Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.17.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93388	0.61
27DAP/17DAP	1.47136	0.849
39DAP/27DAP	1.39257	0.289
41DAP/39DAP	0.96843	0.781
42DAP/41DAP	1.04988	1
43DAP/42DAP	1.17368	0.962
47DAP/43DAP	0.97001	0.851
52DAP/47DAP	1.02019	0.942
57DAP/52DAP	1.2208	0.902

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30871	0.071
17DAP/reference	1.13602	0.412
27DAP/reference	1.29958	0.106
39DAP/reference	0.90363	0.381
41DAP/reference	1.418	0.015
42DAP/reference	1.2409	0.043
43DAP/reference	1.17659	0.445
47DAP/reference	1.1851	0.015
52DAP/reference	1.32465	0.128
57DAP/reference	1.20174	0.211

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14604	0.34
27DAP/17DAP	1.13036	0.805
39DAP/27DAP	1.12065	0.558
41DAP/39DAP	1.10995	0.753
42DAP/41DAP	0.88004	0.267
43DAP/42DAP	1.25737	0.034
47DAP/43DAP	1.04563	0.93
52DAP/47DAP	1.00537	0.93
57DAP/52DAP	1.2146	0.33
57DAP/7DAP	1.19875	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90711	0.146
17DAP/reference	0.81582	0.016
27DAP/reference	0.75605	0.019
39DAP/reference	0.88019	0.027
41DAP/reference	0.89457	0.174
42DAP/reference	0.87633	0.169
43DAP/reference	0.77559	0.015
47DAP/reference	0.96441	0.504
52DAP/reference	0.94738	0.278
57DAP/reference	0.87371	0.059

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03164	0.952
17DAP/reference	1.39574	0.127
27DAP/reference	1.22038	0.136
39DAP/reference	1.19662	0.389
41DAP/reference	1.09097	0.981
42DAP/reference	1.06529	0.879
43DAP/reference	1.26297	0.239
47DAP/reference	1.15056	0.232
52DAP/reference	1.51759	0.014
57DAP/reference	1.61666	0.072

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91684	0.158
17DAP/reference	0.9213	0.381
27DAP/reference	2.35677	0.596
39DAP/reference	1.0006	0.591
41DAP/reference	0.91776	0.331
42DAP/reference	0.88331	0.361
43DAP/reference	0.75101	0.016
47DAP/reference	1.17703	0.133
52DAP/reference	0.70818	0.16
57DAP/reference	1.01479	0.742

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.7781	1
26DAP/20DAP	2.40089	0.21
34DAP/26DAP	0.77619	0.261
51DAP/34DAP	1.78189	0.034
52DAP/51DAP	0.81698	0.151
53DAP/52DAP	0.91617	0.64
55DAP/53DAP	0.793	0.149
57DAP/55DAP	0.97631	0.851
62DAP/57DAP	1.21782	0.678
68DAP/62DAP	1.01102	1
68DAP/14DAP	0.74356

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93684	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.84284	0.487
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.26376
Mature Eggplant/Ripe Tomato	0.83724	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.2813
1-1-2/M82	0.92543	1
12-2/M82	N/A	N/A
12-4/M82	0.86681	0.619
1-3/M82	0.77457
2-1-1/M82	0.7429
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	1.31413
4-3-2/M82	1.37047
4-3/M82	0.82817	0.72
5-3/M82	1.15569	0.455
6-2/M82	N/A	N/A
6-3/M82	0.86613
7-1/M82	N/A	N/A
7-2/M82	0.88275
9-3-2/M82	1.24418	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.76479	0.473
IL7-5/WTpooled	1.19469	0.587
IL7-3/WTpooled	0.8672	0.418
IL12-4/WTpooled	0.81362	0.71
IL1-4/WTpooled	0.8918	0.444
WT/WTpooled	1.03606	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	1.1182	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.49043	0.894
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.89674

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.21072	0.229
DC3000 delta B/DC3000 delta AB	1.06028	0.498

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	0.98463	1
Var 0h	1.17576	1
Var 12h I row2-row1	0.94898	0.856
Var 12h NI row2-row1	1.31526	0.649
Var 36h I row2-row1	1.09906	0.489
Var 36h NI row2-row1	1.04361	1
Var 60h I row2-row1	0.95456	0.952
Var 60h NI row2-row1	0.97002	1
Time course 0hI-0hNI	0.98242	0.947
Time course 12hI-12hNI	0.98964	0.968
Time course 36hI-36hNI	1.19032	0.007
Time course 60hI-60hNI	0.96255	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.90333	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	1.44746	0.239

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)	0.9229	1
Manapal/WT (red)	1.06617	1