Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.4.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.70041	0.037
27DAP/17DAP	1.34968	0.636
39DAP/27DAP	1.14383	0.752
41DAP/39DAP	0.58764	0.042
42DAP/41DAP	1.86326	0.047
43DAP/42DAP	1.9632	0.299
47DAP/43DAP	2.11513	0.156
52DAP/47DAP	1.49972	0.379
57DAP/52DAP	1.46046	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.4724	0.024
17DAP/reference	0.56968	0.008
27DAP/reference	1.11854	0.966
39DAP/reference	0.88026	0.234
41DAP/reference	0.58858	0.012
42DAP/reference	1.00989	0.587
43DAP/reference	3.42643	0.007
47DAP/reference	8.59381	0.001
52DAP/reference	9.80477	0.007
57DAP/reference	7.36532	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30096	0.179
27DAP/17DAP	1.07626	0.867
39DAP/27DAP	1.03428	0.874
41DAP/39DAP	1.28626	0.973
42DAP/41DAP	1.74104	0.023
43DAP/42DAP	1.26992	0.212
47DAP/43DAP	1.22148	0.3
52DAP/47DAP	1.79263	0.111
57DAP/52DAP	1.40008	0.272
57DAP/7DAP	3.80003	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86184	0.27
17DAP/reference	0.93429	0.295
27DAP/reference	0.89716	0.215
39DAP/reference	1.21229	0.222
41DAP/reference	1.12268	0.507
42DAP/reference	0.94726	0.458
43DAP/reference	1.10655	1
47DAP/reference	1.09601	0.776
52DAP/reference	1.02876	1
57DAP/reference	0.88046	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.39767	0.007
17DAP/reference	0.50534	0.005
27DAP/reference	0.9082	0.257
39DAP/reference	0.70489	0.01
41DAP/reference	0.53573	0.005
42DAP/reference	0.78236	0.089
43DAP/reference	0.46976	0.004
47DAP/reference	0.64569	0.007
52DAP/reference	0.41459	0.003
57DAP/reference	0.33179	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8795	0.362
17DAP/reference	0.67336	0.071
27DAP/reference	0.62764	0.062
39DAP/reference	1.01409	0.693
41DAP/reference	0.95598	0.512
42DAP/reference	1.62696	0.049
43DAP/reference	1.71349	0.011
47DAP/reference	3.31042	0.006
52DAP/reference	3.42428	0.052
57DAP/reference	12.8294	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.46779	0.752
26DAP/20DAP	1.02622	1
34DAP/26DAP	0.92364	0.419
51DAP/34DAP	2.7588	0.033
52DAP/51DAP	0.68339	0.07
53DAP/52DAP	1.26175	0.58
55DAP/53DAP	0.94896	0.592
57DAP/55DAP	1.17986	0.188
62DAP/57DAP	4.53353
68DAP/62DAP	0.82439	0.406
68DAP/14DAP	1.16907

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	19.3256	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.35072	0.076
Mature Green Tomato/Ripe Tomato	0.08956	0.017
Immature Eggplant/Mature Eggplant	0.66927	0.089
Ripe Pepper/Ripe Tomato	0.09944	0.224
Mature Eggplant/Ripe Tomato	0.09376	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.39773	0.551
1-1-2/M82	1.43717	1
12-2/M82	1.06822	1
12-4/M82	0.99518	1
1-3/M82	2.33175	0.277
2-1-1/M82	0.9399	0.784
2-1/M82	0.97752	1
2-6/M82	1.08816	0.452
3-2/M82	1.15403	0.84
4-1-1/M82	1.25634	1
4-1/M82	1.12235	1
4-3-2/M82	1.2543	0.508
4-3/M82	0.99071	1
5-3/M82	0.87887	0.49
6-2/M82	0.36876	0.481
6-3/M82	0.93604	1
7-1/M82	0.99528	1
7-2/M82	1.16171	0.282
9-3-2/M82	2.06496	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.82464	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.23734	1
IL12-4/WTpooled	0.81639	0.71
IL1-4/WTpooled	1.396
WT/WTpooled	1.89065	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00681	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.90915	1
DC3000/delta hrp 24h	1.09698	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.52615
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91221	1
Exp 36h	N/A	N/A
Exp 60h	1.12385	1

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	1.11172	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.07929	0.612
transgenic ySAMdc/azygous control (breaker)	1.05797	1
transgenic ySAMdc/azygous control (red)	0.91086	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90905	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.04317	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.7564	0.14
Manapal/WT (break)	1.01895	1
Manapal/WT (red)	0.5294	0.181