Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.3.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93116	0.586
27DAP/17DAP	0.87599	0.741
39DAP/27DAP	1.68321	0.765
41DAP/39DAP	0.98307	0.876
42DAP/41DAP	3.54465	0.599
43DAP/42DAP	1.31672	0.906
47DAP/43DAP	1.24117	0.926
52DAP/47DAP	1.32318	0.915
57DAP/52DAP	1.02628	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.68639	0.101
17DAP/reference	1.4235	0.014
27DAP/reference	1.12496	1
39DAP/reference	1.37828	0.403
41DAP/reference	1.49592	0.012
42DAP/reference	0.97939	0.359
43DAP/reference	2.98542
47DAP/reference	0.61002	0.077
52DAP/reference	1.41908	0.033
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.60083
27DAP/17DAP	0.47244	0.164
39DAP/27DAP	1.31275	0.672
41DAP/39DAP	0.77159
42DAP/41DAP	1.17467	0.864
43DAP/42DAP	0.93108
47DAP/43DAP	1.09443
52DAP/47DAP	0.70513	0.233
57DAP/52DAP	0.94543
57DAP/7DAP	1.54702

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03298	1
17DAP/reference	1.06783	0.328
27DAP/reference	0.8902	0.026
39DAP/reference	0.98832	0.64
41DAP/reference	1.29238	0.033
42DAP/reference	0.96853	0.436
43DAP/reference	0.79016	0.025
47DAP/reference	1.32247	0.776
52DAP/reference	0.85133	0.04
57DAP/reference	0.89117	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12166	0.226
17DAP/reference	1.06863	0.924
27DAP/reference	1.11948	0.38
39DAP/reference	0.96116	0.381
41DAP/reference	1.24035	0.241
42DAP/reference	1.34943	0.022
43DAP/reference	0.93719	0.527
47DAP/reference	1.00811	0.812
52DAP/reference	0.53051	0.021
57DAP/reference	0.43806	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06737	0.939
17DAP/reference	1.06993	0.689
27DAP/reference	0.86827	0.076
39DAP/reference	0.86498	0.163
41DAP/reference	1.09215	0.637
42DAP/reference	1.2001	0.566
43DAP/reference	1.8527	0.077
47DAP/reference	2.20426
52DAP/reference	1.4795	0.566
57DAP/reference	1.17183	0.066

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90693	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.65466	0.542
51DAP/34DAP	1.96828	0.535
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.77217	0.553
55DAP/53DAP	1.17939	0.955
57DAP/55DAP	1.41545	0.906
62DAP/57DAP	1.02901	0.994
68DAP/62DAP	N/A	N/A
68DAP/14DAP	1.04904

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.56342	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	5.72504

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	0.90089
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	1.30401
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	1.0878	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.34353	0.792
IL7-3/WTpooled	0.83869	0.418
IL12-4/WTpooled	0.97014	1
IL1-4/WTpooled	0.91475	0.457
WT/WTpooled	0.98509	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03218	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.35196	0.034

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	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	N/A	N/A
Var 0h	N/A	N/A
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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	1.01767	1
Manapal/WT (red)	0.81303	0.274