Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04596	1
27DAP/17DAP	1.07713	1
39DAP/27DAP	1.14145	0.804
41DAP/39DAP	1.09717	0.985
42DAP/41DAP	1.18779	0.825
43DAP/42DAP	1.07645	1
47DAP/43DAP	1.11038	0.943
52DAP/47DAP	0.71829	0.391
57DAP/52DAP	1.17748	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98626	0.601
17DAP/reference	0.97977	0.701
27DAP/reference	1.00836	0.923
39DAP/reference	0.93444	0.5
41DAP/reference	0.93753	0.341
42DAP/reference	1.21671	0.055
43DAP/reference	1.5381	0.008
47DAP/reference	1.18332	0.19
52DAP/reference	1.10089	0.388
57DAP/reference	1.06674	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87499	0.402
27DAP/17DAP	1.05808	0.859
39DAP/27DAP	1.06901	0.553
41DAP/39DAP	1.64335	0.276
42DAP/41DAP	0.95412	0.708
43DAP/42DAP	1.0305	0.83
47DAP/43DAP	1.17909	0.281
52DAP/47DAP	1.0022	0.979
57DAP/52DAP	0.8325	0.267
57DAP/7DAP	1.08092	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0834	0.732
17DAP/reference	0.92824	0.22
27DAP/reference	1.11802	0.246
39DAP/reference	1.86802	0.026
41DAP/reference	1.82709	0.013
42DAP/reference	2.3103	0.008
43DAP/reference	1.53393	0.074
47DAP/reference	1.11305	0.745
52DAP/reference	1.19478	0.247
57DAP/reference	1.29942	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95884	0.592
17DAP/reference	0.99379	0.728
27DAP/reference	1.06259	0.917
39DAP/reference	1.10485	0.67
41DAP/reference	1.05855	0.96
42DAP/reference	0.94654	0.321
43DAP/reference	0.92555	0.336
47DAP/reference	0.96444	0.434
52DAP/reference	1.08618	0.279
57DAP/reference	0.80405	0.014

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01182	1
17DAP/reference	0.96146	0.56
27DAP/reference	1.05911	0.552
39DAP/reference	1.04177	0.596
41DAP/reference	0.8936	0.237
42DAP/reference	1.07749	0.943
43DAP/reference	1.16894	0.734
47DAP/reference	1.27408	0.009
52DAP/reference	1.0282	0.99
57DAP/reference	1.23966	0.255

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24358	0.966
26DAP/20DAP	1.22716	0.608
34DAP/26DAP	1.32168	0.819
51DAP/34DAP	1.29932	0.524
52DAP/51DAP	0.95421	1
53DAP/52DAP	1.04223	0.895
55DAP/53DAP	0.93855	0.735
57DAP/55DAP	0.93426	0.691
62DAP/57DAP	0.71524	0.28
68DAP/62DAP	1.4762	0.135
68DAP/14DAP	1.72068	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23265	0.043

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.90653	0.058
Mature Green Tomato/Ripe Tomato	0.76219
Immature Eggplant/Mature Eggplant	0.61477	0.063
Ripe Pepper/Ripe Tomato	0.50947	0.224
Mature Eggplant/Ripe Tomato	0.71882	0.234

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	1.01712
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	1.12505
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	1.17945	1
IL2-6/WTpooled	1.56954	0.531
IL7-5/WTpooled	0.80998
IL7-3/WTpooled	0.75714
IL12-4/WTpooled	0.97649	0.71
IL1-4/WTpooled	1.02022
WT/WTpooled	1.22932	0.789

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	0.92578	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94276	0.941
DC3000/delta hrp 6h	1.03323	1
DC3000/delta hrp 12h	0.97817	1
DC3000/delta hrp 24h	0.92312	0.43

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	0.89532

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83447	0.328
Exp 36h	0.68509	0.434
Exp 60h	0.59127	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97549	1
Var 0h	0.42409	0.237
Var 12h I row2-row1	0.79565	0.565
Var 12h NI row2-row1	0.83024	0.281
Var 36h I row2-row1	0.8321	1
Var 36h NI row2-row1	0.92538	0.791
Var 60h I row2-row1	0.85963	0.582
Var 60h NI row2-row1	0.97739	1
Time course 0hI-0hNI	1.152	0.574
Time course 12hI-12hNI	1.10139	0.373
Time course 36hI-36hNI	1.59866	0.005
Time course 60hI-60hNI	3.18364	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)	1.03862	0.286
transgenic ySAMdc/azygous control (breaker)	0.69407	0.134
transgenic ySAMdc/azygous control (red)	0.82468	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.23475	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.349	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09991	1
Manapal/WT (break)	1.13106	1
Manapal/WT (red)	0.84282	0.242