Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66928	0.026
27DAP/17DAP	0.82573	0.536
39DAP/27DAP	1.20156	0.579
41DAP/39DAP	1.01439	0.909
42DAP/41DAP	1.03839	1
43DAP/42DAP	1.0889	0.985
47DAP/43DAP	0.86821	0.58
52DAP/47DAP	0.68415	0.253
57DAP/52DAP	1.20182	0.837

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10073	0.132
17DAP/reference	1.01593	1
27DAP/reference	0.99751	0.797
39DAP/reference	0.95321	0.455
41DAP/reference	0.93903	0.341
42DAP/reference	0.92596	0.107
43DAP/reference	0.99316	0.84
47DAP/reference	0.96897	0.345
52DAP/reference	1.04538	0.633
57DAP/reference	1.15437	0.039

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99107	0.782
27DAP/17DAP	1.12938	0.69
39DAP/27DAP	1.05281	0.626
41DAP/39DAP	1.18178	0.497
42DAP/41DAP	1.11917	0.675
43DAP/42DAP	1.11438	0.664
47DAP/43DAP	1.01757	0.973
52DAP/47DAP	0.8623	0.472
57DAP/52DAP	1.12164	0.476
57DAP/7DAP	1.21624	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29431	0.037
17DAP/reference	1.14669	0.18
27DAP/reference	1.2275	0.03
39DAP/reference	1.02744	1
41DAP/reference	1.05136	1
42DAP/reference	0.89059	0.211
43DAP/reference	1.22092	0.037
47DAP/reference	1.01096	1
52DAP/reference	0.9492	0.398
57DAP/reference	1.07129	0.5

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26806	0.139
17DAP/reference	1.14412	0.089
27DAP/reference	1.08374	0.427
39DAP/reference	1.11616	0.477
41DAP/reference	1.15893	0.269
42DAP/reference	0.99909	0.723
43DAP/reference	1.24815	0.688
47DAP/reference	1.06611	0.467
52DAP/reference	0.98524	0.576
57DAP/reference	1.00151	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.39766	0.072
17DAP/reference	1.15682	0.261
27DAP/reference	1.14028	0.143
39DAP/reference	1.15649	0.05
41DAP/reference	1.0806	0.249
42DAP/reference	1.09785	0.416
43DAP/reference	1.06154	0.524
47DAP/reference	0.994	0.646
52DAP/reference	1.31572	0.233
57DAP/reference	1.13274	0.279

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97953	1
26DAP/20DAP	1.77795	0.097
34DAP/26DAP	0.92975	0.841
51DAP/34DAP	1.1683	0.271
52DAP/51DAP	0.82449	1
53DAP/52DAP	1.30182	0.608
55DAP/53DAP	0.64994	0.045
57DAP/55DAP	1.4557	0.376
62DAP/57DAP	1.14671	0.515
68DAP/62DAP	0.97751	0.863
68DAP/14DAP	1.08954	0.366

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60024	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.1105	0.063
Mature Green Tomato/Ripe Tomato	1.62748	0.69
Immature Eggplant/Mature Eggplant	1.03165	0.633
Ripe Pepper/Ripe Tomato	1.77247	0.258
Mature Eggplant/Ripe Tomato	1.15791	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.98082	1
12-2/M82	0.86797	0.639
12-4/M82	0.7744
1-3/M82	1.8543
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.88288	1
3-2/M82	1.06615	1
4-1-1/M82	N/A	N/A
4-1/M82	0.71731
4-3-2/M82	0.98518
4-3/M82	0.60429
5-3/M82	1.50673	0.496
6-2/M82	0.80253
6-3/M82	1.21078
7-1/M82	0.91806	0.803
7-2/M82	1.10589	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.42252	0.277
IL2-6/WTpooled	0.84898	0.383
IL7-5/WTpooled	1.07476	0.792
IL7-3/WTpooled	1.27511	0.362
IL12-4/WTpooled	1.06716	0.695
IL1-4/WTpooled	0.90498	0.699
WT/WTpooled	0.96433	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	0.98851	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98542	1
DC3000/delta hrp 6h	1.40492	1
DC3000/delta hrp 12h	0.97691	1
DC3000/delta hrp 24h	1.69541	0.123

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.46732
DC3000 delta B/DC3000 delta AB	1.17108	0.429

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94998	1
Exp 36h	1.07588	0.693
Exp 60h	1.26034	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03346	1
Var 0h	0.5719	1
Var 12h I row2-row1	1.08805	0.736
Var 12h NI row2-row1	1.20683	0.34
Var 36h I row2-row1	1.03852	1
Var 36h NI row2-row1	0.74477	0.329
Var 60h I row2-row1	0.85256	0.582
Var 60h NI row2-row1	0.86642	0.516
Time course 0hI-0hNI	0.97999	0.935
Time course 12hI-12hNI	1.07522	0.452
Time course 36hI-36hNI	1.42726	0.005
Time course 60hI-60hNI	2.19599	0.008

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)	0.98195	0.662
transgenic ySAMdc/azygous control (breaker)	1.49001	0.248
transgenic ySAMdc/azygous control (red)	1.09216	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14285	0.045

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66341	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94407	1
Manapal/WT (break)	1.3351	0.381
Manapal/WT (red)	1.53152	0.142