Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.10.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30327	0.463
27DAP/17DAP	0.54834	0.068
39DAP/27DAP	0.72043	0.421
41DAP/39DAP	0.5956	0.053
42DAP/41DAP	0.78057	1
43DAP/42DAP	1.12932	1
47DAP/43DAP	0.36102	0.049
52DAP/47DAP	1.1895	0.657
57DAP/52DAP	1.23562	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64525	0.045
17DAP/reference	0.40607	0.007
27DAP/reference	0.42799	0.012
39DAP/reference	0.42064	0.015
41DAP/reference	0.20705	0.008
42DAP/reference	0.2642	0.001
43DAP/reference	0.17651	0.012
47DAP/reference	0.1506	0.001
52DAP/reference	0.1614	0.012
57DAP/reference	0.23016	0.006

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.03975	0.036
27DAP/17DAP	0.67899	0.241
39DAP/27DAP	0.24301	0.028
41DAP/39DAP	1.67186	0.019
42DAP/41DAP	0.77433	0.049
43DAP/42DAP	0.35115	0.022
47DAP/43DAP	0.69427	0.048
52DAP/47DAP	0.91332	0.746
57DAP/52DAP	0.93784	0.646
57DAP/7DAP	0.25679	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01801	1
17DAP/reference	0.75751	0.011
27DAP/reference	0.43245	0.01
39DAP/reference	0.36796	0.011
41DAP/reference	0.24644	0.009
42DAP/reference	0.24773	0.01
43DAP/reference	0.2161	0.01
47DAP/reference	0.17075	0.026
52DAP/reference	0.30651	0.011
57DAP/reference	0.31901	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.46408	0.011
17DAP/reference	0.46904	0.011
27DAP/reference	0.54534	0.022
39DAP/reference	0.28719	0.008
41DAP/reference	0.40277	0.007
42DAP/reference	0.24848	0.01
43DAP/reference	0.11646	0.002
47DAP/reference	0.20177	0.01
52DAP/reference	0.1565	0.003
57DAP/reference	0.08047	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.42967	0.017
17DAP/reference	1.83733	0.189
27DAP/reference	1.44884	0.038
39DAP/reference	1.1954	0.437
41DAP/reference	0.68155	0.025
42DAP/reference	0.36435	0.016
43DAP/reference	0.49235	0.024
47DAP/reference	0.22968	0.004
52DAP/reference	0.23168	0.047
57DAP/reference	1.11362	0.933

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04697	1
26DAP/20DAP	1.20716	0.674
34DAP/26DAP	0.86454	0.548
51DAP/34DAP	0.39026	0.049
52DAP/51DAP	0.92081	1
53DAP/52DAP	0.54913	0.049
55DAP/53DAP	0.54785	0.035
57DAP/55DAP	1.22329	0.793
62DAP/57DAP	1.4545	0.013
68DAP/62DAP	1.27677	0.858
68DAP/14DAP	0.49142	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.3369	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.94656	0.058
Mature Green Tomato/Ripe Tomato	22.3376	0.015
Immature Eggplant/Mature Eggplant	0.46564	0.062
Ripe Pepper/Ripe Tomato	35.7186	0.258
Mature Eggplant/Ripe Tomato	27.9779	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.71536
12-2/M82	N/A	N/A
12-4/M82	0.54177
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	2.33671	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	2.02186
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82116	0.247
IL2-6/WTpooled	1.07534
IL7-5/WTpooled	1.00619	1
IL7-3/WTpooled	1.065
IL12-4/WTpooled	0.82766	0.71
IL1-4/WTpooled	0.93332	0.834
WT/WTpooled	0.75295	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	1.10899	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9675	1
DC3000/delta hrp 6h	0.91575	0.95
DC3000/delta hrp 12h	1.07255	1
DC3000/delta hrp 24h	0.95611	0.67

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95894	0.171
DC3000 delta B/DC3000 delta AB	0.71711	0.058

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02649	1
Exp 36h	0.86558	0.589
Exp 60h	0.83541	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03421	1
Var 0h	0.89844	1
Var 12h I row2-row1	0.99713	1
Var 12h NI row2-row1	1.07803	1
Var 36h I row2-row1	0.77872	1
Var 36h NI row2-row1	0.94077	0.478
Var 60h I row2-row1	1.63621	0.562
Var 60h NI row2-row1	0.93832	0.63
Time course 0hI-0hNI	1.02242	0.852
Time course 12hI-12hNI	1.04931	0.734
Time course 36hI-36hNI	1.08028	0.28
Time course 60hI-60hNI	0.63934	0.081

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)	1.1212	0.798
transgenic ySAMdc/azygous control (breaker)	4.51517	0.162
transgenic ySAMdc/azygous control (red)	1.44784	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.42907	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71424	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	19.4016	0.086
Manapal/WT (break)	16.8954	0.123
Manapal/WT (red)	2.93748	0.222