Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.6.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86289	0.364
27DAP/17DAP	1.13367	0.849
39DAP/27DAP	0.88451	0.487
41DAP/39DAP	0.90604	0.574
42DAP/41DAP	0.88004	1
43DAP/42DAP	1.28055	0.636
47DAP/43DAP	0.79052	0.34
52DAP/47DAP	0.91366	0.746
57DAP/52DAP	1.03825	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9503	0.39
17DAP/reference	1.24859	0.044
27DAP/reference	0.87949	0.101
39DAP/reference	1.08052	0.423
41DAP/reference	1.02947	0.963
42DAP/reference	0.88013	0.085
43DAP/reference	1.00852	0.882
47DAP/reference	0.81858	0.004
52DAP/reference	0.84897	0.121
57DAP/reference	0.86209	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31802	0.508
27DAP/17DAP	0.94763	0.887
39DAP/27DAP	1.13159	0.553
41DAP/39DAP	1.14408	0.817
42DAP/41DAP	0.84796	0.322
43DAP/42DAP	0.9662	0.774
47DAP/43DAP	1.01259	0.998
52DAP/47DAP	1.24661	0.498
57DAP/52DAP	1.01334	0.902
57DAP/7DAP	0.80185

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95474	0.495
17DAP/reference	0.87196	0.253
27DAP/reference	0.8652	0.094
39DAP/reference	0.75728	0.083
41DAP/reference	0.64352	0.017
42DAP/reference	0.88311	0.055
43DAP/reference	0.99547	0.58
47DAP/reference	0.99534	1
52DAP/reference	0.88444	0.213
57DAP/reference	1.00194	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20945	0.319
17DAP/reference	1.16931	0.166
27DAP/reference	0.99565	0.663
39DAP/reference	0.95501	0.381
41DAP/reference	0.80488	0.063
42DAP/reference	0.84749	0.15
43DAP/reference	0.97131	0.552
47DAP/reference	0.90994	0.073
52DAP/reference	1.2077	0.3
57DAP/reference	0.93378	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93956	0.422
17DAP/reference	1.1123	0.228
27DAP/reference	1.00483	0.805
39DAP/reference	1.08249	0.563
41DAP/reference	0.99845	1
42DAP/reference	0.91645	0.361
43DAP/reference	0.76265	0.131
47DAP/reference	1.08098	0.73
52DAP/reference	0.91287	0.482
57DAP/reference	0.72324	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02645	1
26DAP/20DAP	0.84705	0.512
34DAP/26DAP	0.91093	0.909
51DAP/34DAP	0.8767	0.611
52DAP/51DAP	1.02593	1
53DAP/52DAP	0.97387	0.882
55DAP/53DAP	1.12068	0.798
57DAP/55DAP	0.98689	0.94
62DAP/57DAP	1.13313	0.902
68DAP/62DAP	1.07072	0.907
68DAP/14DAP	1.00677

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.02825	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.21039	0.814
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.89467
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	0.72542
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	0.85789
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79266	0.321
IL2-6/WTpooled	0.93728	1
IL7-5/WTpooled	1.2036	1
IL7-3/WTpooled	0.87415	0.418
IL12-4/WTpooled	0.95664	1
IL1-4/WTpooled	0.94271	0.834
WT/WTpooled	0.87184	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	1.49675	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.84289	0.921
DC3000/delta hrp 6h	0.1206
DC3000/delta hrp 12h	0.91876	1
DC3000/delta hrp 24h	1.22678

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	0.96961	1
Exp 36h	1.58602	1
Exp 60h	0.78826	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.12329
Var 0h	1.07832	0.98
Var 12h I row2-row1	1.12902	0.544
Var 12h NI row2-row1	1.10198
Var 36h I row2-row1	4.32324	0.908
Var 36h NI row2-row1	1.03946	1
Var 60h I row2-row1	1.2499	0.562
Var 60h NI row2-row1	0.72122	1
Time course 0hI-0hNI	1.01444	1
Time course 12hI-12hNI	1.23	0.517
Time course 36hI-36hNI	0.97507	0.549
Time course 60hI-60hNI	1.17725	0.495

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)	1.00702	0.921
transgenic ySAMdc/azygous control (breaker)	0.99174	1
transgenic ySAMdc/azygous control (red)	1.17876	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96648	0.181

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)	1.08421	1
Manapal/WT (break)	1.08751	1
Manapal/WT (red)	1.76195	0.413