Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.9.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03836	1
27DAP/17DAP	2.05008	0.749
39DAP/27DAP	0.67586	0.397
41DAP/39DAP	0.97477	0.773
42DAP/41DAP	1.13665	1
43DAP/42DAP	0.98317	0.93
47DAP/43DAP	1.44573	0.278
52DAP/47DAP	1.07679	1
57DAP/52DAP	1.26437	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96932	0.465
17DAP/reference	0.94325	0.448
27DAP/reference	1.03481	0.735
39DAP/reference	1.12687	0.165
41DAP/reference	1.10612	0.667
42DAP/reference	0.8726	0.023
43DAP/reference	1.04469	0.569
47DAP/reference	0.90681	0.106
52DAP/reference	0.96437	0.427
57DAP/reference	0.96932	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21575	0.87
27DAP/17DAP	1.5006	0.245
39DAP/27DAP	0.88544	0.482
41DAP/39DAP	1.01366	1
42DAP/41DAP	0.81276	0.241
43DAP/42DAP	0.9232	0.558
47DAP/43DAP	0.92222	0.75
52DAP/47DAP	1.04279	0.933
57DAP/52DAP	1.42391	0.434
57DAP/7DAP	0.87745	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95943	0.361
17DAP/reference	1.07617	0.627
27DAP/reference	1.08305	0.453
39DAP/reference	0.97187	0.474
41DAP/reference	1.02761	0.619
42DAP/reference	0.90003	0.248
43DAP/reference	0.96514	0.368
47DAP/reference	1.00333	1
52DAP/reference	0.78766	0.043
57DAP/reference	1.05216	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98529	0.706
17DAP/reference	1.01458	0.941
27DAP/reference	0.92687	0.34
39DAP/reference	0.87786	0.183
41DAP/reference	0.96385	0.451
42DAP/reference	0.88682	0.212
43DAP/reference	1.09129	0.569
47DAP/reference	0.85738	0.033
52DAP/reference	0.67869	0.078
57DAP/reference	0.9715	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03491	0.846
17DAP/reference	1.07778	0.675
27DAP/reference	1.15622	0.198
39DAP/reference	1.15885	0.12
41DAP/reference	1.0598	0.637
42DAP/reference	1.13159	0.333
43DAP/reference	0.92211	0.348
47DAP/reference	0.9199	0.306
52DAP/reference	1.55838	0.601
57DAP/reference	0.83247	0.304

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.75179	0.966
26DAP/20DAP	0.80044
34DAP/26DAP	0.96914	0.954
51DAP/34DAP	1.32951	0.483
52DAP/51DAP	1.17968	0.704
53DAP/52DAP	1.02955	1
55DAP/53DAP	1.12045	0.645
57DAP/55DAP	0.93042	0.691
62DAP/57DAP	0.81697	0.28
68DAP/62DAP	1.24122	0.507
68DAP/14DAP	1.05153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08383	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.06684	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.46702	0.224
Mature Eggplant/Ripe Tomato	0.6483	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.10591
12-2/M82	N/A	N/A
12-4/M82	0.93721	1
1-3/M82	1.21377
2-1-1/M82	0.7118
2-1/M82	N/A	N/A
2-6/M82	0.73439
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	0.77351
5-3/M82	1.09562	1
6-2/M82	0.71695
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.80575	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.85662	0.473
IL7-5/WTpooled	1.37753
IL7-3/WTpooled	1.1826	1
IL12-4/WTpooled	1.11917	0.523
IL1-4/WTpooled	1.48361	1
WT/WTpooled	0.96078	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	0.82948	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00661	1
DC3000/delta hrp 6h	1.18725	0.95
DC3000/delta hrp 12h	0.91685	1
DC3000/delta hrp 24h	1.15532	0.779

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	1.66127	1
Exp 60h	1.27699	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04527	1
Var 0h	0.97377	1
Var 12h I row2-row1	1.0981	0.443
Var 12h NI row2-row1	1.23018	0.649
Var 36h I row2-row1	1.07064	1
Var 36h NI row2-row1	1.77594	1
Var 60h I row2-row1	0.67323	0.285
Var 60h NI row2-row1	0.98014	1
Time course 0hI-0hNI	0.94829	0.738
Time course 12hI-12hNI	1.19862	0.164
Time course 36hI-36hNI	0.97186	0.549
Time course 60hI-60hNI	1.5447	0.012

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)	1.13671	0.408
transgenic ySAMdc/azygous control (breaker)	1.29341	0.162
transgenic ySAMdc/azygous control (red)	1.07946	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96888	0.305

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88607	0.255

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)	0.86509	1
Manapal/WT (red)	0.89636	0.36