AB	0.43515	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85182	0.245
Exp 36h	1.58419	1
Exp 60h	1.2352	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04836	1
Var 0h	1.10695	0.936
Var 12h I row2-row1	0.69118	0.357
Var 12h NI row2-row1	0.88954	0.627
Var 36h I row2-row1	0.90636	1
Var 36h NI row2-row1	1.11132	0.482
Var 60h I row2-row1	1.45326	0.562
Var 60h NI row2-row1	1.02088	1
Time course 0hI-0hNI	1.05867	0.852
Time course 12hI-12hNI	0.98771	0.953
Time course 36hI-36hNI	1.06079	0.513
Time course 60hI-60hNI	0.2554	0.005

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)	0.50113	0.2
transgenic ySAMdc/azygous control (breaker)	1.18122	0.178
transgenic ySAMdc/azygous control (red)	1.09874	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96124	0.092

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.464	0.238

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)	1.09414	1
Manapal/WT (red)	0.98829	0.863