Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.1.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1007	0.891
27DAP/17DAP	1.31104	0.785
39DAP/27DAP	0.94232	0.7
41DAP/39DAP	0.90758	N/A
42DAP/41DAP	0.94404	1
43DAP/42DAP	1.41798	0.47
47DAP/43DAP	1.09448	0.776
52DAP/47DAP	1.76992	0.403
57DAP/52DAP	1.05094	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33835	0.008
17DAP/reference	0.95181	0.298
27DAP/reference	0.9644	0.349
39DAP/reference	0.87702	0.093
41DAP/reference	0.91212	0.201
42DAP/reference	1.37447	0.001
43DAP/reference	1.05898	0.547
47DAP/reference	1.16541	0.005
52DAP/reference	1.07384	0.302
57DAP/reference	0.94687	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99578	0.732
27DAP/17DAP	0.89332	0.748
39DAP/27DAP	1.10402	0.611
41DAP/39DAP	1.10395	0.735
42DAP/41DAP	1.09614	0.924
43DAP/42DAP	1.0839	0.585
47DAP/43DAP	1.00409	0.961
52DAP/47DAP	0.82209	0.265
57DAP/52DAP	1.1266	0.722
57DAP/7DAP	1.16571	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93175	0.326
17DAP/reference	0.79573	0.016
27DAP/reference	0.89146	0.135
39DAP/reference	0.7816	0.056
41DAP/reference	0.7193	0.024
42DAP/reference	0.7336	0.01
43DAP/reference	0.75815	0.011
47DAP/reference	1.05306	1
52DAP/reference	0.69806	0.012
57DAP/reference	0.94113	0.207

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.103	0.35
17DAP/reference	1.2	0.079
27DAP/reference	1.20332	0.05
39DAP/reference	1.12005	0.155
41DAP/reference	1.0922	0.525
42DAP/reference	1.10021	0.455
43DAP/reference	0.90649	0.285
47DAP/reference	1.32641	0.02
52DAP/reference	0.96346	0.302
57DAP/reference	1.16879	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90369	0.127
17DAP/reference	0.97912	0.658
27DAP/reference	0.89998	0.113
39DAP/reference	0.7781	0.02
41DAP/reference	0.7934	0.148
42DAP/reference	0.9728	0.552
43DAP/reference	1.16246	0.362
47DAP/reference	1.02231	1
52DAP/reference	1.22099	0.601
57DAP/reference	1.53263	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80509	0.708
26DAP/20DAP	1.17075	0.53
34DAP/26DAP	0.875	0.575
51DAP/34DAP	1.18262	0.637
52DAP/51DAP	1.02362	1
53DAP/52DAP	0.95169	0.876
55DAP/53DAP	1.14235	0.689
57DAP/55DAP	1.16837	0.927
62DAP/57DAP	1.08226	0.902
68DAP/62DAP	0.91563	0.7
68DAP/14DAP	0.77409	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.06142	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.11411	0.176
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.53124	0.05
Ripe Pepper/Ripe Tomato	0.67578	0.224
Mature Eggplant/Ripe Tomato	1.62309	1

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	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	0.89647	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.51422	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.15836	0.785
IL1-4/WTpooled	0.92534	0.834
WT/WTpooled	1.09766	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	1.16002	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09672	0.921
DC3000/delta hrp 6h	1.18864	1
DC3000/delta hrp 12h	1.15768	1
DC3000/delta hrp 24h	1.19437	0.84

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	1.03392	1
Exp 36h	1.05091	1
Exp 60h	1.00686	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01754	1
Var 0h	0.99766	1
Var 12h I row2-row1	0.9274	0.856
Var 12h NI row2-row1	0.77314	0.438
Var 36h I row2-row1	0.97156	1
Var 36h NI row2-row1	1.8031	1
Var 60h I row2-row1	0.74259	0.582
Var 60h NI row2-row1	1.26044	1
Time course 0hI-0hNI	1.18832	0.833
Time course 12hI-12hNI	1.13062	0.816
Time course 36hI-36hNI	0.90319	0.269
Time course 60hI-60hNI	1.01328	1

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)	1.11082	0.278
transgenic ySAMdc/azygous control (breaker)	0.70932	0.137
transgenic ySAMdc/azygous control (red)	1.12768	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.31566	0.071

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.60808	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8877	0.172
Manapal/WT (break)	0.88339	1
Manapal/WT (red)	N/A	N/A