Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02597	0.919
27DAP/17DAP	1.10197	0.854
39DAP/27DAP	0.93339	0.631
41DAP/39DAP	1.16559	0.468
42DAP/41DAP	0.87789	1
43DAP/42DAP	0.86118	0.7
47DAP/43DAP	0.94759	0.804
52DAP/47DAP	1.03959	0.994
57DAP/52DAP	0.97824	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0522	0.846
17DAP/reference	1.00712	1
27DAP/reference	1.03286	0.612
39DAP/reference	1.03278	0.386
41DAP/reference	1.06319	0.587
42DAP/reference	0.92496	0.05
43DAP/reference	0.93607	0.346
47DAP/reference	1.01497	0.773
52DAP/reference	0.95753	0.36
57DAP/reference	0.90394	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93944	0.47
27DAP/17DAP	0.93902	0.614
39DAP/27DAP	0.97542	0.673
41DAP/39DAP	1.01648	0.817
42DAP/41DAP	0.95805	0.61
43DAP/42DAP	1.02785	0.25
47DAP/43DAP	0.97981	0.787
52DAP/47DAP	0.96438	0.814
57DAP/52DAP	0.93701	0.467
57DAP/7DAP	1.01619	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8451	0.203
17DAP/reference	0.83059	0.072
27DAP/reference	0.93011	0.494
39DAP/reference	1.24032	0.46
41DAP/reference	1.04165	0.791
42DAP/reference	1.1768	0.308
43DAP/reference	0.87347	0.23
47DAP/reference	1.001	1
52DAP/reference	1.12634	0.428
57DAP/reference	1.05354	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95679	0.487
17DAP/reference	0.90215	0.109
27DAP/reference	0.87245	0.097
39DAP/reference	0.85434	0.085
41DAP/reference	0.86594	0.091
42DAP/reference	0.87635	0.027
43DAP/reference	0.80565	0.17
47DAP/reference	0.9387	0.071
52DAP/reference	0.98979	0.576
57DAP/reference	1.04573	0.324

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28428	0.212
17DAP/reference	1.05286	0.757
27DAP/reference	1.13476	0.805
39DAP/reference	1.04346	0.813
41DAP/reference	1.29293	0.125
42DAP/reference	1.30979	0.287
43DAP/reference	1.22248	0.49
47DAP/reference	0.99366	0.626
52DAP/reference	1.24461	0.201
57DAP/reference	0.93911	0.326

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03307	0.966
26DAP/20DAP	0.99101	1
34DAP/26DAP	1.03224	1
51DAP/34DAP	0.97134	0.688
52DAP/51DAP	0.95866	1
53DAP/52DAP	1.16082	0.24
55DAP/53DAP	0.97759	0.894
57DAP/55DAP	1.49328	0.805
62DAP/57DAP	1.04873	0.935
68DAP/62DAP	0.81747	0.543
68DAP/14DAP	1.14014	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99002	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97248	0.673
Mature Green Tomato/Ripe Tomato	0.75852	0.079
Immature Eggplant/Mature Eggplant	1.31859	0.23
Ripe Pepper/Ripe Tomato	0.77619	0.293
Mature Eggplant/Ripe Tomato	0.98938	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97712	0.961
1-1-2/M82	1.01946	1
12-2/M82	0.96283	0.955
12-4/M82	1.05416	1
1-3/M82	0.95829	0.441
2-1-1/M82	1.01667	1
2-1/M82	1.35419	1
2-6/M82	0.91735	1
3-2/M82	1.08191	0.717
4-1-1/M82	1.02963	1
4-1/M82	1.05124	1
4-3-2/M82	1.00404	1
4-3/M82	0.91153	0.72
5-3/M82	1.01831	1
6-2/M82	1.0539	1
6-3/M82	0.99554	1
7-1/M82	1.0238	1
7-2/M82	0.98296	1
9-3-2/M82	0.79825	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.49113	0.277
IL2-6/WTpooled	1.2517	0.419
IL7-5/WTpooled	0.87295	1
IL7-3/WTpooled	1.52692	0.362
IL12-4/WTpooled	1.77363	0.538
IL1-4/WTpooled	1.32194	0.426
WT/WTpooled	0.98643	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	1.12679	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08904	0.894
DC3000/delta hrp 6h	0.90339	0.95
DC3000/delta hrp 12h	1.06584	1
DC3000/delta hrp 24h	1.03924	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12171	0.042
DC3000 delta B/DC3000 delta AB	1.16913	0.23

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10993	0.223
Exp 36h	1.11579	0.125
Exp 60h	1.04473	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01994	1
Var 0h	1.42223	0.594
Var 12h I row2-row1	1.36517	0.209
Var 12h NI row2-row1	1.05806	1
Var 36h I row2-row1	0.76262	0.805
Var 36h NI row2-row1	0.91233	0.61
Var 60h I row2-row1	1.13463	1
Var 60h NI row2-row1	1.29282	0.904
Time course 0hI-0hNI	1.06738	0.852
Time course 12hI-12hNI	1.04181	0.785
Time course 36hI-36hNI	0.97401	0.533
Time course 60hI-60hNI	1.22615	0.187

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)	0.92927	0.315
transgenic ySAMdc/azygous control (breaker)	0.87748	0.251
transgenic ySAMdc/azygous control (red)	1.11072	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75055	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90889	1
Manapal/WT (break)	0.83789	1
Manapal/WT (red)	0.91546	0.424