Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.14.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78348	0.331
27DAP/17DAP	2.10049	0.625
39DAP/27DAP	3.34457	0.02
41DAP/39DAP	1.08324	0.938
42DAP/41DAP	1.17431	1
43DAP/42DAP	1.14354	1
47DAP/43DAP	1.72477	0.334
52DAP/47DAP	1.09267	0.967
57DAP/52DAP	2.19617	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.51273	0.024
17DAP/reference	0.61109	0.007
27DAP/reference	0.66855	0.012
39DAP/reference	1.30707	0.722
41DAP/reference	0.77606	0.049
42DAP/reference	1.35019	0.007
43DAP/reference	1.27342	0.007
47DAP/reference	2.576	0.001
52DAP/reference	1.57941	0.012
57DAP/reference	1.82038	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26946	0.719
27DAP/17DAP	1.09716	0.826
39DAP/27DAP	1.91142	0.41
41DAP/39DAP	0.43268	0.013
42DAP/41DAP	1.50582	0.075
43DAP/42DAP	1.76729	0.056
47DAP/43DAP	1.06463	0.772
52DAP/47DAP	1.0638	0.862
57DAP/52DAP	1.43676	0.352
57DAP/7DAP	2.39034

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88909	0.27
17DAP/reference	0.99532	0.599
27DAP/reference	0.95317	0.325
39DAP/reference	1.32941	0.028
41DAP/reference	1.86748	0.008
42DAP/reference	1.58762	0.012
43DAP/reference	1.43894	0.012
47DAP/reference	1.36488	0.039
52DAP/reference	1.97348	0.007
57DAP/reference	2.78395	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.45938	0.008
17DAP/reference	0.41208	0.004
27DAP/reference	0.80106	0.084
39DAP/reference	0.7993	0.083
41DAP/reference	1.10557	0.562
42DAP/reference	1.03362	0.915
43DAP/reference	0.96536	0.478
47DAP/reference	3.66294	0.008
52DAP/reference	1.15252	0.074
57DAP/reference	1.36757	0.127

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79347	0.057
17DAP/reference	0.82834	0.308
27DAP/reference	1.22422	0.092
39DAP/reference	1.53743	0.01
41DAP/reference	1.20499	0.038
42DAP/reference	1.58802	0.024
43DAP/reference	1.39625	0.021
47DAP/reference	2.26543	0.005
52DAP/reference	2.60941	0.028
57DAP/reference	1.55537	0.511

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06167	0.966
26DAP/20DAP	1.37889	0.226
34DAP/26DAP	1.26616	0.819
51DAP/34DAP	3.16023	0.032
52DAP/51DAP	0.81021	1
53DAP/52DAP	1.73881	0.031
55DAP/53DAP	0.46874	0.017
57DAP/55DAP	0.88918	0.587
62DAP/57DAP	2.50823	0.002
68DAP/62DAP	0.74831	0.579
68DAP/14DAP	4.20357	0.043

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24137	0.391

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.03103	0.045
Mature Green Tomato/Ripe Tomato	0.12748
Immature Eggplant/Mature Eggplant	42.318	0.04
Ripe Pepper/Ripe Tomato	1.55427	1
Mature Eggplant/Ripe Tomato	0.0401	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85753	0.587
1-1-2/M82	1.12727	1
12-2/M82	1.2139	1
12-4/M82	0.8584	0.298
1-3/M82	3.37688	0.277
2-1-1/M82	1.05934	0.764
2-1/M82	1.01158	1
2-6/M82	1.32668	0.452
3-2/M82	1.20849
4-1-1/M82	2.07311	0.977
4-1/M82	0.46844
4-3-2/M82	2.63754
4-3/M82	1.31058	0.268
5-3/M82	0.33475	0.395
6-2/M82	0.6237	0.481
6-3/M82	1.07308	1
7-1/M82	0.59068	0.452
7-2/M82	3.23232	0.302
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12549	0.277
IL2-6/WTpooled	1.047	1
IL7-5/WTpooled	0.43597	0.559
IL7-3/WTpooled	1.14004	1
IL12-4/WTpooled	1.13328	0.374
IL1-4/WTpooled	1.02094	1
WT/WTpooled	1.01618	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	1.48031	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.05192	1
DC3000/delta hrp 12h	1.12295	1
DC3000/delta hrp 24h	1.02175	0.988

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	3.54352	0.079

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	0.97345	1
Var 0h	3.9082	0.782
Var 12h I row2-row1	0.95271	0.856
Var 12h NI row2-row1	2.16759	0.34
Var 36h I row2-row1	0.90201	1
Var 36h NI row2-row1	0.7799	0.61
Var 60h I row2-row1	0.53041	0.285
Var 60h NI row2-row1	0.55263	0.301
Time course 0hI-0hNI	1.12573	0.63
Time course 12hI-12hNI	1.50522	0.117
Time course 36hI-36hNI	4.18167	0.005
Time course 60hI-60hNI	18.0662	0.008

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)	0.60745	0.314
transgenic ySAMdc/azygous control (breaker)	0.99892	1
transgenic ySAMdc/azygous control (red)	1.12124	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.8075	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.56407	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.36109	0.086
Manapal/WT (break)	5.72723	0.183
Manapal/WT (red)	1.39388	0.126