Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.10.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.78667	0.039
27DAP/17DAP	1.2955	0.788
39DAP/27DAP	1.29069	0.466
41DAP/39DAP	0.74582	0.133
42DAP/41DAP	0.71033	0.262
43DAP/42DAP	0.89465	0.754
47DAP/43DAP	1.38922	0.309
52DAP/47DAP	1.33044	0.633
57DAP/52DAP	1.2663	0.76

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87625	0.109
17DAP/reference	1.01486	0.904
27DAP/reference	1.2719	0.024
39DAP/reference	1.32582	0.27
41DAP/reference	1.2958	0.022
42DAP/reference	1.13388	0.174
43DAP/reference	1.23859	0.01
47DAP/reference	1.27126	0.011
52DAP/reference	1.16948	0.217
57DAP/reference	1.42125	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.96998	0.036
27DAP/17DAP	1.0435	0.9
39DAP/27DAP	0.92111	0.371
41DAP/39DAP	1.06736	1
42DAP/41DAP	1.12775	0.436
43DAP/42DAP	0.85009	0.032
47DAP/43DAP	0.97029	0.815
52DAP/47DAP	1.17525	0.478
57DAP/52DAP	1.26064	0.256
57DAP/7DAP	1.59816	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83534	0.183
17DAP/reference	1.16572	0.045
27DAP/reference	1.46018	0.006
39DAP/reference	1.10754	0.198
41DAP/reference	0.99219	0.646
42DAP/reference	0.97598	0.458
43DAP/reference	1.01922	1
47DAP/reference	1.16783	0.318
52DAP/reference	1.302	0.149
57DAP/reference	1.53152	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04339	0.943
17DAP/reference	1.40439	0.028
27DAP/reference	1.5321	0.032
39DAP/reference	1.44579	0.014
41DAP/reference	1.40859	0.006
42DAP/reference	1.6064	0.008
43DAP/reference	1.8486	0.009
47DAP/reference	1.87327	0.008
52DAP/reference	1.41317	0.036
57DAP/reference	1.25318	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90735	0.197
17DAP/reference	1.0016	0.839
27DAP/reference	1.26638	0.02
39DAP/reference	1.29877	0.01
41DAP/reference	1.33592	0.041
42DAP/reference	1.39513	0.009
43DAP/reference	1.07252	0.617
47DAP/reference	1.69663	0.008
52DAP/reference	2.03192	0.041
57DAP/reference	1.80215	0.015

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07908	0.966
26DAP/20DAP	1.62959	0.101
34DAP/26DAP	1.38612	0.154
51DAP/34DAP	0.91819	0.587
52DAP/51DAP	0.72952	0.079
53DAP/52DAP	1.03191	0.845
55DAP/53DAP	0.71147	0.024
57DAP/55DAP	1.06992	1
62DAP/57DAP	0.95532	0.994
68DAP/62DAP	1.23902	0.589
68DAP/14DAP	0.99797	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.55995	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.63777	0.058
Mature Green Tomato/Ripe Tomato	1.0678	1
Immature Eggplant/Mature Eggplant	0.66684	0.062
Ripe Pepper/Ripe Tomato	0.55087	0.224
Mature Eggplant/Ripe Tomato	0.41922	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92615	0.944
1-1-2/M82	1.14786	1
12-2/M82	0.85646	0.639
12-4/M82	0.98202	1
1-3/M82	1.48034	0.277
2-1-1/M82	0.86015	0.465
2-1/M82	0.71968	0.519
2-6/M82	0.84871	1
3-2/M82	0.98939	0.752
4-1-1/M82	1.02115	1
4-1/M82	1.28767	0.429
4-3-2/M82	0.87457	0.487
4-3/M82	0.98362	1
5-3/M82	1.13106	1
6-2/M82	0.85039	0.497
6-3/M82	1.09996	1
7-1/M82	1.09744	1
7-2/M82	1.07718	1
9-3-2/M82	1.06669	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.85362	1
IL7-5/WTpooled	1.41875
IL7-3/WTpooled	0.74656	0.418
IL12-4/WTpooled	0.98535	1
IL1-4/WTpooled	1.17531	1
WT/WTpooled	1.01891	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	1.25299	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04083	0.774
DC3000/delta hrp 6h	1.00059	0.95
DC3000/delta hrp 12h	0.96852	1
DC3000/delta hrp 24h	1.03124	0.633

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	1.28327	0.175

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04204	0.228
Exp 36h	1.00924	1
Exp 60h	1.10535	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96934	1
Var 0h	0.7827	0.332
Var 12h I row2-row1	1.29003	0.406
Var 12h NI row2-row1	0.85179	0.713
Var 36h I row2-row1	0.84569	1
Var 36h NI row2-row1	1.13235	1
Var 60h I row2-row1	1.30779	0.562
Var 60h NI row2-row1	1.05628	0.904
Time course 0hI-0hNI	0.9281	0.482
Time course 12hI-12hNI	1.02495	0.827
Time course 36hI-36hNI	1.05642	0.58
Time course 60hI-60hNI	0.92398	0.161

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)	0.96538	0.529
transgenic ySAMdc/azygous control (breaker)	1.12859	1
transgenic ySAMdc/azygous control (red)	1.06188	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13174	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90902	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.52464	1
Manapal/WT (break)	0.77966	0.333
Manapal/WT (red)	1.82454	0.134