Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.98142	0.272
27DAP/17DAP	0.5106	0.061
39DAP/27DAP	1.49174	0.548
41DAP/39DAP	1.17347	0.814
42DAP/41DAP	1.78833	0.177
43DAP/42DAP	1.54719	0.772
47DAP/43DAP	0.7856	0.369
52DAP/47DAP	0.44433	0.048
57DAP/52DAP	1.3943	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42354	0.587
17DAP/reference	0.35582
27DAP/reference	0.43235	0.005
39DAP/reference	0.44002
41DAP/reference	0.55741
42DAP/reference	1.77442	0.137
43DAP/reference	N/A	N/A
47DAP/reference	2.9361	0.306
52DAP/reference	0.46695	0.183
57DAP/reference	0.86078	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90237	0.428
27DAP/17DAP	1.24714	0.537
39DAP/27DAP	0.84335	0.334
41DAP/39DAP	2.74547	0.098
42DAP/41DAP	1.03612	0.795
43DAP/42DAP	1.29847	0.413
47DAP/43DAP	1.32213	0.396
52DAP/47DAP	2.15706	0.052
57DAP/52DAP	0.48601	0.052
57DAP/7DAP	1.30268	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.03397	0.024
17DAP/reference	1.69288	0.004
27DAP/reference	0.95882	0.402
39DAP/reference	1.59147	0.016
41DAP/reference	2.41959	0.01
42DAP/reference	1.72221	0.03
43DAP/reference	1.94103	0.006
47DAP/reference	1.75657	0.019
52DAP/reference	0.84046	0.196
57DAP/reference	0.8903	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.63191	0.284
17DAP/reference	2.57527	0.007
27DAP/reference	2.01143	0.692
39DAP/reference	1.21242	1
41DAP/reference	3.96349	0.003
42DAP/reference	1.66622	0.027
43DAP/reference	1.14724	0.45
47DAP/reference	2.58523	0.008
52DAP/reference	1.08165	0.838
57DAP/reference	1.23839	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	2.34452	0.398
27DAP/reference	0.85125	0.218
39DAP/reference	1.80144	0.018
41DAP/reference	1.19672	0.02
42DAP/reference	4.07405	0.032
43DAP/reference	2.71317	0.007
47DAP/reference	2.67519	0.006
52DAP/reference	3.05981	0.029
57DAP/reference	1.22442	0.717

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.81997	0.915
26DAP/20DAP	0.97055	1
34DAP/26DAP	1.26418	0.542
51DAP/34DAP	0.93452	0.674
52DAP/51DAP	1.31603	0.033
53DAP/52DAP	1.02748	0.938
55DAP/53DAP	1.08941	0.696
57DAP/55DAP	0.99396	0.845
62DAP/57DAP	1.20403	0.445
68DAP/62DAP	0.81656	0.505
68DAP/14DAP	0.48653

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	21.6247	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.17387	0.69
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.05989	0.224
Mature Eggplant/Ripe Tomato	0.09532	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	2.03976	0.43
1-1-2/M82	1.07776	1
12-2/M82	0.95983	0.955
12-4/M82	0.97807	1
1-3/M82	1.69281	0.479
2-1-1/M82	0.87799	0.465
2-1/M82	0.9438	1
2-6/M82	0.9415	1
3-2/M82	N/A	N/A
4-1-1/M82	1.04117	1
4-1/M82	0.87471
4-3-2/M82	2.04664
4-3/M82	0.90522	0.72
5-3/M82	0.99447	1
6-2/M82	1.14532	1
6-3/M82	0.89913	0.982
7-1/M82	0.97957	1
7-2/M82	0.28356	0.565
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	1.04	0.891
IL1-4/WTpooled	0.90087	0.834
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	1.81689	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99621	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09088	1
DC3000/delta hrp 24h	0.82692	0.072

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.07265	0.042
DC3000 delta B/DC3000 delta AB	3.97807	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	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97598	1
Var 0h	0.91387	1
Var 12h I row2-row1	0.95079	0.856
Var 12h NI row2-row1	2.44409	0.235
Var 36h I row2-row1	1.66765	0.489
Var 36h NI row2-row1	0.45844	0.478
Var 60h I row2-row1	0.89728	0.832
Var 60h NI row2-row1	0.59421	0.329
Time course 0hI-0hNI	1.61565	0.603
Time course 12hI-12hNI	1.53889	0.567
Time course 36hI-36hNI	9.37658	0.004
Time course 60hI-60hNI	104.71	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)	0.8578	0.237
transgenic ySAMdc/azygous control (breaker)	0.43047	0.132
transgenic ySAMdc/azygous control (red)	1.25092	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85276	0.126

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88152	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.2144	0.181