Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.4.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98261	0.83
27DAP/17DAP	1.06578	0.873
39DAP/27DAP	0.85601	0.512
41DAP/39DAP	1.33976	0.318
42DAP/41DAP	0.99735	1
43DAP/42DAP	1.03302	1
47DAP/43DAP	0.98377	0.859
52DAP/47DAP	1.56546	0.288
57DAP/52DAP	1.07225	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9624	0.262
17DAP/reference	0.97604	0.63
27DAP/reference	1.02437	0.696
39DAP/reference	0.95146	0.391
41DAP/reference	0.99451	0.814
42DAP/reference	0.99931	0.665
43DAP/reference	0.98421	0.745
47DAP/reference	0.95894	0.148
52DAP/reference	0.94317	0.36
57DAP/reference	0.91697	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99586	0.871
27DAP/17DAP	0.99117	0.878
39DAP/27DAP	1.00963	0.793
41DAP/39DAP	1.0766	0.59
42DAP/41DAP	1.0054	1
43DAP/42DAP	0.942	0.046
47DAP/43DAP	0.96554	0.666
52DAP/47DAP	1.01897	0.939
57DAP/52DAP	1.0433	0.714
57DAP/7DAP	1.11813	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94769	0.071
17DAP/reference	0.94393	0.013
27DAP/reference	0.93368	0.028
39DAP/reference	0.99921	1
41DAP/reference	0.96623	0.271
42DAP/reference	1.06005	0.233
43DAP/reference	0.9498	0.121
47DAP/reference	0.91714	0.168
52DAP/reference	0.97942	0.304
57DAP/reference	0.95524	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05052	0.495
17DAP/reference	1.0447	0.437
27DAP/reference	1.07322	0.735
39DAP/reference	1.04392	0.806
41DAP/reference	0.96855	0.384
42DAP/reference	1.0033	1
43DAP/reference	1.06776	0.611
47DAP/reference	0.93459	0.092
52DAP/reference	0.96529	0.28
57DAP/reference	1.0228	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05202	0.882
17DAP/reference	0.99632	0.839
27DAP/reference	0.87579	0.031
39DAP/reference	0.93421	0.147
41DAP/reference	0.93497	0.148
42DAP/reference	0.92795	0.023
43DAP/reference	0.97115	0.305
47DAP/reference	0.94185	0.306
52DAP/reference	0.90403	0.189
57DAP/reference	0.84664	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97726	1
26DAP/20DAP	0.91984	0.317
34DAP/26DAP	1.05497	0.819
51DAP/34DAP	0.93391	0.419
52DAP/51DAP	0.98666	1
53DAP/52DAP	1.07041	0.819
55DAP/53DAP	1.00358	0.964
57DAP/55DAP	1.02891	0.986
62DAP/57DAP	1.63024
68DAP/62DAP	0.92397	0.769
68DAP/14DAP	1.04338	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98134	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84923	0.312
Mature Green Tomato/Ripe Tomato	0.9148	0.611
Immature Eggplant/Mature Eggplant	0.94245	0.407
Ripe Pepper/Ripe Tomato	1.49268	1
Mature Eggplant/Ripe Tomato	1.34415	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.965	0.944
1-1-2/M82	0.99018	1
12-2/M82	0.98604	0.955
12-4/M82	1.02388	1
1-3/M82	0.99499	1
2-1-1/M82	0.96375	1
2-1/M82	1.14835	1
2-6/M82	0.9841	1
3-2/M82	0.9698	1
4-1-1/M82	0.97532	1
4-1/M82	0.96839	1
4-3-2/M82	0.95669	1
4-3/M82	1.00365	1
5-3/M82	0.99581	1
6-2/M82	0.97475	1
6-3/M82	0.99235	1
7-1/M82	1.03183	0.598
7-2/M82	0.9803	0.599
9-3-2/M82	0.9209	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11569	1
IL2-6/WTpooled	1.2652	0.415
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93751	1
IL12-4/WTpooled	1.12926	0.891
IL1-4/WTpooled	1.27044	1
WT/WTpooled	1.02584	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	1.00007	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83713	0.849
DC3000/delta hrp 6h	0.80595	0.874
DC3000/delta hrp 12h	1.12438	1
DC3000/delta hrp 24h	1.01916	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96825	0.46
DC3000 delta B/DC3000 delta AB	0.97256	0.805

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.31275	1
Exp 36h	1.05523	1
Exp 60h	1.18243	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04426
Var 0h	1.20504	0.594
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)	0.96878	0.454
transgenic ySAMdc/azygous control (breaker)	1.02706	1
transgenic ySAMdc/azygous control (red)	1.06196	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03553	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77092	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88885	1
Manapal/WT (break)	0.9859	1
Manapal/WT (red)	1.03169	1