Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.3.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13751	0.534
27DAP/17DAP	1.11817	0.881
39DAP/27DAP	1.10583	0.838
41DAP/39DAP	0.97702	0.868
42DAP/41DAP	1.18918	0.772
43DAP/42DAP	0.86017	0.495
47DAP/43DAP	1.08765	0.856
52DAP/47DAP	1.07854	0.989
57DAP/52DAP	1.06481	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01557	0.824
17DAP/reference	0.99063	0.777
27DAP/reference	1.13694	0.348
39DAP/reference	1.19513	0.046
41DAP/reference	1.34776	0.158
42DAP/reference	1.36247	0.002
43DAP/reference	N/A	N/A
47DAP/reference	1.14388	0.06
52DAP/reference	1.05915	0.791
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84292	0.311
27DAP/17DAP	1.04746	1
39DAP/27DAP	1.23491	0.194
41DAP/39DAP	0.99746	1
42DAP/41DAP	0.9933	0.869
43DAP/42DAP	1.0347	0.699
47DAP/43DAP	1.07663	0.772
52DAP/47DAP	0.9159	0.645
57DAP/52DAP	1.00123	0.897
57DAP/7DAP	0.67094	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75696	0.066
17DAP/reference	0.80402	0.015
27DAP/reference	0.82316	0.01
39DAP/reference	0.74958	0.011
41DAP/reference	0.67863	0.013
42DAP/reference	0.72026	0.01
43DAP/reference	0.65446	0.009
47DAP/reference	0.87412	0.383
52DAP/reference	0.66899	0.014
57DAP/reference	0.71292	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31441	0.051
17DAP/reference	1.40596	0.014
27DAP/reference	1.25977	0.026
39DAP/reference	1.09589	0.477
41DAP/reference	1.26085	0.138
42DAP/reference	1.15152	0.445
43DAP/reference	1.47027	0.028
47DAP/reference	0.99934	0.749
52DAP/reference	1.24718	0.029
57DAP/reference	1.50689	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91869	0.29
17DAP/reference	1.02635	0.966
27DAP/reference	0.75849	0.043
39DAP/reference	0.75565	0.013
41DAP/reference	0.84343	0.05
42DAP/reference	0.88204	0.172
43DAP/reference	0.76643	0.022
47DAP/reference	1.17295	0.179
52DAP/reference	0.89704	0.376
57DAP/reference	0.96268	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14725	0.966
26DAP/20DAP	0.75297	0.317
34DAP/26DAP	0.93957	0.753
51DAP/34DAP	1.14943	0.869
52DAP/51DAP	1.09822	0.556
53DAP/52DAP	0.86448	0.417
55DAP/53DAP	1.11754	0.917
57DAP/55DAP	0.97069	0.839
62DAP/57DAP	0.90403	0.871
68DAP/62DAP	0.75247	0.406
68DAP/14DAP	0.76403	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27214	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.7909	0.045
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.53483	0.293
Mature Eggplant/Ripe Tomato	0.69904	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91824	0.934
1-1-2/M82	1.07936	1
12-2/M82	1.20659
12-4/M82	1.16989	0.694
1-3/M82	0.83481	0.378
2-1-1/M82	1.03589
2-1/M82	N/A	N/A
2-6/M82	1.01832
3-2/M82	1.58691
4-1-1/M82	1.08295
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.08624
5-3/M82	1.03227	1
6-2/M82	1.00445
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.25833
9-3-2/M82	1.22191	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97016	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.85147	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.04883	1
WT/WTpooled	1.60977

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	1.40842	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98234	1
DC3000/delta hrp 6h	0.71489
DC3000/delta hrp 12h	1.10587	1
DC3000/delta hrp 24h	0.97281	0.851

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.42904
DC3000 delta B/DC3000 delta AB	1.23661	0.412

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.29726	1
Exp 36h	1.10516	0.693
Exp 60h	1.30045	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96859	1
Var 0h	0.90881	0.782
Var 12h I row2-row1	1.09369	0.348
Var 12h NI row2-row1	1.08802
Var 36h I row2-row1	0.97123	1
Var 36h NI row2-row1	0.71349	1
Var 60h I row2-row1	0.81682	0.285
Var 60h NI row2-row1	0.89489	0.932
Time course 0hI-0hNI	1.10964	0.413
Time course 12hI-12hNI	1.49457	0.008
Time course 36hI-36hNI	1.8866	0.004
Time course 60hI-60hNI	3.41784	0.008

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)	1.01245	0.748
transgenic ySAMdc/azygous control (breaker)	1.21317	0.178
transgenic ySAMdc/azygous control (red)	0.95994	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02104	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74389	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88062	0.172
Manapal/WT (break)	0.96117	1
Manapal/WT (red)	1.13347	1