Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.1.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22137	0.534
27DAP/17DAP	1.06963	0.881
39DAP/27DAP	1.12521	0.708
41DAP/39DAP	0.90043	0.579
42DAP/41DAP	1.21515	0.751
43DAP/42DAP	1.04156	1
47DAP/43DAP	1.11823	0.825
52DAP/47DAP	0.80223	0.496
57DAP/52DAP	1.44767	0.55

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74041	0.034
17DAP/reference	0.74167	0.015
27DAP/reference	0.9253	0.385
39DAP/reference	0.82494	0.074
41DAP/reference	0.68636	0.009
42DAP/reference	0.887	0.052
43DAP/reference	0.87901	0.113
47DAP/reference	0.9316	0.207
52DAP/reference	1.16959	0.076
57DAP/reference	1.15251	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2159	0.305
27DAP/17DAP	1.09911	0.593
39DAP/27DAP	0.96883	0.775
41DAP/39DAP	1.05956	1
42DAP/41DAP	1.05804	0.852
43DAP/42DAP	0.8953	0.165
47DAP/43DAP	1.13836	0.492
52DAP/47DAP	0.99291	0.959
57DAP/52DAP	1.15117	0.479
57DAP/7DAP	0.77722	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05382	0.676
17DAP/reference	1.19994	0.045
27DAP/reference	1.24032	0.049
39DAP/reference	1.34436	0.011
41DAP/reference	1.17157	0.43
42DAP/reference	1.29281	0.405
43DAP/reference	1.10654	0.307
47DAP/reference	1.14264	0.285
52DAP/reference	1.0602	0.941
57DAP/reference	1.23536	0.1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80757	0.164
17DAP/reference	0.67891	0.004
27DAP/reference	0.90966	0.195
39DAP/reference	0.93353	0.144
41DAP/reference	1.03747	0.799
42DAP/reference	0.9371	0.261
43DAP/reference	0.68552	0.024
47DAP/reference	0.81223	0.02
52DAP/reference	0.89864	0.043
57DAP/reference	0.64914	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00714	1
17DAP/reference	0.89063	0.243
27DAP/reference	1.01989	1
39DAP/reference	1.02934	0.813
41DAP/reference	1.024	0.916
42DAP/reference	1.15448	0.15
43DAP/reference	1.0998	0.482
47DAP/reference	0.90015	0.207
52DAP/reference	1.23916	0.491
57DAP/reference	1.38571	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00505	1
26DAP/20DAP	2.12603	0.164
34DAP/26DAP	1.01971	1
51DAP/34DAP	0.97146	0.807
52DAP/51DAP	0.93207	1
53DAP/52DAP	1.00268	1
55DAP/53DAP	1.09191	0.782
57DAP/55DAP	1.58816	0.87
62DAP/57DAP	0.95165	0.871
68DAP/62DAP	1.8177	0.11
68DAP/14DAP	3.0376	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.50389	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.98179	0.783
Mature Green Tomato/Ripe Tomato	1.1348	0.478
Immature Eggplant/Mature Eggplant	0.97755	1
Ripe Pepper/Ripe Tomato	0.76336	1
Mature Eggplant/Ripe Tomato	0.70945	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.51995	0.934
1-1-2/M82	1.06383	1
12-2/M82	0.93746	1
12-4/M82	0.89968	1
1-3/M82	1.21645	1
2-1-1/M82	0.884	0.683
2-1/M82	0.84525	0.322
2-6/M82	0.92197	1
3-2/M82	1.3147	N/A
4-1-1/M82	1.34827	N/A
4-1/M82	1.31436	1
4-3-2/M82	1.3667	N/A
4-3/M82	1.14927	1
5-3/M82	1.0876	1
6-2/M82	1.26406	1
6-3/M82	1.01424	1
7-1/M82	1.13302	N/A
7-2/M82	1.1037	0.324
9-3-2/M82	1.26802	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06929	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.18713	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.15295	0.421
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	1.12824	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01785	0.921
DC3000/delta hrp 6h	0.96204	0.95
DC3000/delta hrp 12h	1.07622	1
DC3000/delta hrp 24h	1.09399	0.356

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.89788	N/A
DC3000 delta B/DC3000 delta AB	1.14403	0.358

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.81894	1
Exp 36h	1.09551	1
Exp 60h	0.88759	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00675	1
Var 0h	0.8827	1
Var 12h I row2-row1	1.0452	0.795
Var 12h NI row2-row1	1.22732	0.266
Var 36h I row2-row1	1.17697	0.309
Var 36h NI row2-row1	0.99138	0.852
Var 60h I row2-row1	0.93593	0.952
Var 60h NI row2-row1	0.83409	0.516
Time course 0hI-0hNI	0.9339	0.595
Time course 12hI-12hNI	0.98544	0.914
Time course 36hI-36hNI	1.29938	0.007
Time course 60hI-60hNI	1.44213	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)	1.03407	0.482
transgenic ySAMdc/azygous control (breaker)	1.14645	0.178
transgenic ySAMdc/azygous control (red)	0.92944	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01037	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.60136	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78555	1
Manapal/WT (break)	0.87593	0.333
Manapal/WT (red)	1.24069	0.164