Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.20.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15193	0.681
27DAP/17DAP	1.40758	0.833
39DAP/27DAP	0.76313	0.487
41DAP/39DAP	1.08507	0.985
42DAP/41DAP	1.32172	0.397
43DAP/42DAP	1.07812	1
47DAP/43DAP	1.12207	0.943
52DAP/47DAP	1.53926	0.645
57DAP/52DAP	1.19162	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9917	0.693
17DAP/reference	0.98413	0.701
27DAP/reference	0.98398	0.683
39DAP/reference	1.02026	0.581
41DAP/reference	0.93998	0.434
42DAP/reference	0.93373	0.01
43DAP/reference	0.99429	0.861
47DAP/reference	0.96767	0.207
52DAP/reference	0.9446	0.162
57DAP/reference	0.90342	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96958	0.613
27DAP/17DAP	0.95851	0.782
39DAP/27DAP	1.09969	0.27
41DAP/39DAP	1.03349	1
42DAP/41DAP	0.9915	0.84
43DAP/42DAP	0.93965	0.256
47DAP/43DAP	1.02921	0.941
52DAP/47DAP	0.99294	0.941
57DAP/52DAP	1.02598	0.858
57DAP/7DAP	1.09514	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11135	0.444
17DAP/reference	1.02051	0.754
27DAP/reference	0.9808	0.494
39DAP/reference	1.13774	0.166
41DAP/reference	1.09239	0.445
42DAP/reference	1.14578	0.132
43DAP/reference	1.02587	0.873
47DAP/reference	1.0105	1
52DAP/reference	0.83678	0.028
57DAP/reference	0.94319	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95834	0.564
17DAP/reference	0.89854	0.05
27DAP/reference	0.88599	0.084
39DAP/reference	0.86534	0.048
41DAP/reference	0.94827	0.242
42DAP/reference	0.95734	0.212
43DAP/reference	0.91745	0.292
47DAP/reference	0.98649	0.527
52DAP/reference	0.9407	0.093
57DAP/reference	0.91736	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96162	0.391
17DAP/reference	0.89632	0.21
27DAP/reference	0.98999	0.691
39DAP/reference	0.94646	0.222
41DAP/reference	0.89825	0.148
42DAP/reference	0.82087	0.036
43DAP/reference	0.7492	0.048
47DAP/reference	0.97011	0.421
52DAP/reference	0.85635	0.319
57DAP/reference	0.76153	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15975	0.586
26DAP/20DAP	0.86826	0.512
34DAP/26DAP	0.93186	0.783
51DAP/34DAP	0.90409	0.171
52DAP/51DAP	1.01155	0.848
53DAP/52DAP	0.95628	0.811
55DAP/53DAP	1.03887	0.964
57DAP/55DAP	0.98966	0.911
62DAP/57DAP	1.13677	0.767
68DAP/62DAP	0.94994	0.747
68DAP/14DAP	1.02006	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91992	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.16644
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.259
Ripe Pepper/Ripe Tomato	0.31622
Mature Eggplant/Ripe Tomato	0.76564	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97776	0.961
1-1-2/M82	1.02834	0.977
12-2/M82	0.95648	0.955
12-4/M82	1.10862
1-3/M82	0.84921
2-1-1/M82	1.04159
2-1/M82	N/A	N/A
2-6/M82	1.19092	0.452
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.08025
4-3-2/M82	1.10504
4-3/M82	0.84093	1
5-3/M82	1.01235	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.00121
7-2/M82	1.06846	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

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

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	0.65745

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97814	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.08474	1
DC3000/delta hrp 24h	1.04267	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16722	0.102
DC3000 delta B/DC3000 delta AB	1.09238	0.449

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.2911	1
Exp 36h	1.31919	0.489
Exp 60h	1.64864	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94414	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.08136	0.348
Var 12h NI row2-row1	0.99228	0.906
Var 36h I row2-row1	1.07678	1
Var 36h NI row2-row1	0.99742	0.852
Var 60h I row2-row1	1.1922	1
Var 60h NI row2-row1	0.89407	0.818
Time course 0hI-0hNI	1.14441	0.833
Time course 12hI-12hNI	1.0082	1
Time course 36hI-36hNI	0.8903	0.111
Time course 60hI-60hNI	1.27679	0.069

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)	0.8771	0.348
transgenic ySAMdc/azygous control (breaker)	1.04178	1
transgenic ySAMdc/azygous control (red)	1.0157	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9983	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.62638	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96958	1
Manapal/WT (break)	0.93487	1
Manapal/WT (red)	1.04412	1