Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.11.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14191	0.646
27DAP/17DAP	0.89652	0.764
39DAP/27DAP	1.04534	1
41DAP/39DAP	1.13163	0.516
42DAP/41DAP	0.95616	1
43DAP/42DAP	1.01556	0.945
47DAP/43DAP	1.17456	0.702
52DAP/47DAP	1.11329	0.879
57DAP/52DAP	1.01855	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93147	0.371
17DAP/reference	0.9288	0.321
27DAP/reference	1.04185	0.759
39DAP/reference	0.92825	0.234
41DAP/reference	0.9408	0.085
42DAP/reference	0.94188	0.211
43DAP/reference	0.98707	0.763
47DAP/reference	1.04691	0.524
52DAP/reference	0.72945	0.102
57DAP/reference	0.98459	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08386	0.438
27DAP/17DAP	0.99659	0.969
39DAP/27DAP	1.0771	0.483
41DAP/39DAP	1.05826	0.55
42DAP/41DAP	0.9342	0.42
43DAP/42DAP	1.07228	0.112
47DAP/43DAP	0.95625	0.743
52DAP/47DAP	0.95597	0.753
57DAP/52DAP	0.98286	0.742
57DAP/7DAP	0.95401	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16246	0.079
17DAP/reference	1.0558	0.123
27DAP/reference	1.10835	0.015
39DAP/reference	1.07153	0.033
41DAP/reference	1.09349	0.09
42DAP/reference	1.09935	0.018
43DAP/reference	1.14524	0.083
47DAP/reference	1.19633	0.259
52DAP/reference	1.12195	0.092
57DAP/reference	1.14726	0.049

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00361	0.933
17DAP/reference	1.00973	0.92
27DAP/reference	0.90551	0.155
39DAP/reference	0.87373	0.152
41DAP/reference	0.86493	0.067
42DAP/reference	0.94765	0.289
43DAP/reference	1.06346	0.611
47DAP/reference	1.07634	0.218
52DAP/reference	0.95941	0.302
57DAP/reference	1.09655	0.07

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00248	1
17DAP/reference	0.9916	0.778
27DAP/reference	0.95718	0.073
39DAP/reference	0.98883	0.544
41DAP/reference	1.05052	0.411
42DAP/reference	1.0315	0.701
43DAP/reference	0.94349	0.305
47DAP/reference	0.997	0.708
52DAP/reference	1.04312	0.649
57DAP/reference	0.7621	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04138	0.966
26DAP/20DAP	0.98545	1
34DAP/26DAP	1.02544	0.819
51DAP/34DAP	0.95982	0.667
52DAP/51DAP	0.97095	1
53DAP/52DAP	1.12223	0.537
55DAP/53DAP	1.01012	1
57DAP/55DAP	1.06016	0.935
62DAP/57DAP	0.94874	0.994
68DAP/62DAP	0.92308	0.787
68DAP/14DAP	1.24839	0.223

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03017	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9519	0.745
Mature Green Tomato/Ripe Tomato	1.16506	0.523
Immature Eggplant/Mature Eggplant	1.92567	0.05
Ripe Pepper/Ripe Tomato	1.15945	1
Mature Eggplant/Ripe Tomato	0.82664	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99288	1
1-1-2/M82	1.11801	1
12-2/M82	0.95282	0.955
12-4/M82	0.98352	0.619
1-3/M82	0.99865	1
2-1-1/M82	1.01689	1
2-1/M82	0.96286	0.74
2-6/M82	0.9652	1
3-2/M82	1.01419	0.84
4-1-1/M82	0.86281	1
4-1/M82	0.99905	1
4-3-2/M82	1.03708	1
4-3/M82	0.93774	0.72
5-3/M82	0.98119	1
6-2/M82	1.0354	1
6-3/M82	1.02783	1
7-1/M82	1.0822	0.992
7-2/M82	0.91229	0.796
9-3-2/M82	1.01033	1

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	1.63267
IL7-3/WTpooled	0.93456
IL12-4/WTpooled	0.8747	1
IL1-4/WTpooled	1.43469	1
WT/WTpooled	0.98686	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	0.96905	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10228	0.724
DC3000/delta hrp 6h	1.09758	1
DC3000/delta hrp 12h	0.91275	1
DC3000/delta hrp 24h	1.00816	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01847	0.515
DC3000 delta B/DC3000 delta AB	1.0894	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12453	1
Exp 36h	N/A	N/A
Exp 60h	1.00275	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00844	1
Var 0h	1.09761	1
Var 12h I row2-row1	1.06316	0.196
Var 12h NI row2-row1	0.93313	0.488
Var 36h I row2-row1	1.08486	1
Var 36h NI row2-row1	1.05706	1
Var 60h I row2-row1	0.97309	0.832
Var 60h NI row2-row1	1.08151	0.904
Time course 0hI-0hNI	1.03684	0.662
Time course 12hI-12hNI	1.01008	0.842
Time course 36hI-36hNI	1.05265	0.58
Time course 60hI-60hNI	0.9399	0.319

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)	0.95963	0.485
transgenic ySAMdc/azygous control (breaker)	0.74426	0.15
transgenic ySAMdc/azygous control (red)	1.12755	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99839	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72237	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.67611	0.333
Manapal/WT (red)	0.63995	0.181