Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.6.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88397	0.373
27DAP/17DAP	1.61243	0.332
39DAP/27DAP	1.41109	0.254
41DAP/39DAP	1.07569	0.844
42DAP/41DAP	1.73097	0.083
43DAP/42DAP	1.72249	0.16
47DAP/43DAP	1.15698	0.42
52DAP/47DAP	1.0106	0.758
57DAP/52DAP	0.85881	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89855	0.14
17DAP/reference	1.13502	0.166
27DAP/reference	0.99901	0.847
39DAP/reference	1.09225	0.218
41DAP/reference	1.10686	0.421
42DAP/reference	0.90159	0.182
43DAP/reference	1.13924	0.202
47DAP/reference	1.03156	1
52DAP/reference	1.03533	0.951
57DAP/reference	0.95478	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18121	0.687
27DAP/17DAP	1.40887	0.061
39DAP/27DAP	1.76487	0.042
41DAP/39DAP	0.59755	0.014
42DAP/41DAP	1.1043	0.487
43DAP/42DAP	1.60047	0.016
47DAP/43DAP	0.92173	0.606
52DAP/47DAP	1.19612	0.432
57DAP/52DAP	1.04749	0.832
57DAP/7DAP	2.23182	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78912	0.122
17DAP/reference	0.75511	0.017
27DAP/reference	0.85285	0.101
39DAP/reference	1.03071	0.779
41DAP/reference	0.94693	0.357
42DAP/reference	0.99434	0.582
43DAP/reference	1.10088	0.14
47DAP/reference	0.98679	0.671
52DAP/reference	0.8574	0.066
57DAP/reference	0.87166	0.105

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08327	0.181
17DAP/reference	0.90957	0.182
27DAP/reference	0.86257	0.111
39DAP/reference	0.93887	0.348
41DAP/reference	0.92355	0.061
42DAP/reference	0.95724	0.392
43DAP/reference	0.91286	0.298
47DAP/reference	0.89655	0.164
52DAP/reference	0.96657	0.407
57DAP/reference	1.15877	0.437

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75994	0.127
17DAP/reference	0.92817	0.47
27DAP/reference	0.79543	0.069
39DAP/reference	0.87648	0.022
41DAP/reference	0.84537	0.058
42DAP/reference	1.01875	0.816
43DAP/reference	1.14145	0.432
47DAP/reference	0.94396	0.383
52DAP/reference	1.3237	0.284
57DAP/reference	2.25559	0.436

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2483	0.966
26DAP/20DAP	0.99063	1
34DAP/26DAP	0.75802	0.606
51DAP/34DAP	1.25497	0.719
52DAP/51DAP	0.77905	1
53DAP/52DAP	1.13963	0.623
55DAP/53DAP	1.04606	0.876
57DAP/55DAP	1.36583	0.376
62DAP/57DAP	1.00503	1
68DAP/62DAP	0.98808	0.885
68DAP/14DAP	0.97141	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.82651	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.49221	0.096
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.25636
Mature Eggplant/Ripe Tomato	0.28853	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.83113	0.591
1-1-2/M82	1.2248	1
12-2/M82	1.03072	1
12-4/M82	1.39102	1
1-3/M82	1.77013	0.248
2-1-1/M82	N/A	N/A
2-1/M82	0.81268
2-6/M82	1.4765	0.335
3-2/M82	0.73437
4-1-1/M82	1.46071	0.977
4-1/M82	1.13784	1
4-3-2/M82	1.48385
4-3/M82	1.79085	1
5-3/M82	1.21468	1
6-2/M82	N/A	N/A
6-3/M82	1.02886	1
7-1/M82	0.9165	0.803
7-2/M82	1.39553	0.324
9-3-2/M82	1.43426	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97323	1
IL2-6/WTpooled	0.96483	1
IL7-5/WTpooled	1.02694	1
IL7-3/WTpooled	1.05572	1
IL12-4/WTpooled	1.00776	0.891
IL1-4/WTpooled	1.28352	1
WT/WTpooled	1.04995	0.999

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	0.98037	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97358	1
DC3000/delta hrp 6h	4.87287	0.978
DC3000/delta hrp 12h	0.93266
DC3000/delta hrp 24h	0.56521	0.034

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	1.12248	1
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	1.04401	1
Var 0h	0.87299	0.936
Var 12h I row2-row1	1.12267	0.654
Var 12h NI row2-row1	0.98097	0.906
Var 36h I row2-row1	1.00978	1
Var 36h NI row2-row1	0.93702	0.791
Var 60h I row2-row1	1.07842	0.562
Var 60h NI row2-row1	1.03341	1
Time course 0hI-0hNI	0.92666	0.501
Time course 12hI-12hNI	0.8654	0.066
Time course 36hI-36hNI	0.77477	0.024
Time course 60hI-60hNI	0.44947	0.006

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)	1.2716	0.294
transgenic ySAMdc/azygous control (breaker)	1.14633	1
transgenic ySAMdc/azygous control (red)	1.43516	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06596	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11526	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85614	0.172
Manapal/WT (break)	0.89761	1
Manapal/WT (red)	0.92898	0.274