Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.20.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31021	0.452
27DAP/17DAP	1.37389	0.738
39DAP/27DAP	0.75088	0.435
41DAP/39DAP	1.63931	0.553
42DAP/41DAP	0.91384	1
43DAP/42DAP	1.11672	1
47DAP/43DAP	1.80357	0.809
52DAP/47DAP	0.91476	0.705
57DAP/52DAP	1.13045	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02454	0.76
17DAP/reference	1.02258	0.787
27DAP/reference	1.05492	0.587
39DAP/reference	1.04691	0.359
41DAP/reference	1.05636	0.808
42DAP/reference	0.94572	0.028
43DAP/reference	0.9879	0.785
47DAP/reference	0.96588	0.161
52DAP/reference	0.82725	0.071
57DAP/reference	0.79422	0.023

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.64387	0.326
27DAP/17DAP	1.03681	1
39DAP/27DAP	0.86342	0.426
41DAP/39DAP	1.52208	0.169
42DAP/41DAP	0.85221	0.377
43DAP/42DAP	1.20694	0.699
47DAP/43DAP	1.19065	0.601
52DAP/47DAP	0.78493	0.677
57DAP/52DAP	1.4027	0.177
57DAP/7DAP	0.88272

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85451	0.146
17DAP/reference	0.90916	0.192
27DAP/reference	0.84799	0.042
39DAP/reference	0.60791	0.012
41DAP/reference	0.74172	0.031
42DAP/reference	0.6575	0.073
43DAP/reference	0.87644	0.183
47DAP/reference	0.7906	0.168
52DAP/reference	0.61248	0.012
57DAP/reference	1.02882	0.67

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03343	0.559
17DAP/reference	0.98283	0.561
27DAP/reference	0.89594	0.292
39DAP/reference	0.8702	0.159
41DAP/reference	0.81437	0.078
42DAP/reference	0.92179	0.237
43DAP/reference	1.07077	0.569
47DAP/reference	0.92909	0.232
52DAP/reference	0.95932	0.28
57DAP/reference	1.14004	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94645	0.362
17DAP/reference	0.99385	0.763
27DAP/reference	0.83443	0.063
39DAP/reference	0.91609	0.133
41DAP/reference	0.84987	0.04
42DAP/reference	0.76199	0.028
43DAP/reference	0.84794	0.216
47DAP/reference	0.97931	0.538
52DAP/reference	1.10217	0.614
57DAP/reference	0.50747	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09403	0.966
26DAP/20DAP	0.73624
34DAP/26DAP	1.30503	0.114
51DAP/34DAP	0.84034	0.217
52DAP/51DAP	0.99398	1
53DAP/52DAP	1.12676	0.162
55DAP/53DAP	1.44434	0.375
57DAP/55DAP	1.16201	0.666
62DAP/57DAP	1.33922	0.133
68DAP/62DAP	0.97957	0.834
68DAP/14DAP	0.98434	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90802	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.63825
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.25182
12-2/M82	N/A	N/A
12-4/M82	1.36258
1-3/M82	0.71331
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	0.95305
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	0.97724	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.88304
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81196	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.99881	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.03436	1
WT/WTpooled	N/A	N/A

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	1.1343	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.0847	1
DC3000/delta hrp 24h	1.1338	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	8.62248
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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.41152	0.196

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	N/A	N/A
Var 12h I row2-row1	1.03015	0.795
Var 12h NI row2-row1	1.04964	1
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	1.44496	0.253
Var 60h I row2-row1	0.95506	0.952
Var 60h NI row2-row1	0.94988	1
Time course 0hI-0hNI	0.99798	0.935
Time course 12hI-12hNI	1.0059	0.868
Time course 36hI-36hNI	1.32179	0.799
Time course 60hI-60hNI	1.03516	0.673

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)	2.38336	0.213
transgenic ySAMdc/azygous control (breaker)	1.21726	0.248
transgenic ySAMdc/azygous control (red)	1.28486	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94798	0.149

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00371	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11413	1
Manapal/WT (break)	0.66584	1
Manapal/WT (red)	0.53261	0.242