Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13233	0.697
27DAP/17DAP	0.89185	0.736
39DAP/27DAP	0.85419	0.529
41DAP/39DAP	0.95776	0.659
42DAP/41DAP	0.95645	1
43DAP/42DAP	1.06193	1
47DAP/43DAP	1.21743	0.542
52DAP/47DAP	1.32191	0.667
57DAP/52DAP	1.17672	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05799	0.567
17DAP/reference	0.99581	0.904
27DAP/reference	1.15301	0.073
39DAP/reference	1.06346	0.524
41DAP/reference	1.10572	0.265
42DAP/reference	0.96748	0.337
43DAP/reference	0.95291	0.5
47DAP/reference	0.99628	0.636
52DAP/reference	0.94525	0.33
57DAP/reference	0.69622	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29348	0.151
27DAP/17DAP	1.17372	0.557
39DAP/27DAP	1.11688	0.707
41DAP/39DAP	1.3397	0.347
42DAP/41DAP	0.89472	0.37
43DAP/42DAP	0.83458	0.235
47DAP/43DAP	1.32723	0.182
52DAP/47DAP	1.15319	0.552
57DAP/52DAP	1.46156	0.036
57DAP/7DAP	1.01119	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98207	0.445
17DAP/reference	0.91939	0.056
27DAP/reference	0.81996	0.013
39DAP/reference	0.87988	0.027
41DAP/reference	0.82676	0.022
42DAP/reference	0.88605	0.117
43DAP/reference	0.85834	0.04
47DAP/reference	0.85727	0.057
52DAP/reference	0.84515	0.035
57DAP/reference	0.92992	0.08

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96039	0.518
17DAP/reference	0.92533	0.253
27DAP/reference	0.793	0.049
39DAP/reference	0.87451	0.208
41DAP/reference	0.8128	0.052
42DAP/reference	0.86694	0.089
43DAP/reference	0.95227	0.478
47DAP/reference	0.86439	0.047
52DAP/reference	0.95127	0.121
57DAP/reference	0.98076	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85103	0.112
17DAP/reference	0.9375	0.477
27DAP/reference	0.86832	0.042
39DAP/reference	0.89987	0.046
41DAP/reference	0.93185	0.119
42DAP/reference	0.77195	0.059
43DAP/reference	0.77228	0.068
47DAP/reference	0.95531	0.434
52DAP/reference	0.96004	0.623
57DAP/reference	0.65637	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18592	0.735
26DAP/20DAP	1.86458	0.141
34DAP/26DAP	0.75977	0.219
51DAP/34DAP	1.79681	0.036
52DAP/51DAP	0.85157	1
53DAP/52DAP	1.61994	0.075
55DAP/53DAP	1.2281	0.712
57DAP/55DAP	1.08503	0.975
62DAP/57DAP	1.0706	0.902
68DAP/62DAP	1.10993	0.962
68DAP/14DAP	1.25278	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.41202	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73894	0.206
Mature Green Tomato/Ripe Tomato	0.84969	0.487
Immature Eggplant/Mature Eggplant	1.77114	0.05
Ripe Pepper/Ripe Tomato	2.02045	0.256
Mature Eggplant/Ripe Tomato	1.11518	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87457
1-1-2/M82	1.0098	1
12-2/M82	1.15301	0.61
12-4/M82	0.94073
1-3/M82	0.85404	0.501
2-1-1/M82	0.82042	1
2-1/M82	N/A	N/A
2-6/M82	0.9868	1
3-2/M82	1.20462	0.463
4-1-1/M82	1.11158	1
4-1/M82	N/A	N/A
4-3-2/M82	0.50761
4-3/M82	0.82562	0.611
5-3/M82	1.13723	1
6-2/M82	0.73201	1
6-3/M82	1.14264	1
7-1/M82	1.03534
7-2/M82	0.96827	0.578
9-3-2/M82	0.92305

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87636	0.321
IL2-6/WTpooled	2.10619	0.659
IL7-5/WTpooled	1.15058	0.792
IL7-3/WTpooled	1.47906
IL12-4/WTpooled	1.87613	0.516
IL1-4/WTpooled	0.92479	0.834
WT/WTpooled	1.13069	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	1.07618	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0348	0.921
DC3000/delta hrp 6h	0.97828	0.95
DC3000/delta hrp 12h	0.94586	1
DC3000/delta hrp 24h	1.16161	0.118

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29075	0.25
DC3000 delta B/DC3000 delta AB	1.25699	0.169

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0522	1
Exp 36h	1.66075	1
Exp 60h	1.35428	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97412	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.26535	0.379
Var 12h NI row2-row1	1.25035	0.649
Var 36h I row2-row1	1.05654	1
Var 36h NI row2-row1	1.04365	1
Var 60h I row2-row1	0.76167	0.285
Var 60h NI row2-row1	0.94543	1
Time course 0hI-0hNI	0.94687	0.548
Time course 12hI-12hNI	1.01781	0.888
Time course 36hI-36hNI	1.2555	0.025
Time course 60hI-60hNI	1.87461	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)	1.12023	0.297
transgenic ySAMdc/azygous control (breaker)	1.55674	0.162
transgenic ySAMdc/azygous control (red)	0.89263	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00813	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16833	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81367	0.172
Manapal/WT (break)	0.90544	1
Manapal/WT (red)	1.12545	0.413