Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.5.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86827	0.427
27DAP/17DAP	1.21347	0.829
39DAP/27DAP	0.78895	0.301
41DAP/39DAP	0.92433	0.67
42DAP/41DAP	1.00068	1
43DAP/42DAP	1.00383	0.93
47DAP/43DAP	0.98415	0.902
52DAP/47DAP	0.55655	0.158
57DAP/52DAP	1.42236	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83219	0.159
17DAP/reference	1.00294	0.858
27DAP/reference	0.8109	0.041
39DAP/reference	0.98318	0.779
41DAP/reference	0.9792	0.667
42DAP/reference	0.79367	0.008
43DAP/reference	1.08308	0.957
47DAP/reference	0.78907	0.161
52DAP/reference	1.06759	0.991
57DAP/reference	1.0284	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67283	0.311
27DAP/17DAP	1.2541	0.735
39DAP/27DAP	1.02531	1
41DAP/39DAP	0.90547	0.804
42DAP/41DAP	1.01011	0.936
43DAP/42DAP	1.36463	0.192
47DAP/43DAP	1.00919	0.977
52DAP/47DAP	1.09694	0.826
57DAP/52DAP	1.38883	0.305
57DAP/7DAP	0.67843	0.143

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96774	0.402
17DAP/reference	0.90794	0.039
27DAP/reference	0.92173	0.101
39DAP/reference	0.94365	0.049
41DAP/reference	0.88288	0.146
42DAP/reference	1.17524	0.007
43DAP/reference	1.03501	0.746
47DAP/reference	0.90776	0.383
52DAP/reference	0.96557	0.398
57DAP/reference	1.06062	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1096	0.642
17DAP/reference	0.92245	0.378
27DAP/reference	1.06913	1
39DAP/reference	0.86853	0.274
41DAP/reference	0.83184	0.064
42DAP/reference	1.08865	0.422
43DAP/reference	1.03768	0.814
47DAP/reference	0.89688	0.145
52DAP/reference	1.47555	0.444
57DAP/reference	0.93689	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86937	0.249
17DAP/reference	0.92258	0.335
27DAP/reference	0.88271	0.032
39DAP/reference	0.88187	0.101
41DAP/reference	0.93885	0.148
42DAP/reference	1.22017	0.086
43DAP/reference	1.094	0.28
47DAP/reference	0.90786	0.259
52DAP/reference	0.8896	0.472
57DAP/reference	0.85214	0.174

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09682	0.966
26DAP/20DAP	0.81279	1
34DAP/26DAP	1.14602	1
51DAP/34DAP	0.82908	0.217
52DAP/51DAP	1.25783	0.061
53DAP/52DAP	1.63063	0.085
55DAP/53DAP	1.02858	0.951
57DAP/55DAP	0.76883	0.202
62DAP/57DAP	1.07198	0.868
68DAP/62DAP	1.14301	0.515
68DAP/14DAP	1.57242	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94316	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	17.6923	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.75507

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92663	1
IL2-6/WTpooled	1.07483	0.584
IL7-5/WTpooled	0.94616	1
IL7-3/WTpooled	1.0342	1
IL12-4/WTpooled	0.87312	0.543
IL1-4/WTpooled	0.93181	0.415
WT/WTpooled	0.98977	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	1.05133	0.699

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	0.84082
DC3000/delta hrp 12h	0.78699
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13832	0.228
Exp 36h	1.33846	0.693
Exp 60h	1.2828	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98035	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.95048
Var 12h NI row2-row1	1.05553
Var 36h I row2-row1	0.97217	1
Var 36h NI row2-row1	1.13204	1
Var 60h I row2-row1	0.8541	0.952
Var 60h NI row2-row1	0.91197	1
Time course 0hI-0hNI	1.05726	0.799
Time course 12hI-12hNI	1.07621	0.663
Time course 36hI-36hNI	1.23926	0.039
Time course 60hI-60hNI	0.89632	0.319

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)	1.07519	0.253
transgenic ySAMdc/azygous control (breaker)	0.77666	0.15
transgenic ySAMdc/azygous control (red)	1.00814	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96711	0.323

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.5792	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.82313	1
Manapal/WT (break)	1.10433	1
Manapal/WT (red)	0.89039	0.424