Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.17.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86647	0.427
27DAP/17DAP	0.91041	0.8
39DAP/27DAP	1.04124	1
41DAP/39DAP	0.9621	0.897
42DAP/41DAP	0.91587	1
43DAP/42DAP	1.30704	0.816
47DAP/43DAP	1.1652	0.825
52DAP/47DAP	1.41343	0.702
57DAP/52DAP	0.87013	0.857

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9192	0.136
17DAP/reference	0.92194	0.298
27DAP/reference	0.95816	0.406
39DAP/reference	0.95958	0.587
41DAP/reference	0.81013	0.031
42DAP/reference	0.91655	0.067
43DAP/reference	0.94958	0.555
47DAP/reference	0.99785	0.602
52DAP/reference	1.07579	0.73
57DAP/reference	0.96906	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9778	0.644
27DAP/17DAP	0.96254	0.821
39DAP/27DAP	1.10468	0.519
41DAP/39DAP	1.44623	0.008
42DAP/41DAP	0.68919	0.017
43DAP/42DAP	1.14848	0.066
47DAP/43DAP	1.12757	0.308
52DAP/47DAP	1.33148	0.315
57DAP/52DAP	1.63687	0.071
57DAP/7DAP	1.09847	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.47936	0.071
17DAP/reference	1.14444	0.123
27DAP/reference	1.1743	0.197
39DAP/reference	1.62179	0.011
41DAP/reference	1.32872	0.08
42DAP/reference	1.73055	0.014
43DAP/reference	2.16499	0.006
47DAP/reference	1.04791	0.932
52DAP/reference	1.81026	0.01
57DAP/reference	1.87836	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01254	0.848
17DAP/reference	0.83655	0.195
27DAP/reference	1.04461	0.781
39DAP/reference	1.03829	1
41DAP/reference	0.98641	0.545
42DAP/reference	1.04868	1
43DAP/reference	1.00349	0.721
47DAP/reference	1.02927	1
52DAP/reference	1.08397	0.702
57DAP/reference	0.8831	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0204	1
17DAP/reference	0.87775	0.231
27DAP/reference	1.12426	0.081
39DAP/reference	1.26589	0.094
41DAP/reference	1.01116	1
42DAP/reference	0.90723	0.049
43DAP/reference	1.11903	0.505
47DAP/reference	0.96945	0.465
52DAP/reference	1.20697	0.357
57DAP/reference	1.12544	0.204

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00567	1
26DAP/20DAP	1.91309	0.099
34DAP/26DAP	0.6799	0.067
51DAP/34DAP	1.15189	0.55
52DAP/51DAP	0.91349	1
53DAP/52DAP	1.1041	0.738
55DAP/53DAP	0.9326	0.563
57DAP/55DAP	1.04124	0.906
62DAP/57DAP	1.00998	1
68DAP/62DAP	1.4498	0.398
68DAP/14DAP	0.96067	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90227	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13569	0.058
Mature Green Tomato/Ripe Tomato	1.46549	0.632
Immature Eggplant/Mature Eggplant	1.57209	0.05
Ripe Pepper/Ripe Tomato	3.29086	0.258
Mature Eggplant/Ripe Tomato	4.07182

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	1.04575
1-3/M82	N/A	N/A
2-1-1/M82	0.79112
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	1.61891	0.572
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.18149	0.839
IL1-4/WTpooled	0.91382	0.402
WT/WTpooled	0.91713	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	1.13289	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.8883	1
DC3000/delta hrp 6h	1.15045	1
DC3000/delta hrp 12h	0.99741	1
DC3000/delta hrp 24h	0.87753	0.306

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.3108	0.183
DC3000 delta B/DC3000 delta AB	1.16007	0.284

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99906	1
Exp 36h	1.17623	1
Exp 60h	1.49465	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00664	1
Var 0h	0.53611	0.374
Var 12h I row2-row1	1.09611	0.58
Var 12h NI row2-row1	0.89769	0.546
Var 36h I row2-row1	1.09739	0.742
Var 36h NI row2-row1	1.06082	1
Var 60h I row2-row1	0.80941	0.582
Var 60h NI row2-row1	1.03615	1
Time course 0hI-0hNI	1.07273	0.799
Time course 12hI-12hNI	1.09812	0.422
Time course 36hI-36hNI	1.22459	0.01
Time course 60hI-60hNI	1.37106	0.019

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)	1.09232	0.372
transgenic ySAMdc/azygous control (breaker)	0.8523	0.49
transgenic ySAMdc/azygous control (red)	0.84528	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81149	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98392	1
Manapal/WT (break)	1.05855	1
Manapal/WT (red)	0.93398	0.728