Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.16.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67484	0.023
27DAP/17DAP	1.04363	1
39DAP/27DAP	1.04487	0.82
41DAP/39DAP	1.63041	0.229
42DAP/41DAP	1.0721	1
43DAP/42DAP	0.88412	0.483
47DAP/43DAP	0.70494	0.228
52DAP/47DAP	1.68225	0.608
57DAP/52DAP	0.9237	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07747	0.197
17DAP/reference	0.97625	0.567
27DAP/reference	1.0009	0.904
39DAP/reference	0.98672	0.734
41DAP/reference	1.04215	0.516
42DAP/reference	0.99529	0.547
43DAP/reference	0.9781	0.5
47DAP/reference	0.97441	0.258
52DAP/reference	0.89574	0.043
57DAP/reference	0.93767	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77978	0.096
27DAP/17DAP	0.99301	0.919
39DAP/27DAP	0.97546	0.844
41DAP/39DAP	1.06868	1
42DAP/41DAP	0.93818	0.595
43DAP/42DAP	1.12277	0.585
47DAP/43DAP	1.12662	0.681
52DAP/47DAP	0.96836	0.901
57DAP/52DAP	1.0927	0.783
57DAP/7DAP	0.86591	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90486	0.157
17DAP/reference	0.76896	0.011
27DAP/reference	0.8491	0.015
39DAP/reference	0.74416	0.011
41DAP/reference	0.75633	0.016
42DAP/reference	0.74016	0.01
43DAP/reference	0.75884	0.012
47DAP/reference	0.81	0.128
52DAP/reference	0.71715	0.012
57DAP/reference	0.74936	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06529	0.315
17DAP/reference	0.99956	0.851
27DAP/reference	0.90615	0.108
39DAP/reference	0.92553	0.257
41DAP/reference	1.00779	0.749
42DAP/reference	0.95689	0.392
43DAP/reference	1.02788	0.997
47DAP/reference	1.05966	0.426
52DAP/reference	1.02089	0.702
57DAP/reference	1.1128	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94387	0.214
17DAP/reference	0.99502	0.81
27DAP/reference	0.84141	0.062
39DAP/reference	0.79634	0.021
41DAP/reference	0.86026	0.064
42DAP/reference	0.82593	0.036
43DAP/reference	0.84518	0.043
47DAP/reference	1.01168	0.994
52DAP/reference	0.77814	0.119
57DAP/reference	0.78316	0.068

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93623	1
26DAP/20DAP	0.77056	0.244
34DAP/26DAP	1.35689	0.542
51DAP/34DAP	0.89103	0.274
52DAP/51DAP	1.29066	0.045
53DAP/52DAP	0.97877	0.882
55DAP/53DAP	1.18594	0.301
57DAP/55DAP	1.04079	0.961
62DAP/57DAP	1.31772	0.008
68DAP/62DAP	0.9405	0.747
68DAP/14DAP	1.17677	0.384

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78784	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.24488
Mature Green Tomato/Ripe Tomato	1.1137	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.50853

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02054	0.526
1-1-2/M82	N/A	N/A
12-2/M82	0.86687
12-4/M82	0.95632	1
1-3/M82	0.75745	0.501
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.92193	1
3-2/M82	0.88028	1
4-1-1/M82	0.98698	1
4-1/M82	0.85468
4-3-2/M82	0.79591	0.698
4-3/M82	N/A	N/A
5-3/M82	1.05202	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.76935	0.313
9-3-2/M82	0.7953	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.34538	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.12474	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.79692	0.834
WT/WTpooled	N/A	N/A

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	2.56717

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97857	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.20373	1
DC3000/delta hrp 24h	1.89241	0.033

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.73125	0.161
DC3000 delta B/DC3000 delta AB	1.00984	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02655	1
Exp 36h	N/A	N/A
Exp 60h	1.07827	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01237
Var 0h	1.40763	0.936
Var 12h I row2-row1	1.12082	0.443
Var 12h NI row2-row1	0.67833	0.627
Var 36h I row2-row1	0.74722	0.805
Var 36h NI row2-row1	0.92109	0.743
Var 60h I row2-row1	1.50282	0.562
Var 60h NI row2-row1	1.25886	0.904
Time course 0hI-0hNI	1.08116	0.799
Time course 12hI-12hNI	1.09692	0.77
Time course 36hI-36hNI	0.93931	0.46
Time course 60hI-60hNI	0.97052	1

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)	0.93008	0.362
transgenic ySAMdc/azygous control (breaker)	1.02095	1
transgenic ySAMdc/azygous control (red)	1.09942	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00546	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.62488	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02025	1
Manapal/WT (break)	1.13997	1
Manapal/WT (red)	0.93328	0.274