Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.14.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.54855	0.098
27DAP/17DAP	1.25201	0.833
39DAP/27DAP	1.30402	0.473
41DAP/39DAP	0.8002	0.274
42DAP/41DAP	1.42267	0.608
43DAP/42DAP	0.98332	0.925
47DAP/43DAP	2.07149	0.208
52DAP/47DAP	1.25605	0.999
57DAP/52DAP	1.09467	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98469	0.465
17DAP/reference	1.15101	0.492
27DAP/reference	1.49962	0.028
39DAP/reference	1.37395	0.098
41DAP/reference	1.21622	0.122
42DAP/reference	1.43934	0.002
43DAP/reference	1.70665	0.007
47DAP/reference	3.3436	0.001
52DAP/reference	3.07459	0.007
57DAP/reference	2.6556	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.14104	0.036
27DAP/17DAP	0.82758	0.121
39DAP/27DAP	1.06841	0.483
41DAP/39DAP	0.84017	0.256
42DAP/41DAP	0.9516	0.62
43DAP/42DAP	1.19642	0.032
47DAP/43DAP	0.92415	0.617
52DAP/47DAP	1.53542	0.11
57DAP/52DAP	1.34388	0.168
57DAP/7DAP	1.96198	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8506	0.146
17DAP/reference	1.13465	0.297
27DAP/reference	1.10245	0.453
39DAP/reference	1.54124	0.005
41DAP/reference	1.08534	0.577
42DAP/reference	1.26002	0.006
43DAP/reference	1.55814	0.007
47DAP/reference	1.37641	0.142
52DAP/reference	1.38319	0.139
57DAP/reference	1.7469	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61702	0.007
17DAP/reference	1.02948	0.674
27DAP/reference	1.20267	0.136
39DAP/reference	1.32081	0.048
41DAP/reference	1.14098	0.153
42DAP/reference	1.37146	0.016
43DAP/reference	0.99325	0.67
47DAP/reference	1.57129	0.023
52DAP/reference	0.93461	0.187
57DAP/reference	0.93167	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67474	0.034
17DAP/reference	0.81169	0.143
27DAP/reference	0.98422	0.657
39DAP/reference	0.98868	0.693
41DAP/reference	0.98936	0.682
42DAP/reference	1.38673	0.011
43DAP/reference	1.61298	0.011
47DAP/reference	1.69379	0.018
52DAP/reference	1.81143	0.042
57DAP/reference	5.4018	0.006

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.41397	0.966
26DAP/20DAP	1.01845	1
34DAP/26DAP	1.09319	1
51DAP/34DAP	1.14306	0.84
52DAP/51DAP	0.87097	1
53DAP/52DAP	0.89918	0.179
55DAP/53DAP	1.14745	0.693
57DAP/55DAP	0.9188	0.606
62DAP/57DAP	0.85358	0.162
68DAP/62DAP	1.42842	0.464
68DAP/14DAP	1.21892

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.84071	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94417	0.591
Mature Green Tomato/Ripe Tomato	0.61812	0.024
Immature Eggplant/Mature Eggplant	1.10788	0.267
Ripe Pepper/Ripe Tomato	0.12144	0.224
Mature Eggplant/Ripe Tomato	0.15911	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.40531	0.742
1-1-2/M82	1.0678	0.977
12-2/M82	1.01937	1
12-4/M82	1.21579	1
1-3/M82	1.81815	0.248
2-1-1/M82	0.96478	1
2-1/M82	0.87679	0.322
2-6/M82	1.30446	0.364
3-2/M82	0.86597	0.752
4-1-1/M82	0.9433	1
4-1/M82	1.35015	1
4-3-2/M82	1.2923	0.508
4-3/M82	1.07682	1
5-3/M82	0.92684	1
6-2/M82	0.86405	0.497
6-3/M82	0.96586	1
7-1/M82	0.92299	0.803
7-2/M82	0.93713	0.796
9-3-2/M82	1.33898	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00923	1
IL2-6/WTpooled	1.3602	0.531
IL7-5/WTpooled	1.01035
IL7-3/WTpooled	0.9679	1
IL12-4/WTpooled	1.30708	0.505
IL1-4/WTpooled	1.07012	1
WT/WTpooled	1.0529	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	1.10022	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0298	0.921
DC3000/delta hrp 6h	0.82279	0.95
DC3000/delta hrp 12h	1.17623	1
DC3000/delta hrp 24h	0.85332	0.246

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.84485	0.513
DC3000 delta B/DC3000 delta AB	1.20458	0.226

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95068	1
Exp 36h	0.83756	0.539
Exp 60h	1.00755	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.983	1
Var 0h	0.93716	1
Var 12h I row2-row1	0.78354	0.327
Var 12h NI row2-row1	1.0152	1
Var 36h I row2-row1	0.66196	0.805
Var 36h NI row2-row1	1.11583	1
Var 60h I row2-row1	1.00979	1
Var 60h NI row2-row1	1.00213	1
Time course 0hI-0hNI	1.09164	0.603
Time course 12hI-12hNI	0.83395	0.033
Time course 36hI-36hNI	0.61537	0.023
Time course 60hI-60hNI	0.82342	0.047

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)	1.06169	0.571
transgenic ySAMdc/azygous control (breaker)	0.64485	0.131
transgenic ySAMdc/azygous control (red)	1.01726	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.30946	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64666	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.51339	0.172
Manapal/WT (break)	1.06543	0.381
Manapal/WT (red)	0.92807	0.315