Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.473	0.977
27DAP/17DAP	2.20797	0.437
39DAP/27DAP	0.6951	0.421
41DAP/39DAP	0.88303	0.527
42DAP/41DAP	1.039	0.994
43DAP/42DAP	1.05445	1
47DAP/43DAP	0.53101	0.069
52DAP/47DAP	5.62217	0.032
57DAP/52DAP	0.56374	0.572

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27317	0.052
17DAP/reference	1.14088	0.492
27DAP/reference	1.20326	0.446
39DAP/reference	0.95562	0.624
41DAP/reference	1.06398	0.624
42DAP/reference	1.99716	0.001
43DAP/reference	0.89266	0.331
47DAP/reference	1.06343	1
52DAP/reference	1.15785	0.195
57DAP/reference	1.24213	0.057

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19618	0.899
27DAP/17DAP	1.00616	0.943
39DAP/27DAP	1.20769	0.231
41DAP/39DAP	1.74064	0.02
42DAP/41DAP	0.71399	0.098
43DAP/42DAP	1.31913	0.147
47DAP/43DAP	1.23365	0.735
52DAP/47DAP	2.97686	0.033
57DAP/52DAP	4.9619	0.033
57DAP/7DAP	3.87019	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01265	1
17DAP/reference	1.69498	0.023
27DAP/reference	0.92125	0.231
39DAP/reference	1.38854	0.015
41DAP/reference	1.73332	0.008
42DAP/reference	2.14108	0.013
43DAP/reference	3.34182	0.006
47DAP/reference	1.23266	0.259
52DAP/reference	1.89697	0.007
57DAP/reference	4.30987	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.937	0.639
17DAP/reference	1.41106	0.07
27DAP/reference	0.84347	0.173
39DAP/reference	1.23955	0.213
41DAP/reference	1.39293	0.008
42DAP/reference	1.25387	0.049
43DAP/reference	0.95299	0.494
47DAP/reference	1.33481	0.024
52DAP/reference	1.34744	0.017
57DAP/reference	1.17134	0.827

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71919	0.032
17DAP/reference	1.2836	0.168
27DAP/reference	1.42622	0.024
39DAP/reference	1.32575	0.012
41DAP/reference	1.20089	0.222
42DAP/reference	1.09971	0.566
43DAP/reference	1.90744	0.007
47DAP/reference	1.44047	0.073
52DAP/reference	1.68732	0.091
57DAP/reference	1.45674	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86712	1
26DAP/20DAP	0.67488
34DAP/26DAP	1.12339	1
51DAP/34DAP	1.02411	0.893
52DAP/51DAP	1.43757	0.404
53DAP/52DAP	1.56587	0.384
55DAP/53DAP	0.93391	0.735
57DAP/55DAP	0.99877	0.927
62DAP/57DAP	0.9696	0.994
68DAP/62DAP	1.50149
68DAP/14DAP	2.05168

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.29544	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.3879	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.31277	0.224
Mature Eggplant/Ripe Tomato	0.28419	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.76677	1
12-2/M82	5.28873
12-4/M82	0.44851	0.262
1-3/M82	3.24216
2-1-1/M82	2.09707
2-1/M82	N/A	N/A
2-6/M82	0.99712
3-2/M82	1.03384
4-1-1/M82	1.95859	1
4-1/M82	N/A	N/A
4-3-2/M82	1.2603	1
4-3/M82	1.49478	1
5-3/M82	0.27542	0.49
6-2/M82	5.48364
6-3/M82	0.45118	0.916
7-1/M82	0.47322
7-2/M82	N/A	N/A
9-3-2/M82	0.53023	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.24114
IL2-6/WTpooled	0.91034	0.337
IL7-5/WTpooled	0.63018	0.343
IL7-3/WTpooled	0.83853	0.294
IL12-4/WTpooled	1.18856	0.737
IL1-4/WTpooled	0.8703	0.834
WT/WTpooled	1.08923	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	1.59861	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14001	0.715
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.91233	1
DC3000/delta hrp 24h	0.94621	0.7

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	1.05351	1
Var 0h	0.99654	1
Var 12h I row2-row1	1.12017	1
Var 12h NI row2-row1	0.8823	0.906
Var 36h I row2-row1	1.1455	1
Var 36h NI row2-row1	0.51505	0.743
Var 60h I row2-row1	0.89795	0.832
Var 60h NI row2-row1	0.9641	1
Time course 0hI-0hNI	1.24948	0.537
Time course 12hI-12hNI	2.06154	0.246
Time course 36hI-36hNI	3.41035	0.004
Time course 60hI-60hNI	17.3119	0.008

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)	1.45843	0.384
transgenic ySAMdc/azygous control (breaker)	0.53792	0.139
transgenic ySAMdc/azygous control (red)	1.12003	0.92

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	0.28964	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.71047	0.172
Manapal/WT (break)	1.04892	1
Manapal/WT (red)	0.71325	0.181