Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.18.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23117	0.512
27DAP/17DAP	0.88876	0.717
39DAP/27DAP	1.02092	0.682
41DAP/39DAP	1.57898	0.591
42DAP/41DAP	1.17441	0.903
43DAP/42DAP	0.98828	0.937
47DAP/43DAP	1.18466	0.442
52DAP/47DAP	1.13957	0.798
57DAP/52DAP	0.91859	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91345	0.103
17DAP/reference	0.99001	0.819
27DAP/reference	0.97661	0.623
39DAP/reference	1.03074	0.628
41DAP/reference	0.9322	0.341
42DAP/reference	1.01508	0.812
43DAP/reference	0.98936	0.785
47DAP/reference	1.22282	0.002
52DAP/reference	1.1455	0.108
57DAP/reference	1.08614	0.084

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83889	0.251
27DAP/17DAP	0.98814	0.919
39DAP/27DAP	0.96645	0.784
41DAP/39DAP	0.93014	0.662
42DAP/41DAP	0.96728	0.715
43DAP/42DAP	1.59436	0.013
47DAP/43DAP	1.05457	0.765
52DAP/47DAP	0.80514	0.153
57DAP/52DAP	1.72156	0.029
57DAP/7DAP	2.3135	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95421	0.402
17DAP/reference	0.77895	0.035
27DAP/reference	0.90965	0.125
39DAP/reference	1.00671	0.745
41DAP/reference	1.03375	0.723
42DAP/reference	1.32389	0.174
43DAP/reference	0.81163	0.013
47DAP/reference	1.08154	0.413
52DAP/reference	0.91439	0.232
57DAP/reference	0.75903	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84984	0.119
17DAP/reference	0.91407	0.176
27DAP/reference	0.91186	0.24
39DAP/reference	1.11632	0.225
41DAP/reference	1.05248	0.799
42DAP/reference	1.07237	0.422
43DAP/reference	1.15703	0.54
47DAP/reference	1.09385	0.143
52DAP/reference	0.94198	0.171
57DAP/reference	0.81863	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75469	0.032
17DAP/reference	0.9397	0.452
27DAP/reference	0.84275	0.092
39DAP/reference	0.98767	0.643
41DAP/reference	1.01774	1
42DAP/reference	0.95008	0.445
43DAP/reference	0.92586	0.216
47DAP/reference	1.37692	0.01
52DAP/reference	0.95956	0.582
57DAP/reference	1.30557	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97657	1
26DAP/20DAP	0.85469	0.512
34DAP/26DAP	0.87224	0.771
51DAP/34DAP	1.18068	0.339
52DAP/51DAP	0.94641	1
53DAP/52DAP	1.14209	0.552
55DAP/53DAP	0.88769	0.313
57DAP/55DAP	1.08799	0.935
62DAP/57DAP	0.9614	0.871
68DAP/62DAP	1.81193	0.055
68DAP/14DAP	2.2308	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96266	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82116	0.336
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.66172	0.066
Ripe Pepper/Ripe Tomato	0.32503	0.224
Mature Eggplant/Ripe Tomato	0.29432	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94478	0.944
1-1-2/M82	1.02665	1
12-2/M82	1.2158	0.61
12-4/M82	1.0133	1
1-3/M82	0.89976	0.501
2-1-1/M82	0.89992	0.784
2-1/M82	1.09743	1
2-6/M82	1.00394	1
3-2/M82	0.80815	0.752
4-1-1/M82	1.10253	1
4-1/M82	1.61905
4-3-2/M82	N/A	N/A
4-3/M82	0.87124	0.578
5-3/M82	0.98582	1
6-2/M82	0.96432	1
6-3/M82	1.00893	1
7-1/M82	1.01228	1
7-2/M82	0.92065	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.68639	0.243
IL2-6/WTpooled	0.94654	0.473
IL7-5/WTpooled	0.39559	1
IL7-3/WTpooled	0.75631	0.298
IL12-4/WTpooled	0.97133	1
IL1-4/WTpooled	0.98329	0.834
WT/WTpooled	1.0413	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	1.22049	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09326	0.914
DC3000/delta hrp 6h	0.89921	0.95
DC3000/delta hrp 12h	1.08154	1
DC3000/delta hrp 24h	1.06865	0.411

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9096	1
Exp 36h	0.77279	0.449
Exp 60h	0.94966	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01073
Var 0h	0.86241	0.933
Var 12h I row2-row1	1.03127	0.736
Var 12h NI row2-row1	0.83522	0.627
Var 36h I row2-row1	0.7836	1
Var 36h NI row2-row1	0.92931	0.791
Var 60h I row2-row1	1.09333	0.543
Var 60h NI row2-row1	1.14878	0.904
Time course 0hI-0hNI	0.99095	1
Time course 12hI-12hNI	1.04668	0.818
Time course 36hI-36hNI	0.99826	0.753
Time course 60hI-60hNI	1.64097	0.015

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)	0.88163	0.33
transgenic ySAMdc/azygous control (breaker)	0.83461	0.139
transgenic ySAMdc/azygous control (red)	0.97956	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99086	0.651

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06454	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86104	1
Manapal/WT (break)	0.86441	1
Manapal/WT (red)	0.61157	0.181