Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.17.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16742	0.63
27DAP/17DAP	1.02971	0.916
39DAP/27DAP	0.82719	0.512
41DAP/39DAP	0.94662	0.727
42DAP/41DAP	1.21604	0.681
43DAP/42DAP	0.87323	0.834
47DAP/43DAP	0.86137	0.526
52DAP/47DAP	1.21645	0.637
57DAP/52DAP	0.80177	0.678

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20163	0.35
17DAP/reference	0.91162	0.342
27DAP/reference	1.1944	0.063
39DAP/reference	0.93782	0.404
41DAP/reference	0.93041	0.341
42DAP/reference	1.22529	0.523
43DAP/reference	1.00853	0.924
47DAP/reference	1.29712	0.065
52DAP/reference	2.20088	0.015
57DAP/reference	1.95045	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04198	0.736
27DAP/17DAP	0.88501	0.279
39DAP/27DAP	1.03556	0.779
41DAP/39DAP	1.22681	0.705
42DAP/41DAP	0.92343	0.617
43DAP/42DAP	1.00978	1
47DAP/43DAP	1.04822	0.973
52DAP/47DAP	1.14862	0.645
57DAP/52DAP	1.04755	1
57DAP/7DAP	1.32229	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83114	0.07
17DAP/reference	0.86266	0.012
27DAP/reference	0.85422	0.01
39DAP/reference	1.01216	0.819
41DAP/reference	0.81861	0.017
42DAP/reference	0.89319	0.027
43DAP/reference	0.85861	0.016
47DAP/reference	1.05108	1
52DAP/reference	0.76482	0.03
57DAP/reference	0.69513	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73289	0.007
17DAP/reference	1.0262	0.805
27DAP/reference	0.9507	0.438
39DAP/reference	1.28012	0.082
41DAP/reference	1.19137	0.06
42DAP/reference	1.1566	0.267
43DAP/reference	1.10211	1
47DAP/reference	0.9381	0.159
52DAP/reference	1.32101	0.194
57DAP/reference	0.97975	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77411	0.048
17DAP/reference	1.46659	0.792
27DAP/reference	0.919	0.27
39DAP/reference	0.87654	0.063
41DAP/reference	0.95186	0.148
42DAP/reference	1.23169	0.424
43DAP/reference	1.23591	0.362
47DAP/reference	1.21189	0.251
52DAP/reference	0.88152	0.327
57DAP/reference	1.8074	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16209	0.966
26DAP/20DAP	0.80616	0.512
34DAP/26DAP	1.0151	1
51DAP/34DAP	0.57135	0.546
52DAP/51DAP	0.9608	1
53DAP/52DAP	0.76029	0.144
55DAP/53DAP	1.02295	0.917
57DAP/55DAP	0.97476	0.88
62DAP/57DAP	1.07264	1
68DAP/62DAP	1.68919	0.646
68DAP/14DAP	1.97861	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83081	0.083

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.40597	0.044
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.74335	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92354	0.944
1-1-2/M82	0.99095	1
12-2/M82	1.18846	1
12-4/M82	0.9903	1
1-3/M82	1.04887	0.479
2-1-1/M82	1.21274
2-1/M82	N/A	N/A
2-6/M82	1.03849	1
3-2/M82	0.9386
4-1-1/M82	0.9931	1
4-1/M82	1.15028
4-3-2/M82	1.01541	1
4-3/M82	1.1913	1
5-3/M82	0.93423	0.642
6-2/M82	0.99709
6-3/M82	0.93132	1
7-1/M82	0.89577	0.803
7-2/M82	1.08874	1
9-3-2/M82	0.80499	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.15139	0.337
IL7-5/WTpooled	0.33428
IL7-3/WTpooled	1.04354	1
IL12-4/WTpooled	1.14977	0.646
IL1-4/WTpooled	0.57528	0.402
WT/WTpooled	0.94277	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	0.96604	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01496	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.92489	1
DC3000/delta hrp 24h	1.06292	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.22863
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	1.06636	1
Var 0h	0.99743	1
Var 12h I row2-row1	1.18603	0.544
Var 12h NI row2-row1	0.60922	0.494
Var 36h I row2-row1	1.09893	0.908
Var 36h NI row2-row1	0.76836	0.253
Var 60h I row2-row1	1.00459	1
Var 60h NI row2-row1	1.0161	0.904
Time course 0hI-0hNI	1.06727	0.799
Time course 12hI-12hNI	0.99618	0.874
Time course 36hI-36hNI	1.01677	0.874
Time course 60hI-60hNI	0.943	0.646

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)	0.80729	0.242
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.64633	1

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	1.07755	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03068	1
Manapal/WT (break)	0.70614	1
Manapal/WT (red)	0.96449	0.863