Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.6.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90231	0.464
27DAP/17DAP	1.01336	1
39DAP/27DAP	0.73672	0.382
41DAP/39DAP	1.49463	0.483
42DAP/41DAP	0.9412	1
43DAP/42DAP	1.00986	0.932
47DAP/43DAP	0.96287	0.773
52DAP/47DAP	1.32718	0.639
57DAP/52DAP	1.00975	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9105	0.118
17DAP/reference	0.98115	0.567
27DAP/reference	0.9617	0.406
39DAP/reference	0.95379	0.254
41DAP/reference	1.00545	1
42DAP/reference	0.91538	0.037
43DAP/reference	0.92857	0.129
47DAP/reference	0.88651	0.008
52DAP/reference	0.88202	0.202
57DAP/reference	0.89967	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97028	0.56
27DAP/17DAP	1.01537	0.957
39DAP/27DAP	1.00989	0.811
41DAP/39DAP	1.02325	0.861
42DAP/41DAP	1.05061	0.773
43DAP/42DAP	0.99393	0.96
47DAP/43DAP	0.96197	0.712
52DAP/47DAP	0.98521	0.925
57DAP/52DAP	0.96725	0.626
57DAP/7DAP	1.05387	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89821	0.104
17DAP/reference	0.8731	0.013
27DAP/reference	0.88324	0.01
39DAP/reference	0.91937	0.012
41DAP/reference	0.88095	0.036
42DAP/reference	0.85184	0.011
43DAP/reference	0.86779	0.066
47DAP/reference	0.98015	0.671
52DAP/reference	0.88783	0.083
57DAP/reference	0.87493	0.028

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0045	0.952
17DAP/reference	0.90788	0.047
27DAP/reference	0.95506	0.381
39DAP/reference	0.91888	0.091
41DAP/reference	0.89838	0.127
42DAP/reference	0.96567	0.392
43DAP/reference	0.90848	0.147
47DAP/reference	0.93299	0.094
52DAP/reference	0.9973	0.713
57DAP/reference	1.00827	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93266	0.037
17DAP/reference	0.93122	0.348
27DAP/reference	0.94895	0.078
39DAP/reference	0.95559	0.299
41DAP/reference	0.91027	0.035
42DAP/reference	0.88324	0.049
43DAP/reference	0.90615	0.15
47DAP/reference	0.94894	0.315
52DAP/reference	1.09396	0.639
57DAP/reference	0.75902	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02048	0.966
26DAP/20DAP	0.91129	0.317
34DAP/26DAP	1.00346	1
51DAP/34DAP	1.06501	0.637
52DAP/51DAP	0.98723	1
53DAP/52DAP	1.01806	0.961
55DAP/53DAP	0.99159	0.886
57DAP/55DAP	1.05016	0.927
62DAP/57DAP	1.55977
68DAP/62DAP	0.97404	0.863
68DAP/14DAP	1.17162	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01312	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.03873	1
Mature Green Tomato/Ripe Tomato	1.18773	0.752
Immature Eggplant/Mature Eggplant	1.01825	0.554
Ripe Pepper/Ripe Tomato	5.17764
Mature Eggplant/Ripe Tomato	5.19669	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06378	0.877
1-1-2/M82	0.98503	1
12-2/M82	0.89247	0.955
12-4/M82	0.99465	1
1-3/M82	0.91238	0.441
2-1-1/M82	1.04268	0.764
2-1/M82	N/A	N/A
2-6/M82	1.02148	1
3-2/M82	0.89647	1
4-1-1/M82	0.91208	1
4-1/M82	0.94551	0.737
4-3-2/M82	0.82408	0.698
4-3/M82	1.09154	1
5-3/M82	0.90741	0.642
6-2/M82	0.99968	1
6-3/M82	0.93768	1
7-1/M82	0.69508
7-2/M82	1.09594	1
9-3-2/M82	0.80835	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02304	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.84886	1
IL7-3/WTpooled	1.33689	1
IL12-4/WTpooled	0.67646	0.581
IL1-4/WTpooled	1.34144	1
WT/WTpooled	0.91111	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	0.89242	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91843	1
DC3000/delta hrp 6h	1.08437	1
DC3000/delta hrp 12h	0.9729	1
DC3000/delta hrp 24h	1.03528	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18999	0.042
DC3000 delta B/DC3000 delta AB	1.14592	0.249

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92378	1
Exp 36h	1.01162	1
Exp 60h	1.01488	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03487	1
Var 0h	0.75346	1
Var 12h I row2-row1	1.15411	0.202
Var 12h NI row2-row1	1.04774	1
Var 36h I row2-row1	1.06215	1
Var 36h NI row2-row1	0.88109	0.522
Var 60h I row2-row1	1.04778	1
Var 60h NI row2-row1	1.06856	1
Time course 0hI-0hNI	0.99223	1
Time course 12hI-12hNI	1.03698	0.72
Time course 36hI-36hNI	0.99464	0.718
Time course 60hI-60hNI	1.38065	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)	0.84688	0.377
transgenic ySAMdc/azygous control (breaker)	0.85266	0.251
transgenic ySAMdc/azygous control (red)	0.91088	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01587	0.471

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)	0.75586	1
Manapal/WT (break)	1.02212	1
Manapal/WT (red)	0.89067	0.424