Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.10.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06185	0.997
27DAP/17DAP	1.11178	0.845
39DAP/27DAP	1.191	0.752
41DAP/39DAP	1.34092	0.437
42DAP/41DAP	0.91891	1
43DAP/42DAP	0.89511	0.827
47DAP/43DAP	1.03213	0.979
52DAP/47DAP	1.27915	0.948
57DAP/52DAP	0.97373	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95546	0.422
17DAP/reference	0.97731	0.597
27DAP/reference	0.90273	0.025
39DAP/reference	1.00128	1
41DAP/reference	0.99514	1
42DAP/reference	1.06421	0.352
43DAP/reference	1.02694	0.73
47DAP/reference	0.99333	0.535
52DAP/reference	1.05969	0.335
57DAP/reference	1.10578	0.478

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99151	0.826
27DAP/17DAP	1.03574	0.915
39DAP/27DAP	1.02759	0.874
41DAP/39DAP	0.88242	0.617
42DAP/41DAP	1.10159	1
43DAP/42DAP	1.09797	0.413
47DAP/43DAP	0.89441	0.286
52DAP/47DAP	1.0832	0.749
57DAP/52DAP	0.77003	0.144
57DAP/7DAP	0.8099	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83464	0.115
17DAP/reference	0.8724	0.064
27DAP/reference	1.01274	1
39DAP/reference	0.74981	0.011
41DAP/reference	0.80657	0.018
42DAP/reference	0.98688	0.531
43DAP/reference	0.67016	0.016
47DAP/reference	0.78875	0.101
52DAP/reference	0.72148	0.014
57DAP/reference	0.70441	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37636	0.06
17DAP/reference	1.32479	0.011
27DAP/reference	1.24107	0.097
39DAP/reference	0.97705	0.526
41DAP/reference	1.09576	0.228
42DAP/reference	1.26115	0.019
43DAP/reference	1.78752	0.013
47DAP/reference	1.3918	0.008
52DAP/reference	1.08445	0.498
57DAP/reference	1.43955	0.182

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82223	0.082
17DAP/reference	1.02149	0.918
27DAP/reference	0.78147	0.047
39DAP/reference	0.79569	0.031
41DAP/reference	1.03747	1
42DAP/reference	1.15643	0.364
43DAP/reference	0.97237	0.545
47DAP/reference	1.14412	0.055
52DAP/reference	0.91685	0.472
57DAP/reference	1.03442	0.892

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16141	0.966
26DAP/20DAP	0.8888	1
34DAP/26DAP	1.05895	1
51DAP/34DAP	0.92269	0.743
52DAP/51DAP	1.09738	0.954
53DAP/52DAP	1.10151	0.901
55DAP/53DAP	1.21002	0.834
57DAP/55DAP	1.40388	0.407
62DAP/57DAP	1.26144	0.35
68DAP/62DAP	1.33244	0.272
68DAP/14DAP	1.06456	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33884	0.049

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.54279	0.149
Mature Green Tomato/Ripe Tomato	1.65531	0.523
Immature Eggplant/Mature Eggplant	1.44794	0.05
Ripe Pepper/Ripe Tomato	1.21932	1
Mature Eggplant/Ripe Tomato	0.81316	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17773	0.536
1-1-2/M82	1.1274	1
12-2/M82	1.00687
12-4/M82	1.02806	1
1-3/M82	0.93521	1
2-1-1/M82	1.05374	1
2-1/M82	N/A	N/A
2-6/M82	0.98192	1
3-2/M82	0.9655	1
4-1-1/M82	0.98084	1
4-1/M82	0.82709	1
4-3-2/M82	0.7452	0.487
4-3/M82	0.94639	1
5-3/M82	0.96874	0.447
6-2/M82	0.80344	1
6-3/M82	0.95673	1
7-1/M82	0.88171
7-2/M82	0.92627	0.881
9-3-2/M82	0.90954	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.18738	0.456
IL7-5/WTpooled	0.63339
IL7-3/WTpooled	0.80438	0.418
IL12-4/WTpooled	1.20383	0.595
IL1-4/WTpooled	1.07679	1
WT/WTpooled	0.96499	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	1.32872	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01909	1
DC3000/delta hrp 6h	1.03783	1
DC3000/delta hrp 12h	0.90561	1
DC3000/delta hrp 24h	1.0287	0.673

Experiment: DC3000 effector mutants

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

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92693	0.328
Exp 36h	1.73878	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	0.891	1
Var 0h	0.71949	0.374
Var 12h I row2-row1	1.03921	0.613
Var 12h NI row2-row1	0.76806	0.466
Var 36h I row2-row1	0.89686	0.374
Var 36h NI row2-row1	1.79421	1
Var 60h I row2-row1	1.08195	1
Var 60h NI row2-row1	0.92756	1
Time course 0hI-0hNI	0.9987	1
Time course 12hI-12hNI	0.95126	0.711
Time course 36hI-36hNI	0.87487	0.043
Time course 60hI-60hNI	0.90219	0.026

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)	0.8344	0.26
transgenic ySAMdc/azygous control (breaker)	0.89656	0.49
transgenic ySAMdc/azygous control (red)	0.96079	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00772	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08875	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77283	1
Manapal/WT (break)	0.54191	0.299
Manapal/WT (red)	0.80173	0.181