Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.17.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96263	0.683
27DAP/17DAP	1.02809	1
39DAP/27DAP	4.84398	0.179
41DAP/39DAP	1.36755	0.575
42DAP/41DAP	0.96907	1
43DAP/42DAP	1.16246	0.937
47DAP/43DAP	0.92471	0.724
52DAP/47DAP	1.45574	0.384
57DAP/52DAP	0.98524	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97192	0.526
17DAP/reference	1.03769	0.787
27DAP/reference	0.93676	0.471
39DAP/reference	1.0428	0.8
41DAP/reference	1.07829	0.48
42DAP/reference	0.9675	0.326
43DAP/reference	0.94989	0.48
47DAP/reference	1.08851	0.817
52DAP/reference	1.34	0.026
57DAP/reference	1.14662	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12525	0.699
27DAP/17DAP	1.25379	0.25
39DAP/27DAP	0.82328	0.311
41DAP/39DAP	1.3046	0.135
42DAP/41DAP	0.71393	0.03
43DAP/42DAP	2.47909	0.016
47DAP/43DAP	1.70654	0.013
52DAP/47DAP	0.70587	0.174
57DAP/52DAP	1.01552	0.869
57DAP/7DAP	1.6747	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84694	0.1
17DAP/reference	0.65361	0.012
27DAP/reference	1.14453	0.088
39DAP/reference	0.76223	0.064
41DAP/reference	0.71417	0.014
42DAP/reference	0.96287	0.436
43DAP/reference	0.95428	0.091
47DAP/reference	1.06508	1
52DAP/reference	0.8311	0.083
57DAP/reference	0.46609	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8986	0.72
17DAP/reference	0.85483	0.337
27DAP/reference	1.11406	0.757
39DAP/reference	1.44614	0.324
41DAP/reference	1.13244	0.878
42DAP/reference	1.38004	0.045
43DAP/reference	1.04959	0.874
47DAP/reference	1.41759	0.018
52DAP/reference	1.06858	0.596
57DAP/reference	0.99519	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92167	0.335
17DAP/reference	0.94552	0.537
27DAP/reference	0.83137	0.174
39DAP/reference	0.82155	0.043
41DAP/reference	0.89903	0.237
42DAP/reference	1.35992	0.047
43DAP/reference	1.38732	0.061
47DAP/reference	1.15707	0.218
52DAP/reference	0.77167	0.091
57DAP/reference	1.23895	0.604

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22773	0.176
26DAP/20DAP	1.14293	0.813
34DAP/26DAP	1.22742	1
51DAP/34DAP	1.07765	0.957
52DAP/51DAP	1.17176	1
53DAP/52DAP	1.11597	0.783
55DAP/53DAP	1.01149	0.951
57DAP/55DAP	1.35018	0.448
62DAP/57DAP	0.93713	0.871
68DAP/62DAP	1.13304	0.939
68DAP/14DAP	0.88957	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.78749	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.0411	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.13831
Mature Eggplant/Ripe Tomato	0.1377	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88667	0.907
1-1-2/M82	1.09126	1
12-2/M82	1.17383	1
12-4/M82	0.75647	0.33
1-3/M82	2.33221	0.479
2-1-1/M82	0.96019	1
2-1/M82	0.78349	0.325
2-6/M82	1.44082	0.594
3-2/M82	0.5346	0.451
4-1-1/M82	2.28206	0.977
4-1/M82	2.29879
4-3-2/M82	1.45575
4-3/M82	1.61617	1
5-3/M82	1.2464	1
6-2/M82	1.13144
6-3/M82	0.93791
7-1/M82	1.63442	0.598
7-2/M82	0.59071
9-3-2/M82	2.59515	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.65813	0.277
IL2-6/WTpooled	1.45007	0.395
IL7-5/WTpooled	0.83978	1
IL7-3/WTpooled	1.28265	1
IL12-4/WTpooled	1.65125	0.546
IL1-4/WTpooled	1.59047	0.426
WT/WTpooled	0.93817	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	0.83476

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03995	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.98399	0.945

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	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	1.04137	1
Var 0h	1.09544	0.98
Var 12h I row2-row1	1.11736	0.263
Var 12h NI row2-row1	0.92349	0.394
Var 36h I row2-row1	1.00418	1
Var 36h NI row2-row1	0.67243	1
Var 60h I row2-row1	1.02516	1
Var 60h NI row2-row1	0.44415	0.69
Time course 0hI-0hNI	1.12834	0.63
Time course 12hI-12hNI	1.12567	0.237
Time course 36hI-36hNI	1.08098	0.513
Time course 60hI-60hNI	1.97227	0.254

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.63801	0.49
transgenic ySAMdc/azygous control (red)	1.02743	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	N/A	N/A

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)	0.94421	1
Manapal/WT (red)	0.67689	0.181