Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.13.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03069	0.932
27DAP/17DAP	1.05132	0.926
39DAP/27DAP	0.90595	0.447
41DAP/39DAP	1.23977	0.575
42DAP/41DAP	1.09335	0.832
43DAP/42DAP	0.86512	0.583
47DAP/43DAP	0.96323	0.851
52DAP/47DAP	1.15479	0.754
57DAP/52DAP	1.18017	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02744	0.76
17DAP/reference	0.95115	0.448
27DAP/reference	0.94263	0.147
39DAP/reference	0.86613	0.178
41DAP/reference	0.97967	0.667
42DAP/reference	1.02794	0.544
43DAP/reference	1.02471	0.705
47DAP/reference	0.98842	0.418
52DAP/reference	1.08157	0.335
57DAP/reference	1.06582	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01755	0.881
27DAP/17DAP	0.98044	0.878
39DAP/27DAP	0.95565	0.536
41DAP/39DAP	0.98274	1
42DAP/41DAP	1.04844	0.601
43DAP/42DAP	0.96951	0.684
47DAP/43DAP	1.02126	0.889
52DAP/47DAP	0.91179	0.666
57DAP/52DAP	1.00577	1
57DAP/7DAP	0.93897	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97131	0.27
17DAP/reference	1.05233	0.013
27DAP/reference	1.08404	0.018
39DAP/reference	1.02823	0.133
41DAP/reference	1.01391	0.812
42DAP/reference	0.9729	0.506
43DAP/reference	1.01499	0.788
47DAP/reference	0.92923	0.168
52DAP/reference	1.01986	0.308
57DAP/reference	1.10322	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99964	0.93
17DAP/reference	1.07228	0.191
27DAP/reference	0.98133	0.576
39DAP/reference	0.92141	0.132
41DAP/reference	0.92492	0.205
42DAP/reference	1.04101	0.649
43DAP/reference	1.01294	0.89
47DAP/reference	1.10119	0.112
52DAP/reference	0.93453	0.051
57DAP/reference	1.01582	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03255	0.456
17DAP/reference	1.01262	0.757
27DAP/reference	1.02891	0.487
39DAP/reference	1.05493	0.157
41DAP/reference	1.0349	0.588
42DAP/reference	1.03803	0.556
43DAP/reference	1.0338	0.531
47DAP/reference	0.98415	0.525
52DAP/reference	1.05516	0.614
57DAP/reference	1.05909	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96907	1
26DAP/20DAP	1.14056	0.635
34DAP/26DAP	1.00872	1
51DAP/34DAP	0.93769	0.587
52DAP/51DAP	1.08379	0.579
53DAP/52DAP	1.02839	1
55DAP/53DAP	0.97189	0.775
57DAP/55DAP	1.12623	1
62DAP/57DAP	1.01531	0.935
68DAP/62DAP	0.99078	0.914
68DAP/14DAP	1.18538	0.131

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06506	0.391

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64544	0.161
Mature Green Tomato/Ripe Tomato	0.90486	0.522
Immature Eggplant/Mature Eggplant	1.10048	0.321
Ripe Pepper/Ripe Tomato	2.64924	1
Mature Eggplant/Ripe Tomato	0.99928	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.8336	0.605
1-1-2/M82	0.90784	0.958
12-2/M82	0.94385	0.955
12-4/M82	0.98142	1
1-3/M82	0.87414	0.378
2-1-1/M82	0.91349	0.784
2-1/M82	1.15776	1
2-6/M82	0.93305	1
3-2/M82	1.01225
4-1-1/M82	0.97675	1
4-1/M82	1.03155	1
4-3-2/M82	0.97563	1
4-3/M82	0.92508	0.72
5-3/M82	1.02294	1
6-2/M82	0.95658	1
6-3/M82	1.02395	1
7-1/M82	1.03729	0.925
7-2/M82	0.94039	0.578
9-3-2/M82	0.91841	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.18489	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.1743	1
IL12-4/WTpooled	0.9642	1
IL1-4/WTpooled	1.20162
WT/WTpooled	0.97022	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	0.84322	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02841	0.921
DC3000/delta hrp 6h	1.70571	1
DC3000/delta hrp 12h	1.00334	1
DC3000/delta hrp 24h	1.1036	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.37373	0.043
DC3000 delta B/DC3000 delta AB	1.15404	0.302

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	0.49688	0.196

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01504	1
Var 0h	0.52793	0.98
Var 12h I row2-row1	1.31505	0.216
Var 12h NI row2-row1	0.94876	0.627
Var 36h I row2-row1	1.09691	1
Var 36h NI row2-row1	0.83187	0.645
Var 60h I row2-row1	1.42529	0.562
Var 60h NI row2-row1	1.15913	1
Time course 0hI-0hNI	1.02479	1
Time course 12hI-12hNI	1.07591	0.587
Time course 36hI-36hNI	0.97667	0.514
Time course 60hI-60hNI	2.15381	0.01

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)	0.85039	0.33
transgenic ySAMdc/azygous control (breaker)	1.32524	1
transgenic ySAMdc/azygous control (red)	1.30393	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98092	0.191

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03095	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2479	0.307
Manapal/WT (break)	1.83109	0.381
Manapal/WT (red)	1.39476	0.137