Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.16.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23638	0.63
27DAP/17DAP	0.93664	0.863
39DAP/27DAP	0.83161	0.447
41DAP/39DAP	0.77004	0.197
42DAP/41DAP	1.07735	0.938
43DAP/42DAP	0.98911	0.932
47DAP/43DAP	1.21826	0.584
52DAP/47DAP	1.46001	0.535
57DAP/52DAP	1.18834	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80628	0.059
17DAP/reference	0.7922	0.111
27DAP/reference	0.87142	0.157
39DAP/reference	0.83861	0.221
41DAP/reference	0.83181	0.267
42DAP/reference	0.95285	0.242
43DAP/reference	1.07035	0.838
47DAP/reference	1.0042	0.764
52DAP/reference	1.07033	0.695
57DAP/reference	0.91545	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27555	0.069
27DAP/17DAP	0.9757	0.919
39DAP/27DAP	0.83232	0.118
41DAP/39DAP	1.13466	0.439
42DAP/41DAP	1.00082	0.872
43DAP/42DAP	0.93796	0.597
47DAP/43DAP	1.07879	0.744
52DAP/47DAP	1.03476	0.856
57DAP/52DAP	1.04731	0.874
57DAP/7DAP	1.21569	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01825	0.98
17DAP/reference	1.11104	0.045
27DAP/reference	1.04574	0.301
39DAP/reference	1.3163	0.005
41DAP/reference	1.22871	0.021
42DAP/reference	1.18752	0.308
43DAP/reference	1.45965	0.048
47DAP/reference	1.21783	0.106
52DAP/reference	1.14208	0.033
57DAP/reference	1.26839	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65975	0.007
17DAP/reference	0.58757	0.004
27DAP/reference	0.91059	0.203
39DAP/reference	0.96055	0.404
41DAP/reference	1.08697	0.657
42DAP/reference	0.96795	0.392
43DAP/reference	0.61356	0.015
47DAP/reference	0.75517	0.03
52DAP/reference	0.83193	0.008
57DAP/reference	0.63486	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99602	0.699
17DAP/reference	0.91448	0.407
27DAP/reference	1.0826	0.059
39DAP/reference	1.01366	0.792
41DAP/reference	1.08947	0.058
42DAP/reference	1.16159	0.251
43DAP/reference	1.01701	0.768
47DAP/reference	1.09027	1
52DAP/reference	1.02086	0.941
57DAP/reference	1.56485	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98854	1
26DAP/20DAP	1.01121	1
34DAP/26DAP	1.13897	0.819
51DAP/34DAP	0.88073	0.563
52DAP/51DAP	1.03781	0.848
53DAP/52DAP	1.1555	0.712
55DAP/53DAP	1.22773	0.722
57DAP/55DAP	1.24664	0.51
62DAP/57DAP	1.11806	0.767
68DAP/62DAP	2.99907	0.048
68DAP/14DAP	2.78413	0.031

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.66325	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.51285	0.058
Mature Green Tomato/Ripe Tomato	3.16311	0.032
Immature Eggplant/Mature Eggplant	0.62064	0.063
Ripe Pepper/Ripe Tomato	0.69472	0.293
Mature Eggplant/Ripe Tomato	0.69235	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.47293
12-2/M82	1.30254
12-4/M82	1.01273	1
1-3/M82	N/A	N/A
2-1-1/M82	0.89689	1
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.20468
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.61059
4-3/M82	1.18103	1
5-3/M82	0.91876	0.642
6-2/M82	0.92434
6-3/M82	N/A	N/A
7-1/M82	1.10568	0.598
7-2/M82	1.36051	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9937	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.6307	1
IL12-4/WTpooled	1.11179	0.553
IL1-4/WTpooled	1.41356
WT/WTpooled	0.99025	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	0.97108	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13683	0.921
DC3000/delta hrp 6h	1.04505	1
DC3000/delta hrp 12h	1.07182	1
DC3000/delta hrp 24h	1.15818	0.397

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	0.69865	0.025

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94799	1
Exp 36h	0.80857	0.406
Exp 60h	0.96554	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99391	1
Var 0h	1.17364	0.782
Var 12h I row2-row1	0.86005	0.338
Var 12h NI row2-row1	0.93641	0.82
Var 36h I row2-row1	1.02793	1
Var 36h NI row2-row1	1.11445	0.482
Var 60h I row2-row1	1.14581	0.543
Var 60h NI row2-row1	1.00378	1
Time course 0hI-0hNI	0.97826	0.922
Time course 12hI-12hNI	0.99323	1
Time course 36hI-36hNI	0.81792	0.025
Time course 60hI-60hNI	0.26965	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)	1.07924	0.325
transgenic ySAMdc/azygous control (breaker)	1.10206	0.248
transgenic ySAMdc/azygous control (red)	1.00792	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9347	0.168

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98204	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.34586	0.09
Manapal/WT (break)	1.44514	0.13
Manapal/WT (red)	N/A	N/A