Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.20.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04582	0.997
27DAP/17DAP	1.05153	1
39DAP/27DAP	0.88576	0.549
41DAP/39DAP	1.17619	0.535
42DAP/41DAP	0.95161	1
43DAP/42DAP	1.08718	1
47DAP/43DAP	1.06286	0.95
52DAP/47DAP	1.37087	0.534
57DAP/52DAP	0.87384	0.803

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32869	0.116
17DAP/reference	1.1126	0.239
27DAP/reference	1.05244	0.953
39DAP/reference	1.45166	0.014
41DAP/reference	1.28017	0.102
42DAP/reference	1.26987	0.039
43DAP/reference	0.78125	0.448
47DAP/reference	1.09436	0.463
52DAP/reference	1.06905	0.695
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39029	0.605
27DAP/17DAP	0.80095	0.418
39DAP/27DAP	0.96235	0.747
41DAP/39DAP	1.58127	0.152
42DAP/41DAP	0.96946	0.679
43DAP/42DAP	3.11225	0.122
47DAP/43DAP	1.19868	0.593
52DAP/47DAP	1.46228	0.286
57DAP/52DAP	1.81088	0.036
57DAP/7DAP	1.73794	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.63276	0.054
17DAP/reference	2.0388	0.007
27DAP/reference	1.86258	0.006
39DAP/reference	2.01446	0.006
41DAP/reference	2.0127	0.011
42DAP/reference	2.28994	0.007
43DAP/reference	3.03738	0.007
47DAP/reference	1.82721	0.514
52DAP/reference	2.79839	0.007
57DAP/reference	3.04765	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06058	0.67
17DAP/reference	1.0359	0.756
27DAP/reference	0.95213	0.407
39DAP/reference	0.94436	0.37
41DAP/reference	1.05479	0.831
42DAP/reference	1.20046	0.259
43DAP/reference	1.36201	0.473
47DAP/reference	1.33954	0.061
52DAP/reference	0.97034	0.407
57DAP/reference	1.22916	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66232	0.016
17DAP/reference	1.34854	0.248
27DAP/reference	2.27911	0.022
39DAP/reference	2.22592	0.013
41DAP/reference	1.8964	0.006
42DAP/reference	1.80576	0.017
43DAP/reference	1.85283	0.046
47DAP/reference	1.07083	0.585
52DAP/reference	2.32435	0.03
57DAP/reference	1.69909	0.204

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22875	0.966
26DAP/20DAP	0.67254	1
34DAP/26DAP	3.14652	0.542
51DAP/34DAP	0.87989	0.688
52DAP/51DAP	1.21461	1
53DAP/52DAP	0.87351	0.604
55DAP/53DAP	1.03221	0.951
57DAP/55DAP	1.05766
62DAP/57DAP	1.00167	1
68DAP/62DAP	0.95894	0.769
68DAP/14DAP	0.86099	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04586	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.17038	0.022
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.23581	1
Mature Eggplant/Ripe Tomato	0.04071	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90327	0.736
1-1-2/M82	0.94967	1
12-2/M82	1.19929	1
12-4/M82	1.02657	1
1-3/M82	0.93408	1
2-1-1/M82	1.14221	1
2-1/M82	1.23794	0.335
2-6/M82	1.07671	1
3-2/M82	0.87885
4-1-1/M82	1.19586	1
4-1/M82	1.07879
4-3-2/M82	1.08423	0.241
4-3/M82	0.8783	1
5-3/M82	0.84408	1
6-2/M82	0.99036	1
6-3/M82	1.05686	1
7-1/M82	0.93552
7-2/M82	0.81626
9-3-2/M82	0.93996

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72261
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.49729
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.76559	0.699
WT/WTpooled	0.6888

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	1.00792	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99202	1
DC3000/delta hrp 6h	0.71327	0.95
DC3000/delta hrp 12h	1.13589	1
DC3000/delta hrp 24h	0.84089	0.534

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	2.63008

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.45478	1
Exp 36h	1.58466	0.693
Exp 60h	1.73868	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92214	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.03906	0.736
Var 12h NI row2-row1	1.51878	1
Var 36h I row2-row1	1.91998	0.601
Var 36h NI row2-row1	1.79811	1
Var 60h I row2-row1	1.29366	0.562
Var 60h NI row2-row1	1.03304
Time course 0hI-0hNI	1.26889	0.662
Time course 12hI-12hNI	0.7754	0.752
Time course 36hI-36hNI	1.46994	0.01
Time course 60hI-60hNI	1.56824	0.009

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)	1.1399	0.372
transgenic ySAMdc/azygous control (breaker)	0.41306	0.124
transgenic ySAMdc/azygous control (red)	1.23748	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06568	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.3465	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91313	1
Manapal/WT (break)	0.95555	1
Manapal/WT (red)	1.2743	1