Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.5.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09486	0.904
27DAP/17DAP	0.85531	0.649
39DAP/27DAP	0.8138	0.487
41DAP/39DAP	1.89702	0.318
42DAP/41DAP	0.87623	0.774
43DAP/42DAP	1.09364	1
47DAP/43DAP	0.82055	0.449
52DAP/47DAP	1.16654	0.948
57DAP/52DAP	1.05462	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03948	0.928
17DAP/reference	1.23776	0.047
27DAP/reference	0.94451	0.406
39DAP/reference	1.11233	0.277
41DAP/reference	1.15631	0.025
42DAP/reference	0.99317	0.531
43DAP/reference	1.10105	0.118
47DAP/reference	0.95584	0.3
52DAP/reference	0.89637	0.223
57DAP/reference	1.0224	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82207	0.057
27DAP/17DAP	1.21427	0.151
39DAP/27DAP	0.85448	0.124
41DAP/39DAP	0.70217	0.016
42DAP/41DAP	1.00443	0.925
43DAP/42DAP	1.03474	0.699
47DAP/43DAP	0.94493	0.696
52DAP/47DAP	1.07858	0.713
57DAP/52DAP	1.14081	0.378
57DAP/7DAP	0.62139	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81637	0.146
17DAP/reference	0.76391	0.019
27DAP/reference	0.77284	0.01
39DAP/reference	0.74398	0.013
41DAP/reference	0.8056	0.047
42DAP/reference	0.73412	0.013
43DAP/reference	0.68891	0.011
47DAP/reference	0.66591	0.04
52DAP/reference	0.7578	0.028
57DAP/reference	0.75038	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1982	0.23
17DAP/reference	1.07456	0.496
27DAP/reference	0.97946	0.537
39DAP/reference	0.86261	0.102
41DAP/reference	0.82837	0.064
42DAP/reference	1.00481	1
43DAP/reference	1.19477	0.149
47DAP/reference	1.02743	0.795
52DAP/reference	1.01268	1
57DAP/reference	1.21242	0.26

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9179	0.311
17DAP/reference	1.06585	0.746
27DAP/reference	0.76179	0.035
39DAP/reference	0.72508	0.015
41DAP/reference	0.862	0.058
42DAP/reference	0.80458	0.071
43DAP/reference	0.8451	0.033
47DAP/reference	0.9843	0.574
52DAP/reference	0.93145	0.529
57DAP/reference	0.80205	0.054

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9576	1
26DAP/20DAP	1.09561	0.834
34DAP/26DAP	0.95611	0.927
51DAP/34DAP	1.15944	0.261
52DAP/51DAP	0.91207	1
53DAP/52DAP	0.80318	0.117
55DAP/53DAP	0.57847	0.033
57DAP/55DAP	0.95887	0.823
62DAP/57DAP	4.02604	0.678
68DAP/62DAP	0.91954	0.834
68DAP/14DAP	0.89819	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.21394	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.93488	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.18412

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.8537	0.907
1-1-2/M82	0.8311	0.958
12-2/M82	N/A	N/A
12-4/M82	1.02372	1
1-3/M82	0.71734
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.15319	0.594
3-2/M82	1.21692	0.388
4-1-1/M82	1.08568	0.876
4-1/M82	0.49215	0.998
4-3-2/M82	0.79781	0.487
4-3/M82	0.82855	0.72
5-3/M82	1.03816	1
6-2/M82	0.8893
6-3/M82	0.97255	1
7-1/M82	0.84839
7-2/M82	0.94599
9-3-2/M82	0.80894	0.355

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	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.72212
IL1-4/WTpooled	1.27478	1
WT/WTpooled	N/A	N/A

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	0.75008	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07296	0.692
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.13061	1
DC3000/delta hrp 24h	0.99671	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.49472	0.024
DC3000 delta B/DC3000 delta AB	0.48065	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.0494	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98557	1
Var 0h	0.53696	0.339
Var 12h I row2-row1	0.84975	0.363
Var 12h NI row2-row1	0.91257	0.713
Var 36h I row2-row1	0.80417	0.805
Var 36h NI row2-row1	1.19121	0.482
Var 60h I row2-row1	1.09637	0.448
Var 60h NI row2-row1	1.08972	0.904
Time course 0hI-0hNI	1.0218	0.852
Time course 12hI-12hNI	0.96185	0.675
Time course 36hI-36hNI	0.76002	0.023
Time course 60hI-60hNI	0.23989	0.005

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)	1.18222	0.283
transgenic ySAMdc/azygous control (breaker)	1.29921	0.162
transgenic ySAMdc/azygous control (red)	1.06163	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01058	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0281	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93911	1
Manapal/WT (break)	1.45535	1
Manapal/WT (red)	1.09426	0.413