Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.19.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79515	0.265
27DAP/17DAP	0.74926	0.33
39DAP/27DAP	1.44632	0.258
41DAP/39DAP	0.81023	0.365
42DAP/41DAP	1.16152	0.871
43DAP/42DAP	1.12209	1
47DAP/43DAP	0.74151	0.231
52DAP/47DAP	1.03419	0.74
57DAP/52DAP	1.2111	0.886

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16968	0.334
17DAP/reference	1.812	0.012
27DAP/reference	1.41705	0.018
39DAP/reference	1.86068	0.01
41DAP/reference	1.67107	0.171
42DAP/reference	1.31501	0.08
43DAP/reference	1.27355	0.812
47DAP/reference	1.02585	0.535
52DAP/reference	1.36067	0.007
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99709	0.871
27DAP/17DAP	0.95756	0.821
39DAP/27DAP	0.77616	0.065
41DAP/39DAP	1.09499	0.837
42DAP/41DAP	1.0871	0.663
43DAP/42DAP	0.92879	0.321
47DAP/43DAP	0.98447	0.923
52DAP/47DAP	0.98743	0.925
57DAP/52DAP	1.47749	0.357
57DAP/7DAP	1.16062	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93488	0.296
17DAP/reference	0.78597	0.019
27DAP/reference	0.83886	0.045
39DAP/reference	0.87153	0.034
41DAP/reference	0.8958	0.184
42DAP/reference	0.87567	0.044
43DAP/reference	0.80636	0.023
47DAP/reference	1.02148	1
52DAP/reference	0.85296	0.035
57DAP/reference	0.76567	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35618	0.23
17DAP/reference	1.31548	0.311
27DAP/reference	1.25639	0.178
39DAP/reference	1.06534	1
41DAP/reference	1.06457	0.629
42DAP/reference	1.35321	0.038
43DAP/reference	1.58716	0.056
47DAP/reference	1.22116	0.027
52DAP/reference	1.52916	0.013
57DAP/reference	1.73395	0.119

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81694	0.112
17DAP/reference	1.05352	0.767
27DAP/reference	0.81864	0.14
39DAP/reference	0.80502	0.058
41DAP/reference	0.80882	0.07
42DAP/reference	0.94334	0.552
43DAP/reference	0.95468	0.468
47DAP/reference	1.49145	0.01
52DAP/reference	0.65516	0.121
57DAP/reference	0.81193	0.086

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86356	1
26DAP/20DAP	0.93018	1
34DAP/26DAP	1.10239	1
51DAP/34DAP	1.17378	0.613
52DAP/51DAP	1.04771	0.776
53DAP/52DAP	0.97388	0.862
55DAP/53DAP	0.85815	0.218
57DAP/55DAP	1.03778	0.955
62DAP/57DAP	0.99137	0.994
68DAP/62DAP	0.84756	0.769
68DAP/14DAP	1.45539

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44302	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.06131	0.038
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.07688	1
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	0.91864
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	1.28732
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75142	0.243
IL2-6/WTpooled	0.91857	1
IL7-5/WTpooled	0.96852	1
IL7-3/WTpooled	0.69861	0.418
IL12-4/WTpooled	1.09617	0.891
IL1-4/WTpooled	0.90169	1
WT/WTpooled	1.03514	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	0.82709	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06908	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.21243	1
DC3000/delta hrp 24h	0.57222	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75487	0.196
DC3000 delta B/DC3000 delta AB	0.6782	0.024

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	N/A	N/A
Var 0h	2.93037	0.936
Var 12h I row2-row1	0.73644	0.338
Var 12h NI row2-row1	0.99245	1
Var 36h I row2-row1	0.88439	0.34
Var 36h NI row2-row1	1.08938	1
Var 60h I row2-row1	1.6712	0.562
Var 60h NI row2-row1	0.95955	1
Time course 0hI-0hNI	1.00721	1
Time course 12hI-12hNI	1.12427	0.409
Time course 36hI-36hNI	0.87125	0.043
Time course 60hI-60hNI	0.15952	0.005

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.44524	0.578

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8796	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27905	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A