Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.18.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04091	0.932
27DAP/17DAP	1.08777	0.905
39DAP/27DAP	1.08948	0.876
41DAP/39DAP	1.34466	0.442
42DAP/41DAP	1.00588	1
43DAP/42DAP	0.94907	0.895
47DAP/43DAP	0.98967	0.904
52DAP/47DAP	1.21109	0.652
57DAP/52DAP	1.09694	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07579	0.154
17DAP/reference	1.03447	0.193
27DAP/reference	1.02848	0.457
39DAP/reference	1.056	0.403
41DAP/reference	1.06393	0.265
42DAP/reference	1.02761	0.231
43DAP/reference	1.0033	0.982
47DAP/reference	1.0098	1
52DAP/reference	1.01329	1
57DAP/reference	0.94999	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00142	1
27DAP/17DAP	0.99173	0.943
39DAP/27DAP	1.01756	0.751
41DAP/39DAP	1.01703	0.876
42DAP/41DAP	0.9892	0.864
43DAP/42DAP	0.95636	0.415
47DAP/43DAP	0.98266	0.855
52DAP/47DAP	1.00747	0.986
57DAP/52DAP	1.03286	0.8
57DAP/7DAP	0.96393	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91937	0.203
17DAP/reference	0.89892	0.011
27DAP/reference	0.80985	0.01
39DAP/reference	0.96354	0.126
41DAP/reference	1.02793	0.593
42DAP/reference	0.97367	0.304
43DAP/reference	0.9937	0.608
47DAP/reference	0.94007	0.079
52DAP/reference	0.97573	0.363
57DAP/reference	1.01634	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01452	0.75
17DAP/reference	1.04969	0.271
27DAP/reference	0.97964	0.554
39DAP/reference	1.05866	0.489
41DAP/reference	1.19817	0.133
42DAP/reference	0.94841	0.025
43DAP/reference	0.99935	0.875
47DAP/reference	0.97257	0.253
52DAP/reference	1.05459	0.279
57DAP/reference	1.00825	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94223	0.362
17DAP/reference	0.96535	0.364
27DAP/reference	0.94563	0.113
39DAP/reference	0.94177	0.058
41DAP/reference	0.91458	0.037
42DAP/reference	0.80204	0.018
43DAP/reference	0.89786	0.039
47DAP/reference	0.97238	0.325
52DAP/reference	0.82834	0.123
57DAP/reference	0.8582	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94504	1
26DAP/20DAP	0.98074	1
34DAP/26DAP	1.03113	1
51DAP/34DAP	0.9674	0.737
52DAP/51DAP	0.96437	1
53DAP/52DAP	1.02578	0.783
55DAP/53DAP	1.02657	0.964
57DAP/55DAP	0.99172	0.925
62DAP/57DAP	0.98062	0.871
68DAP/62DAP	0.92928	0.406
68DAP/14DAP	1.03802	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9881	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.63101
Mature Green Tomato/Ripe Tomato	1.12717	0.478
Immature Eggplant/Mature Eggplant	1.07382	0.659
Ripe Pepper/Ripe Tomato	0.81361	1
Mature Eggplant/Ripe Tomato	0.78909	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01949	1
1-1-2/M82	0.92757	1
12-2/M82	1.01111	1
12-4/M82	0.9134	1
1-3/M82	0.88279	0.501
2-1-1/M82	1.05834	1
2-1/M82	1.4951
2-6/M82	0.95096	1
3-2/M82	0.92213	1
4-1-1/M82	1.08216	1
4-1/M82	0.99196	1
4-3-2/M82	0.89054	0.487
4-3/M82	1.07525	1
5-3/M82	1.0115	1
6-2/M82	0.98964	1
6-3/M82	1.06712	1
7-1/M82	0.9155	0.803
7-2/M82	0.98053	0.881
9-3-2/M82	0.94657	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8421
IL2-6/WTpooled	0.98826	1
IL7-5/WTpooled	0.6831	1
IL7-3/WTpooled	0.77993	0.418
IL12-4/WTpooled	1.0701	0.891
IL1-4/WTpooled	1.20315	1
WT/WTpooled	0.99426	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	2.97877	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10072	0.823
DC3000/delta hrp 6h	1.21264	1
DC3000/delta hrp 12h	1.18734	1
DC3000/delta hrp 24h	1.03282	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91609	0.318
DC3000 delta B/DC3000 delta AB	0.99868	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14511	1
Exp 36h	1.8826	0.693
Exp 60h	1.76509	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04686	1
Var 0h	1.29411	0.782
Var 12h I row2-row1	1.0938	0.324
Var 12h NI row2-row1	0.87998	0.494
Var 36h I row2-row1	0.8861	0.805
Var 36h NI row2-row1	0.86943	0.549
Var 60h I row2-row1	1.02035	0.562
Var 60h NI row2-row1	1.06018	1
Time course 0hI-0hNI	1.11056	0.799
Time course 12hI-12hNI	1.0262	0.803
Time course 36hI-36hNI	0.99607	0.753
Time course 60hI-60hNI	1.70435	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)	0.97542	0.409
transgenic ySAMdc/azygous control (breaker)	0.93376	0.49
transgenic ySAMdc/azygous control (red)	0.97673	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00726	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.38315	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72987	1
Manapal/WT (break)	0.82147	0.333
Manapal/WT (red)	0.82026	0.229