Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.4.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80482	0.272
27DAP/17DAP	1.1683	0.839
39DAP/27DAP	0.73606	0.319
41DAP/39DAP	1.31249	0.276
42DAP/41DAP	0.80145	0.774
43DAP/42DAP	1.24248	0.985
47DAP/43DAP	1.02314	0.943
52DAP/47DAP	1.13228	0.922
57DAP/52DAP	1.09641	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11996	0.121
17DAP/reference	1.01211	1
27DAP/reference	0.94232	0.369
39DAP/reference	1.04295	0.423
41DAP/reference	1.01337	0.855
42DAP/reference	0.95828	0.278
43DAP/reference	1.04822	0.73
47DAP/reference	1.012	0.764
52DAP/reference	0.86809	0.096
57DAP/reference	0.87669	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86406	0.211
27DAP/17DAP	0.93062	0.537
39DAP/27DAP	1.06296	0.615
41DAP/39DAP	1.02211	1
42DAP/41DAP	1.03639	1
43DAP/42DAP	1.07032	0.382
47DAP/43DAP	0.917	0.722
52DAP/47DAP	1.04549	0.831
57DAP/52DAP	1.09061	0.688
57DAP/7DAP	1.16757	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86645	0.203
17DAP/reference	0.81622	0.039
27DAP/reference	0.83531	0.011
39DAP/reference	0.78456	0.012
41DAP/reference	1.01135	1
42DAP/reference	0.81983	0.013
43DAP/reference	0.80895	0.017
47DAP/reference	0.91025	0.383
52DAP/reference	1.0256	0.781
57DAP/reference	0.78838	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19732	0.241
17DAP/reference	1.03989	0.941
27DAP/reference	1.03808	0.961
39DAP/reference	0.89969	0.159
41DAP/reference	0.99445	0.601
42DAP/reference	1.01581	1
43DAP/reference	1.31934	0.146
47DAP/reference	1.02664	0.675
52DAP/reference	0.95546	0.22
57DAP/reference	1.05264	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02904	0.939
17DAP/reference	0.95611	0.56
27DAP/reference	0.84448	0.147
39DAP/reference	0.90816	0.179
41DAP/reference	0.93171	0.185
42DAP/reference	0.8674	0.172
43DAP/reference	0.89626	0.188
47DAP/reference	0.98528	0.558
52DAP/reference	0.85372	0.211
57DAP/reference	0.84741	0.122

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06998	1
26DAP/20DAP	0.85488	0.512
34DAP/26DAP	0.9167	0.803
51DAP/34DAP	0.86291	0.225
52DAP/51DAP	1.03643	0.954
53DAP/52DAP	0.94613	0.741
55DAP/53DAP	1.05142	0.712
57DAP/55DAP	1.0283	0.986
62DAP/57DAP	1.26907	0.003
68DAP/62DAP	1.10005	0.872
68DAP/14DAP	1.04451	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80749	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.9986	0.058
Mature Green Tomato/Ripe Tomato	0.90957	0.487
Immature Eggplant/Mature Eggplant	0.95961	1
Ripe Pepper/Ripe Tomato	3.44166
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02984	1
1-1-2/M82	2.15235
12-2/M82	N/A	N/A
12-4/M82	1.12355	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.92341	1
3-2/M82	0.87014
4-1-1/M82	N/A	N/A
4-1/M82	0.90784
4-3-2/M82	0.57218
4-3/M82	N/A	N/A
5-3/M82	0.94006	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.9572
7-2/M82	0.91076
9-3-2/M82	0.65058	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01991	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.30337	1
IL12-4/WTpooled	1.18624	0.646
IL1-4/WTpooled	0.91153
WT/WTpooled	0.99488	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	0.93224	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02582	0.921
DC3000/delta hrp 6h	0.65448	0.844
DC3000/delta hrp 12h	0.90496	1
DC3000/delta hrp 24h	1.28248	0.054

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91041	0.724
DC3000 delta B/DC3000 delta AB	1.02345	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.01134	1
Exp 60h	1.1015	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.09315	0.936
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)	0.84066	0.32
transgenic ySAMdc/azygous control (breaker)	1.26264	0.248
transgenic ySAMdc/azygous control (red)	1.07168	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99776	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6835	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05344	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.02783	1