Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.16.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04565	0.912
27DAP/17DAP	0.81829	0.392
39DAP/27DAP	0.95965	0.663
41DAP/39DAP	0.86331	0.52
42DAP/41DAP	0.94896	1
43DAP/42DAP	1.22227	0.768
47DAP/43DAP	0.94945	0.64
52DAP/47DAP	1.42665	0.61
57DAP/52DAP	1.04092	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06631	0.403
17DAP/reference	1.05551	0.457
27DAP/reference	1.01042	0.934
39DAP/reference	0.98746	0.828
41DAP/reference	0.99539	1
42DAP/reference	0.85714	0.006
43DAP/reference	0.90681	0.18
47DAP/reference	0.9103	0.027
52DAP/reference	0.87633	0.111
57DAP/reference	0.95822	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01848	1
27DAP/17DAP	0.89899	0.475
39DAP/27DAP	0.7754	0.113
41DAP/39DAP	1.3007	0.061
42DAP/41DAP	0.90072	0.332
43DAP/42DAP	0.69571	0.039
47DAP/43DAP	1.07534	0.69
52DAP/47DAP	1.18384	0.589
57DAP/52DAP	1.08549	0.997
57DAP/7DAP	0.79169	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66472	0.027
17DAP/reference	1.18893	0.328
27DAP/reference	1.12614	0.035
39DAP/reference	0.95757	0.354
41DAP/reference	1.03157	0.918
42DAP/reference	0.93922	0.248
43DAP/reference	1.00389	0.694
47DAP/reference	0.90128	0.101
52DAP/reference	0.97268	0.398
57DAP/reference	0.75827	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13522	0.175
17DAP/reference	1.14158	0.011
27DAP/reference	1.08557	0.618
39DAP/reference	0.96382	0.381
41DAP/reference	0.92956	0.133
42DAP/reference	0.84773	0.073
43DAP/reference	0.83111	0.036
47DAP/reference	0.8957	0.04
52DAP/reference	1.06798	0.471
57DAP/reference	0.94762	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33418	0.098
17DAP/reference	1.03714	0.775
27DAP/reference	1.16373	0.088
39DAP/reference	1.01333	0.858
41DAP/reference	1.00289	0.826
42DAP/reference	1.04948	0.743
43DAP/reference	0.93246	0.348
47DAP/reference	0.84188	0.041
52DAP/reference	0.91925	0.444
57DAP/reference	0.84771	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00064	1
26DAP/20DAP	0.96672	1
34DAP/26DAP	1.32938	0.542
51DAP/34DAP	0.8384	0.579
52DAP/51DAP	1.32461	0.596
53DAP/52DAP	0.83113	0.553
55DAP/53DAP	1.0185	0.917
57DAP/55DAP	1.04211	0.961
62DAP/57DAP	1.05869	1
68DAP/62DAP	1.0376	0.984
68DAP/14DAP	0.82488	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.43536	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	11.3107
Mature Green Tomato/Ripe Tomato	1.22844	0.437
Immature Eggplant/Mature Eggplant	0.57154	0.063
Ripe Pepper/Ripe Tomato	0.29087	0.224
Mature Eggplant/Ripe Tomato	1.84729	0.26

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	0.85184	0.619
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	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	N/A	N/A
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	0.91421	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00536	1
DC3000/delta hrp 6h	0.96444	0.95
DC3000/delta hrp 12h	1.03118	1
DC3000/delta hrp 24h	1.02019	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.57784	0.232
DC3000 delta B/DC3000 delta AB	0.59397	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	3.21249	0.693
Exp 60h	0.94761	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96782	1
Var 0h	0.89983	0.933
Var 12h I row2-row1	0.87137	0.627
Var 12h NI row2-row1	0.87996	0.394
Var 36h I row2-row1	1.19769	1
Var 36h NI row2-row1	1.043	1
Var 60h I row2-row1	1.298	0.407
Var 60h NI row2-row1	0.97493	1
Time course 0hI-0hNI	0.89336	0.274
Time course 12hI-12hNI	1.07518	0.233
Time course 36hI-36hNI	0.82068	0.054
Time course 60hI-60hNI	0.28927	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)	1.19307	0.384
transgenic ySAMdc/azygous control (breaker)	0.62007	0.137
transgenic ySAMdc/azygous control (red)	0.99677	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90655	0.078

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75573	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0558	1
Manapal/WT (break)	0.67325	0.333
Manapal/WT (red)	1.00361	1