Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.6.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04262	0.975
27DAP/17DAP	0.95821	0.947
39DAP/27DAP	1.06627	0.82
41DAP/39DAP	1.22384	0.663
42DAP/41DAP	1.32137	0.929
43DAP/42DAP	1.19197	0.976
47DAP/43DAP	0.83454	0.492
52DAP/47DAP	1.03606	0.938
57DAP/52DAP	1.19141	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76615	0.027
17DAP/reference	0.86947	0.046
27DAP/reference	0.9956	0.797
39DAP/reference	1.05488	0.504
41DAP/reference	0.94706	0.341
42DAP/reference	0.91704	0.046
43DAP/reference	1.08704	0.133
47DAP/reference	1.09381	0.284
52DAP/reference	1.08673	0.176
57DAP/reference	1.2654	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4953	0.142
27DAP/17DAP	0.5663	0.121
39DAP/27DAP	1.00992	1
41DAP/39DAP	1.00238	1
42DAP/41DAP	0.94434	0.803
43DAP/42DAP	0.86941	0.336
47DAP/43DAP	1.0536	0.906
52DAP/47DAP	0.96926	0.899
57DAP/52DAP	0.96905	0.763
57DAP/7DAP	1.03786	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81517	0.122
17DAP/reference	0.81025	0.016
27DAP/reference	0.98213	0.53
39DAP/reference	0.68372	0.011
41DAP/reference	0.99096	0.512
42DAP/reference	0.93105	0.355
43DAP/reference	0.76558	0.079
47DAP/reference	1.09137	0.776
52DAP/reference	1.01082	0.74
57DAP/reference	0.87601	0.156

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7643	0.028
17DAP/reference	0.83312	0.021
27DAP/reference	0.88102	0.134
39DAP/reference	0.92574	0.097
41DAP/reference	1.05215	0.846
42DAP/reference	0.99132	0.594
43DAP/reference	0.97383	0.494
47DAP/reference	1.02073	0.775
52DAP/reference	1.17549	0.259
57DAP/reference	0.95353	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82845	0.112
17DAP/reference	1.10687	0.792
27DAP/reference	1.34128	0.596
39DAP/reference	0.80651	0.05
41DAP/reference	0.99824	0.754
42DAP/reference	0.97259	0.671
43DAP/reference	0.90039	0.15
47DAP/reference	0.93881	0.357
52DAP/reference	0.87277	0.351
57DAP/reference	1.00278	0.801

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96832	1
26DAP/20DAP	0.65321	0.223
34DAP/26DAP	0.93912	0.848
51DAP/34DAP	0.68184	0.442
52DAP/51DAP	0.80225	1
53DAP/52DAP	0.82005	0.21
55DAP/53DAP	0.79918	0.188
57DAP/55DAP	1.31675	0.955
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.40336	0.06
68DAP/14DAP	3.2589

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.29135	0.019

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	0.10104
Ripe Pepper/Ripe Tomato	0.23561
Mature Eggplant/Ripe Tomato	63.7318

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06659	1
1-1-2/M82	1.32868
12-2/M82	N/A	N/A
12-4/M82	1.68614
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	1.07876	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.77882	0.427
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.06582
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	1.27007

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08032	0.823
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.27446	1
DC3000/delta hrp 24h	1.02555	0.743

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	0.9998	1
Exp 36h	1.03162	0.943
Exp 60h	0.98402	0.994

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	1.09599
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	1.09786
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.90354
Var 60h NI row2-row1	0.68023
Time course 0hI-0hNI	1.0159	1
Time course 12hI-12hNI	1.04171	0.786
Time course 36hI-36hNI	1.03444
Time course 60hI-60hNI	0.86145	0.646

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)	0.86718	0.428
transgenic ySAMdc/azygous control (breaker)	0.9504	1
transgenic ySAMdc/azygous control (red)	0.9608	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07505	0.089

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)	1.02765	1
Manapal/WT (break)	1.1151	1
Manapal/WT (red)	1.17094	1