Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.11.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21875	0.452
27DAP/17DAP	0.80179	0.572
39DAP/27DAP	0.88128	0.573
41DAP/39DAP	1.35008	0.584
42DAP/41DAP	1.06664	0.962
43DAP/42DAP	0.96691	0.906
47DAP/43DAP	1.02796	0.98
52DAP/47DAP	1.21155	0.615
57DAP/52DAP	0.8441	0.79

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90564	0.149
17DAP/reference	1.09091	0.074
27DAP/reference	1.06763	0.365
39DAP/reference	1.11644	0.368
41DAP/reference	1.06406	0.516
42DAP/reference	0.92482	0.12
43DAP/reference	1.25214	0.03
47DAP/reference	1.0254	0.989
52DAP/reference	0.96453	0.475
57DAP/reference	0.94022	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97548	0.716
27DAP/17DAP	1.12031	0.554
39DAP/27DAP	1.16501	0.262
41DAP/39DAP	1.04518	0.896
42DAP/41DAP	0.99708	0.887
43DAP/42DAP	1.11173	0.513
47DAP/43DAP	1.16759	0.231
52DAP/47DAP	0.96101	0.797
57DAP/52DAP	1.15348	0.533
57DAP/7DAP	1.48139	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9278	0.183
17DAP/reference	0.79576	0.011
27DAP/reference	0.86898	0.031
39DAP/reference	0.7149	0.011
41DAP/reference	0.66286	0.013
42DAP/reference	0.74335	0.053
43DAP/reference	0.72616	0.016
47DAP/reference	0.87206	0.293
52DAP/reference	0.74247	0.015
57DAP/reference	0.76035	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23587	0.053
17DAP/reference	0.98656	0.642
27DAP/reference	1.11061	0.822
39DAP/reference	0.99822	0.603
41DAP/reference	1.01165	0.735
42DAP/reference	1.00807	0.723
43DAP/reference	1.29402	0.076
47DAP/reference	1.08847	0.017
52DAP/reference	0.81322	0.006
57DAP/reference	1.06373	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89537	0.057
17DAP/reference	0.98678	0.727
27DAP/reference	0.90335	0.069
39DAP/reference	0.85978	0.076
41DAP/reference	0.92575	0.043
42DAP/reference	0.92106	0.172
43DAP/reference	0.78738	0.025
47DAP/reference	1.22336	0.007
52DAP/reference	1.12693	0.526
57DAP/reference	0.96879	0.516

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09174	0.966
26DAP/20DAP	1.11542	0.744
34DAP/26DAP	0.98576	1
51DAP/34DAP	1.00679	0.937
52DAP/51DAP	1.36145	0.09
53DAP/52DAP	1.00747	0.944
55DAP/53DAP	1.82541	0.562
57DAP/55DAP	0.98812	0.921
62DAP/57DAP	1.19241	0.622
68DAP/62DAP	0.98185	0.834
68DAP/14DAP	1.038	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.8837	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.41075	0.182
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.53157
Mature Eggplant/Ripe Tomato	0.20303	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09753	1
1-1-2/M82	0.97155	1
12-2/M82	0.8977	0.955
12-4/M82	1.10009	1
1-3/M82	0.81615	0.378
2-1-1/M82	0.95144	1
2-1/M82	1.02607	1
2-6/M82	0.96765	1
3-2/M82	N/A	N/A
4-1-1/M82	1.11826	0.977
4-1/M82	0.96414	1
4-3-2/M82	0.92068	0.698
4-3/M82	1.19021	1
5-3/M82	1.00981	1
6-2/M82	N/A	N/A
6-3/M82	0.85807	1
7-1/M82	1.15975	1
7-2/M82	0.92864	0.881
9-3-2/M82	1.05223	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.54147	0.365
IL2-6/WTpooled	0.97509	1
IL7-5/WTpooled	0.60977
IL7-3/WTpooled	0.9974	1
IL12-4/WTpooled	1.01159	1
IL1-4/WTpooled	0.87437	0.415
WT/WTpooled	0.95559	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	1.13903	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95484	1
DC3000/delta hrp 6h	1.00586	0.95
DC3000/delta hrp 12h	1.07022	1
DC3000/delta hrp 24h	1.08215	0.553

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	1.09302	0.443

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04177	1
Exp 36h	1.29017	0.409
Exp 60h	1.47957	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00456	1
Var 0h	0.45967	0.933
Var 12h I row2-row1	1.07951	0.348
Var 12h NI row2-row1	0.93145	0.713
Var 36h I row2-row1	0.94586	1
Var 36h NI row2-row1	0.86741	0.45
Var 60h I row2-row1	0.63051	0.832
Var 60h NI row2-row1	0.92308	0.818
Time course 0hI-0hNI	1.01575	1
Time course 12hI-12hNI	1.04232	0.73
Time course 36hI-36hNI	1.26555	0.114
Time course 60hI-60hNI	1.51841	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)	1.00811	0.921
transgenic ySAMdc/azygous control (breaker)	1.51536	0.172
transgenic ySAMdc/azygous control (red)	1.11023	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01117	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79004	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.30717	0.307
Manapal/WT (break)	1.29178	0.381
Manapal/WT (red)	1.4078	0.133