Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.14.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.77311	0.162
27DAP/17DAP	0.98527	0.894
39DAP/27DAP	1.28535	0.956
41DAP/39DAP	1.4243	0.494
42DAP/41DAP	0.84233	0.774
43DAP/42DAP	1.38128	1
47DAP/43DAP	1.21737	0.873
52DAP/47DAP	0.86074	0.627
57DAP/52DAP	0.90758	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.8385	0.026
17DAP/reference	1.53852	0.066
27DAP/reference	1.77106	0.011
39DAP/reference	1.78201	0.026
41DAP/reference	2.1861	0.012
42DAP/reference	4.43812	0.001
43DAP/reference	1.88334	0.008
47DAP/reference	3.09348	0.001
52DAP/reference	1.87376	0.01
57DAP/reference	1.82444	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.74369
27DAP/17DAP	1.42297
39DAP/27DAP	2.27439
41DAP/39DAP	1.92664	0.382
42DAP/41DAP	1.14776	0.841
43DAP/42DAP	1.12376	0.03
47DAP/43DAP	1.37471	0.765
52DAP/47DAP	1.5064	0.317
57DAP/52DAP	N/A	N/A
57DAP/7DAP	1.52457	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.73139	0.119
17DAP/reference	1.81012	0.006
27DAP/reference	2.48467	0.006
39DAP/reference	3.16412	0.005
41DAP/reference	2.34911	0.021
42DAP/reference	3.31836	0.006
43DAP/reference	3.18641	0.006
47DAP/reference	4.03488	0.014
52DAP/reference	3.37865	0.007
57DAP/reference	3.24038	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92949	0.518
17DAP/reference	2.63428	0.117
27DAP/reference	2.89721	0.013
39DAP/reference	3.19061	0.011
41DAP/reference	2.67117	0.005
42DAP/reference	5.45393	0.007
43DAP/reference	1.40934	0.319
47DAP/reference	5.12871	0.01
52DAP/reference	2.7188	0.006
57DAP/reference	2.10538	0.188

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05829	0.864
17DAP/reference	1.12751	0.804
27DAP/reference	1.90246	0.022
39DAP/reference	2.28925	0.005
41DAP/reference	1.80399	0.008
42DAP/reference	3.02036	0.006
43DAP/reference	3.57667	0.011
47DAP/reference	1.62067	0.057
52DAP/reference	2.0816	0.032
57DAP/reference	3.21363	0.005

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.51093	0.966
26DAP/20DAP	0.2477
34DAP/26DAP	1.27147
51DAP/34DAP	0.77889	0.449
52DAP/51DAP	1.2704	0.733
53DAP/52DAP	0.73076	0.409
55DAP/53DAP	0.8392	0.632
57DAP/55DAP	N/A	N/A
62DAP/57DAP	2.50107	0.002
68DAP/62DAP	1.95973	0.759
68DAP/14DAP	1.1927

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

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	N/A	N/A
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	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80378	0.243
IL2-6/WTpooled	1.10997	0.788
IL7-5/WTpooled	1.16315	1
IL7-3/WTpooled	0.73135	0.31
IL12-4/WTpooled	0.9759	1
IL1-4/WTpooled	1.01066	1
WT/WTpooled	0.95394	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	N/A	N/A

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	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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	N/A	N/A
Var 0h	1.07873	0.594
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.99136	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	1.37902	0.183
Manapal/WT (red)	N/A	N/A