Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02294	0.904
27DAP/17DAP	1.12799	0.845
39DAP/27DAP	1.01011	0.769
41DAP/39DAP	1.30824	0.363
42DAP/41DAP	1.0324	1
43DAP/42DAP	0.90444	0.787
47DAP/43DAP	0.95577	0.804
52DAP/47DAP	0.99959	0.959
57DAP/52DAP	0.95986	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06871	0.441
17DAP/reference	1.0521	0.148
27DAP/reference	1.03438	0.539
39DAP/reference	1.03996	0.335
41DAP/reference	1.03106	0.203
42DAP/reference	1.07228	0.048
43DAP/reference	1.01238	0.838
47DAP/reference	1.02194	0.646
52DAP/reference	1.03452	0.8
57DAP/reference	1.02993	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96056	0.613
27DAP/17DAP	1.0177	0.945
39DAP/27DAP	1.02204	0.691
41DAP/39DAP	1.01573	0.861
42DAP/41DAP	1.01076	1
43DAP/42DAP	0.98964	0.991
47DAP/43DAP	0.98787	0.933
52DAP/47DAP	0.97672	0.824
57DAP/52DAP	1.02492	0.864
57DAP/7DAP	1.03418	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.44228	0.071
17DAP/reference	0.20405	0.011
27DAP/reference	0.23854	0.01
39DAP/reference	0.19893	0.011
41DAP/reference	1.09527	0.619
42DAP/reference	0.18286	0.01
43DAP/reference	0.13647	0.008
47DAP/reference	0.67235	0.222
52DAP/reference	0.10728	0.009
57DAP/reference	0.12646	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88927	0.362
17DAP/reference	1.02468	0.508
27DAP/reference	0.92673	0.144
39DAP/reference	0.94649	0.25
41DAP/reference	1.11771	0.525
42DAP/reference	1.07009	0.5
43DAP/reference	0.71794	0.111
47DAP/reference	1.12775	0.076
52DAP/reference	1.08991	0.368
57DAP/reference	1.0617	0.449

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.4807	0.044
17DAP/reference	1.25146	0.292
27DAP/reference	0.22324	0.029
39DAP/reference	0.36656	0.022
41DAP/reference	0.27036	0.019
42DAP/reference	0.3514	0.023
43DAP/reference	0.49099	0.064
47DAP/reference	1.01546	1
52DAP/reference	0.51623	0.101
57DAP/reference	0.86431	0.247

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0011	1
26DAP/20DAP	1.01254	1
34DAP/26DAP	1.00913	1
51DAP/34DAP	0.89653	0.498
52DAP/51DAP	0.98576	1
53DAP/52DAP	1.0974	0.697
55DAP/53DAP	1.0017	0.939
57DAP/55DAP	1.05957	0.975
62DAP/57DAP	1.09818	0.678
68DAP/62DAP	1.17454	0.713
68DAP/14DAP	0.99468	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0222	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.5652	0.113
Mature Green Tomato/Ripe Tomato	0.89893	0.066
Immature Eggplant/Mature Eggplant	1.25544	0.092
Ripe Pepper/Ripe Tomato	0.27108	0.224
Mature Eggplant/Ripe Tomato	0.51766	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0795	0.591
1-1-2/M82	1.01204	1
12-2/M82	1.02879	1
12-4/M82	0.98184	1
1-3/M82	0.89272	0.441
2-1-1/M82	1.10362	0.764
2-1/M82	1.07247	1
2-6/M82	1.03292	0.594
3-2/M82	0.98335	1
4-1-1/M82	0.96029	1
4-1/M82	0.61586	1
4-3-2/M82	0.93004	1
4-3/M82	0.88636	0.611
5-3/M82	1.07904	0.572
6-2/M82	1.0673	1
6-3/M82	1.01791	1
7-1/M82	0.98486	1
7-2/M82	1.02541	1
9-3-2/M82	0.90984	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.23975
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.21962	0.502
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.87795	0.476
WT/WTpooled	N/A	N/A

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	0.86059	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02929	0.914
DC3000/delta hrp 6h	1.27808	1
DC3000/delta hrp 12h	0.99159	1
DC3000/delta hrp 24h	1.0141	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06972	0.183
DC3000 delta B/DC3000 delta AB	1.08934	0.368

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.61082	0.504
Exp 60h	0.82357	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01414	1
Var 0h	0.95263	0.196
Var 12h I row2-row1	1.04661	0.654
Var 12h NI row2-row1	1.00629	1
Var 36h I row2-row1	0.9965	1
Var 36h NI row2-row1	0.92124	0.645
Var 60h I row2-row1	1.18756	1
Var 60h NI row2-row1	1.19409	0.904
Time course 0hI-0hNI	1.04646	0.852
Time course 12hI-12hNI	1.07058	0.611
Time course 36hI-36hNI	1.02556	0.722
Time course 60hI-60hNI	1.20613	0.01

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)	0.83071	0.314
transgenic ySAMdc/azygous control (breaker)	1.00688	1
transgenic ySAMdc/azygous control (red)	0.98309	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00079	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28453	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9992	1
Manapal/WT (break)	0.77182	0.333
Manapal/WT (red)	0.79097	0.274