Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.18.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.86961	0.24
27DAP/17DAP	1.31017	0.804
39DAP/27DAP	1.17954	1
41DAP/39DAP	0.83545	0.455
42DAP/41DAP	0.85782	1
43DAP/42DAP	0.99764	0.934
47DAP/43DAP	0.84188	0.499
52DAP/47DAP	0.81677	0.534
57DAP/52DAP	1.00924	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99781	0.787
17DAP/reference	1.11141	0.061
27DAP/reference	0.99972	0.923
39DAP/reference	1.0201	0.465
41DAP/reference	1.0758	0.158
42DAP/reference	1.00184	0.665
43DAP/reference	1.00475	0.982
47DAP/reference	1.04386	0.284
52DAP/reference	0.91366	0.25
57DAP/reference	0.88753	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93086	0.415
27DAP/17DAP	0.92129	0.047
39DAP/27DAP	1.0682
41DAP/39DAP	1.01105	0.883
42DAP/41DAP	1.02712	0.947
43DAP/42DAP	1.05581	0.478
47DAP/43DAP	1.00024	1
52DAP/47DAP	1.01276	0.956
57DAP/52DAP	1.02745	0.933
57DAP/7DAP	0.95614	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83457	0.115
17DAP/reference	0.73498	0.011
27DAP/reference	0.74351	0.016
39DAP/reference	0.76999	0.012
41DAP/reference	0.79023	0.034
42DAP/reference	0.72085	0.017
43DAP/reference	0.69052	0.011
47DAP/reference	0.76779	0.038
52DAP/reference	0.76719	0.019
57DAP/reference	0.79063	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9225	0.362
17DAP/reference	0.99996	0.83
27DAP/reference	0.90187	0.144
39DAP/reference	0.98266	0.526
41DAP/reference	0.92062	0.173
42DAP/reference	0.85651	0.019
43DAP/reference	1.09949	0.288
47DAP/reference	0.90986	0.05
52DAP/reference	1.01627	0.838
57DAP/reference	0.97536	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7421	0.032
17DAP/reference	0.857	0.073
27DAP/reference	0.77935	0.033
39DAP/reference	0.78446	0.033
41DAP/reference	0.80727	0.037
42DAP/reference	0.66945	0.015
43DAP/reference	0.79104	0.054
47DAP/reference	0.93726	0.269
52DAP/reference	0.73609	0.125
57DAP/reference	0.70691	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03355	0.966
26DAP/20DAP	0.95294	1
34DAP/26DAP	1.01224	1
51DAP/34DAP	1.05448	0.677
52DAP/51DAP	0.98056	1
53DAP/52DAP	1.05245	0.797
55DAP/53DAP	0.94981	0.293
57DAP/55DAP	1.09865	0.222
62DAP/57DAP	0.96139	0.871
68DAP/62DAP	1.118	0.845
68DAP/14DAP	0.95884	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94863	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86912	0.356
Mature Green Tomato/Ripe Tomato	0.89856	0.038
Immature Eggplant/Mature Eggplant	0.85298	0.223
Ripe Pepper/Ripe Tomato	3.58028	1
Mature Eggplant/Ripe Tomato	1.50893	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11511	1
1-1-2/M82	1.26593	1
12-2/M82	0.97904	0.955
12-4/M82	1.40715	1
1-3/M82	0.94212	0.378
2-1-1/M82	1.10546	1
2-1/M82	1.07557	1
2-6/M82	1.09997	0.594
3-2/M82	1.01217
4-1-1/M82	1.04082	1
4-1/M82	1.43483
4-3-2/M82	1.23348	0.508
4-3/M82	0.94356	1
5-3/M82	1.00796	1
6-2/M82	0.98381	1
6-3/M82	1.00047	1
7-1/M82	N/A	N/A
7-2/M82	1.03011	1
9-3-2/M82	1.45965	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07583	0.493
IL2-6/WTpooled	0.58511	0.383
IL7-5/WTpooled	0.60386	1
IL7-3/WTpooled	1.1446	1
IL12-4/WTpooled	1.31276	0.595
IL1-4/WTpooled	1.00673	1
WT/WTpooled	1.04728	0.999

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	0.77455	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.003	1
DC3000/delta hrp 6h	0.96081	0.95
DC3000/delta hrp 12h	1.01205	1
DC3000/delta hrp 24h	1.11867	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0655	0.29
DC3000 delta B/DC3000 delta AB	1.09751	0.308

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24056	1
Exp 36h	0.88986	0.589
Exp 60h	1.02838	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99601	1
Var 0h	0.95074	1
Var 12h I row2-row1	1.03783	0.443
Var 12h NI row2-row1	1.57301	1
Var 36h I row2-row1	1.65412	1
Var 36h NI row2-row1	1.09604	1
Var 60h I row2-row1	0.68671	0.832
Var 60h NI row2-row1	1.14962	0.904
Time course 0hI-0hNI	0.96104	0.771
Time course 12hI-12hNI	0.99123	0.991
Time course 36hI-36hNI	0.97512	0.494
Time course 60hI-60hNI	0.82528	0.047

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)	0.92091	0.315
transgenic ySAMdc/azygous control (breaker)	0.86149	0.131
transgenic ySAMdc/azygous control (red)	1.03979	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97762	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20666	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.64373	0.088
Manapal/WT (break)	0.98046	1
Manapal/WT (red)	1.06906	1