Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57536	0.075
27DAP/17DAP	1.15846	0.881
39DAP/27DAP	2.03166	0.157
41DAP/39DAP	0.73052	0.099
42DAP/41DAP	1.64699	0.228
43DAP/42DAP	0.91566	0.846
47DAP/43DAP	0.70761	0.117
52DAP/47DAP	0.94397	0.705
57DAP/52DAP	0.819	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18074	0.218
17DAP/reference	0.93663	0.393
27DAP/reference	0.8461	0.095
39DAP/reference	0.75404	0.016
41DAP/reference	0.77347	0.039
42DAP/reference	1.17206	0.007
43DAP/reference	1.02264	0.838
47DAP/reference	0.98639	0.535
52DAP/reference	0.84486	0.044
57DAP/reference	0.95154	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03176	0.99
27DAP/17DAP	1.16016	0.909
39DAP/27DAP	0.8786	0.45
41DAP/39DAP	1.46461	0.018
42DAP/41DAP	0.82488	0.134
43DAP/42DAP	0.79121	0.041
47DAP/43DAP	1.31093	0.14
52DAP/47DAP	0.99608	0.941
57DAP/52DAP	0.85133	0.382
57DAP/7DAP	0.59378	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95335	0.495
17DAP/reference	0.91174	0.167
27DAP/reference	1.28201	0.01
39DAP/reference	0.80654	0.056
41DAP/reference	0.95582	0.298
42DAP/reference	1.04778	0.686
43DAP/reference	1.15689	0.188
47DAP/reference	1.09602	0.21
52DAP/reference	1.06332	0.563
57DAP/reference	1.1163	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31572	0.055
17DAP/reference	0.94714	0.447
27DAP/reference	1.24177	0.239
39DAP/reference	0.97709	0.497
41DAP/reference	0.99996	0.735
42DAP/reference	1.15137	0.054
43DAP/reference	1.56263	0.208
47DAP/reference	1.59621	0.037
52DAP/reference	0.65254	0.005
57DAP/reference	1.2877	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27961	0.067
17DAP/reference	0.8818	0.243
27DAP/reference	1.13898	0.111
39DAP/reference	1.09646	0.39
41DAP/reference	1.03105	0.961
42DAP/reference	0.89906	0.087
43DAP/reference	1.01113	0.894
47DAP/reference	0.87567	0.199
52DAP/reference	1.97056	0.463
57DAP/reference	1.01814	0.888

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13229	1
26DAP/20DAP	1.06069	1
34DAP/26DAP	0.74529	0.153
51DAP/34DAP	1.03432	0.978
52DAP/51DAP	0.88823	1
53DAP/52DAP	0.99251	0.909
55DAP/53DAP	1.06738	0.964
57DAP/55DAP	0.88826	0.694
62DAP/57DAP	0.97683	0.994
68DAP/62DAP	0.6322	0.406
68DAP/14DAP	0.57049

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94737	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.45446	0.058
Mature Green Tomato/Ripe Tomato	0.43632	0.024
Immature Eggplant/Mature Eggplant	15.3561	0.05
Ripe Pepper/Ripe Tomato	0.68092	0.224
Mature Eggplant/Ripe Tomato	0.1172	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	11.2939	1
12-2/M82	1.20821	1
12-4/M82	1.37762	1
1-3/M82	4.18784
2-1-1/M82	1.46384	0.764
2-1/M82	0.58695	0.322
2-6/M82	1.66725
3-2/M82	0.93275
4-1-1/M82	0.41017
4-1/M82	2.63824
4-3-2/M82	2.83309	0.262
4-3/M82	2.98582	0.268
5-3/M82	0.61736	0.23
6-2/M82	4.25086
6-3/M82	1.46539	1
7-1/M82	0.6859
7-2/M82	3.1563
9-3-2/M82	2.60879

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06474	0.493
IL2-6/WTpooled	0.8759	0.473
IL7-5/WTpooled	1.10784	0.792
IL7-3/WTpooled	1.09148	1
IL12-4/WTpooled	0.9992	1
IL1-4/WTpooled	1.04679	1
WT/WTpooled	1.00509	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	1.53048	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07163	0.823
DC3000/delta hrp 6h	1.26806	0.609
DC3000/delta hrp 12h	1.22311	1
DC3000/delta hrp 24h	0.86409	0.159

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	0.96408	0.916

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18655	1
Exp 36h	2.27257	0.371
Exp 60h	1.97177	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94204	1
Var 0h	1.27166	0.421
Var 12h I row2-row1	0.90978	0.705
Var 12h NI row2-row1	1.12584	0.281
Var 36h I row2-row1	1.13325	1
Var 36h NI row2-row1	0.76781	0.549
Var 60h I row2-row1	0.9627	0.952
Var 60h NI row2-row1	0.7326	0.359
Time course 0hI-0hNI	1.06186	0.764
Time course 12hI-12hNI	1.33079	0.032
Time course 36hI-36hNI	3.23727	0.004
Time course 60hI-60hNI	8.92744	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)	0.93728	0.338
transgenic ySAMdc/azygous control (breaker)	0.73975	0.15
transgenic ySAMdc/azygous control (red)	1.13823	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.38661	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.25563	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27518	0.307
Manapal/WT (break)	1.43865	0.183
Manapal/WT (red)	0.85936	0.503