Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.4.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.71976	0.057
27DAP/17DAP	0.96838	0.945
39DAP/27DAP	1.16444	0.787
41DAP/39DAP	0.88412	0.533
42DAP/41DAP	0.84806	0.774
43DAP/42DAP	1.13175	0.991
47DAP/43DAP	0.98292	0.904
52DAP/47DAP	0.84033	0.598
57DAP/52DAP	1.27268	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18681	0.059
17DAP/reference	0.99996	0.858
27DAP/reference	1.04087	0.794
39DAP/reference	1.01356	0.903
41DAP/reference	0.74947	0.085
42DAP/reference	1.00732	1
43DAP/reference	1.04332	0.518
47DAP/reference	1.24045	0.052
52DAP/reference	1.22678	0.021
57DAP/reference	1.22391	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75221	0.03
27DAP/17DAP	1.22175	0.339
39DAP/27DAP	1.05746	0.758
41DAP/39DAP	0.9463	0.885
42DAP/41DAP	1.08644	0.601
43DAP/42DAP	1.05896	0.413
47DAP/43DAP	0.9847	0.928
52DAP/47DAP	1.01414	0.991
57DAP/52DAP	1.01904	0.978
57DAP/7DAP	0.77247	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92197	0.27
17DAP/reference	0.90615	0.167
27DAP/reference	1.02913	0.748
39DAP/reference	0.89701	0.307
41DAP/reference	0.98895	0.646
42DAP/reference	1.03091	1
43DAP/reference	0.86121	0.04
47DAP/reference	1.04427	1
52DAP/reference	0.96417	0.477
57DAP/reference	1.05866	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86399	0.096
17DAP/reference	1.0371	0.898
27DAP/reference	1.05054	0.933
39DAP/reference	1.01032	1
41DAP/reference	0.98906	0.631
42DAP/reference	1.15945	0.029
43DAP/reference	0.69917	0.035
47DAP/reference	0.97559	0.4
52DAP/reference	0.77779	0.021
57DAP/reference	0.66326	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01581	0.984
17DAP/reference	1.01938	0.833
27DAP/reference	0.98077	0.624
39DAP/reference	1.0879	0.633
41DAP/reference	0.95222	0.512
42DAP/reference	1.12986	0.272
43DAP/reference	1.13259	0.515
47DAP/reference	0.96555	0.465
52DAP/reference	0.91766	0.464
57DAP/reference	1.53665	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9646	1
26DAP/20DAP	1.76539	0.107
34DAP/26DAP	0.80411	0.186
51DAP/34DAP	1.38802	0.037
52DAP/51DAP	0.87899	1
53DAP/52DAP	1.15005	0.138
55DAP/53DAP	0.84876	0.048
57DAP/55DAP	1.29982	0.149
62DAP/57DAP	0.95558	0.994
68DAP/62DAP	1.32465	0.464
68DAP/14DAP	1.99955	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91061	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70615	0.188
Mature Green Tomato/Ripe Tomato	0.97372	0.611
Immature Eggplant/Mature Eggplant	1.11933	0.092
Ripe Pepper/Ripe Tomato	1.19686	1
Mature Eggplant/Ripe Tomato	1.09318	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.81651	0.907
1-1-2/M82	1.00318	1
12-2/M82	0.91784	0.955
12-4/M82	1.16477	1
1-3/M82	1.5385	0.277
2-1-1/M82	1.05722	0.764
2-1/M82	0.85902	0.74
2-6/M82	1.06144	0.594
3-2/M82	1.43309	0.717
4-1-1/M82	1.17084	1
4-1/M82	1.27729	1
4-3-2/M82	1.14615	1
4-3/M82	1.33643	0.268
5-3/M82	0.99282	1
6-2/M82	1.06675
6-3/M82	0.82207
7-1/M82	1.14145	0.925
7-2/M82	1.09629	1
9-3-2/M82	0.83144	0.355

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	0.8563	1
IL12-4/WTpooled	0.96981	1
IL1-4/WTpooled	0.72482	0.699
WT/WTpooled	1.03501	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	1.01991	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08613	0.692
DC3000/delta hrp 6h	0.92001	0.95
DC3000/delta hrp 12h	1.10143	1
DC3000/delta hrp 24h	1.06433	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.23285	0.053
DC3000 delta B/DC3000 delta AB	1.36921	0.107

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97878	1
Exp 36h	1.2395	0.489
Exp 60h	1.34954	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.70865
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.0887	0.748
transgenic ySAMdc/azygous control (breaker)	1.02365	1
transgenic ySAMdc/azygous control (red)	1.08689	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99563	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58354	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.181	0.105
Manapal/WT (break)	1.1347	1
Manapal/WT (red)	1.09541	1