Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.1.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.75951	0.082
27DAP/17DAP	1.13355	1
39DAP/27DAP	3.92374	0.025
41DAP/39DAP	1.09404	0.96
42DAP/41DAP	1.28014	1
43DAP/42DAP	1.03749	0.945
47DAP/43DAP	1.54985	0.569
52DAP/47DAP	0.69671	0.35
57DAP/52DAP	0.78522	0.796

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	1.76284
42DAP/reference	1.34634	0.01
43DAP/reference	0.65863	0.107
47DAP/reference	1.11254	0.612
52DAP/reference	0.90262
57DAP/reference	1.03619

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77595
27DAP/17DAP	0.76042	0.206
39DAP/27DAP	1.72944	0.646
41DAP/39DAP	0.84314
42DAP/41DAP	1.41415	1
43DAP/42DAP	1.63286
47DAP/43DAP	1.10217	0.529
52DAP/47DAP	0.77556	0.655
57DAP/52DAP	1.22614	0.643
57DAP/7DAP	0.71085

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93794	0.296
17DAP/reference	0.84254	0.024
27DAP/reference	0.94954	0.231
39DAP/reference	0.99258	0.64
41DAP/reference	1.06666	1
42DAP/reference	0.91357	0.178
43DAP/reference	0.92535	0.192
47DAP/reference	1.20251	1
52DAP/reference	0.87575	0.077
57DAP/reference	0.70651	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83163	0.564
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	0.6491
41DAP/reference	N/A	N/A
42DAP/reference	1.49258
43DAP/reference	1.38357	0.15
47DAP/reference	0.65322
52DAP/reference	N/A	N/A
57DAP/reference	1.11238	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85545	0.047
17DAP/reference	0.95442	0.519
27DAP/reference	0.83541	0.03
39DAP/reference	1.08877	0.813
41DAP/reference	0.87351	0.096
42DAP/reference	0.9126	0.108
43DAP/reference	0.76571	0.018
47DAP/reference	0.80044	0.452
52DAP/reference	0.77356	0.114
57DAP/reference	0.52155

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.25145
26DAP/20DAP	1.14617
34DAP/26DAP	1.58891	1
51DAP/34DAP	1.8507	0.103
52DAP/51DAP	1.39996	0.596
53DAP/52DAP	0.75723	0.475
55DAP/53DAP	1.26759	0.755
57DAP/55DAP	0.90446	0.76
62DAP/57DAP	1.21262	0.8
68DAP/62DAP	1.42147	0.5
68DAP/14DAP	1.19767

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74199

Experiment: Solanaceae fruit comparison

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

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84836	0.247
IL2-6/WTpooled	1.03144	1
IL7-5/WTpooled	1.13362	0.75
IL7-3/WTpooled	0.8262	0.31
IL12-4/WTpooled	1.00198	1
IL1-4/WTpooled	1.05264	1
WT/WTpooled	1.06699	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	N/A	N/A

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

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

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	N/A	N/A
Var 0h	N/A	N/A
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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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)	1.54473	1
Manapal/WT (red)	N/A	N/A