Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89013	0.475
27DAP/17DAP	0.90548	0.777
39DAP/27DAP	1.27142	0.804
41DAP/39DAP	0.88059	0.52
42DAP/41DAP	0.69844	0.774
43DAP/42DAP	0.83101	0.467
47DAP/43DAP	0.6891	0.205
52DAP/47DAP	1.03804	0.976
57DAP/52DAP	1.16396	0.641

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02466	0.9
17DAP/reference	1.11868	0.412
27DAP/reference	1.06087	0.559
39DAP/reference	1.05604	0.8
41DAP/reference	1.03039	0.91
42DAP/reference	1.00779	1
43DAP/reference	1.07641	0.118
47DAP/reference	0.97953	0.445
52DAP/reference	0.74953	0.017
57DAP/reference	0.80877	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8447	0.26
27DAP/17DAP	1.17785	0.506
39DAP/27DAP	0.67994	0.04
41DAP/39DAP	1.04863	0.774
42DAP/41DAP	1.11936	0.753
43DAP/42DAP	1.06195	0.627
47DAP/43DAP	0.86032	0.134
52DAP/47DAP	0.80113	0.171
57DAP/52DAP	1.02099	0.907
57DAP/7DAP	0.87815	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31777	0.044
17DAP/reference	1.35684	0.007
27DAP/reference	1.33031	0.009
39DAP/reference	0.96303	0.354
41DAP/reference	1.03401	0.918
42DAP/reference	0.88626	0.144
43DAP/reference	1.0879	0.053
47DAP/reference	1.15518	0.468
52DAP/reference	0.98256	0.523
57DAP/reference	0.92843	0.26

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05611	0.741
17DAP/reference	1.20516	0.029
27DAP/reference	1.20021	0.038
39DAP/reference	1.28252	0.016
41DAP/reference	1.06231	0.362
42DAP/reference	1.25171	0.053
43DAP/reference	1.24214	0.119
47DAP/reference	1.33043	0.008
52DAP/reference	1.15257	0.069
57DAP/reference	1.16003	0.048

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34035	0.027
17DAP/reference	1.1232	0.412
27DAP/reference	1.23078	0.057
39DAP/reference	1.1397	0.084
41DAP/reference	1.06425	0.471
42DAP/reference	0.96183	0.552
43DAP/reference	0.8776	0.048
47DAP/reference	0.98893	0.61
52DAP/reference	1.16375	0.405
57DAP/reference	0.94319	0.326

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78033	0.44
26DAP/20DAP	1.7729	0.098
34DAP/26DAP	0.89618	0.735
51DAP/34DAP	0.75079	0.067
52DAP/51DAP	1.17227	0.454
53DAP/52DAP	1.27318	0.783
55DAP/53DAP	1.14451	0.656
57DAP/55DAP	1.28353	0.764
62DAP/57DAP	1.12236	0.8
68DAP/62DAP	0.77851	0.227
68DAP/14DAP	0.81939	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.842	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.66462	0.058
Mature Green Tomato/Ripe Tomato	2.78692	0.016
Immature Eggplant/Mature Eggplant	0.78768	0.092
Ripe Pepper/Ripe Tomato	0.92188	1
Mature Eggplant/Ripe Tomato	2.97467	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.78292
1-1-2/M82	0.67497
12-2/M82	N/A	N/A
12-4/M82	1.00123	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	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.37146
4-3-2/M82	N/A	N/A
4-3/M82	0.85965
5-3/M82	1.07403
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.23425	0.925
7-2/M82	N/A	N/A
9-3-2/M82	0.92094

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20217	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.98619	1
IL7-3/WTpooled	1.27155	1
IL12-4/WTpooled	0.91197	1
IL1-4/WTpooled	1.07749	1
WT/WTpooled	0.90106	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	0.95478	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07887	0.921
DC3000/delta hrp 6h	1.06602	0.857
DC3000/delta hrp 12h	1.03462	1
DC3000/delta hrp 24h	0.85803	0.134

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.84321	0.132
DC3000 delta B/DC3000 delta AB	0.91167	0.393

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98291	1
Exp 36h	0.92669	0.661
Exp 60h	0.92061	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0602	1
Var 0h	1.04805	0.98
Var 12h I row2-row1	1.06499	0.692
Var 12h NI row2-row1	1.14033	0.34
Var 36h I row2-row1	1.1159	1
Var 36h NI row2-row1	0.82082	0.45
Var 60h I row2-row1	1.1262	1
Var 60h NI row2-row1	1.02844	1
Time course 0hI-0hNI	1.13557	0.764
Time course 12hI-12hNI	1.15098	0.125
Time course 36hI-36hNI	1.11253	0.166
Time course 60hI-60hNI	1.22327	0.096

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)	1.002	1
transgenic ySAMdc/azygous control (breaker)	0.88768	0.139
transgenic ySAMdc/azygous control (red)	0.97971	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0924	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10024	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24665	0.093
Manapal/WT (break)	1.04458	1
Manapal/WT (red)	1.51838	0.413