Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.7.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35446	0.303
27DAP/17DAP	0.60395	0.038
39DAP/27DAP	0.71407	0.397
41DAP/39DAP	0.79161	0.271
42DAP/41DAP	0.89629	1
43DAP/42DAP	1.21325	0.546
47DAP/43DAP	0.79336	0.326
52DAP/47DAP	0.6314	0.147
57DAP/52DAP	0.9936	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83618	0.231
17DAP/reference	0.99282	0.957
27DAP/reference	1.0293	1
39DAP/reference	1.03918	0.991
41DAP/reference	0.65341	0.114
42DAP/reference	1.16848	0.119
43DAP/reference	1.02403	0.942
47DAP/reference	1.4189	0.004
52DAP/reference	1.17929	0.186
57DAP/reference	1.1657	0.097

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10403	0.389
27DAP/17DAP	0.8806	0.648
39DAP/27DAP	0.82862	0.099
41DAP/39DAP	1.09692	0.641
42DAP/41DAP	1.05129	1
43DAP/42DAP	0.95299	0.618
47DAP/43DAP	1.09442	0.618
52DAP/47DAP	1.24203	0.517
57DAP/52DAP	1.11865	0.688
57DAP/7DAP	0.67937	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29526	0.157
17DAP/reference	1.02057	1
27DAP/reference	1.3145	0.017
39DAP/reference	0.84828	0.027
41DAP/reference	0.90451	0.235
42DAP/reference	1.13639	0.1
43DAP/reference	0.77328	0.069
47DAP/reference	0.92757	0.383
52DAP/reference	0.93822	0.137
57DAP/reference	0.81411	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63936	0.022
17DAP/reference	0.72918	0.046
27DAP/reference	0.93455	0.393
39DAP/reference	1.08896	1
41DAP/reference	1.09546	0.814
42DAP/reference	1.18117	0.226
43DAP/reference	0.92425	0.394
47DAP/reference	1.17969	0.366
52DAP/reference	0.9302	0.203
57DAP/reference	0.86754	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11746	0.408
17DAP/reference	1.18667	0.337
27DAP/reference	1.16817	0.1
39DAP/reference	1.21045	0.087
41DAP/reference	1.04147	0.867
42DAP/reference	1.23427	0.251
43DAP/reference	1.19006	0.973
47DAP/reference	0.79074	0.02
52DAP/reference	0.875	0.197
57DAP/reference	2.52626	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80229	0.305
26DAP/20DAP	1.11562	0.62
34DAP/26DAP	0.97735	1
51DAP/34DAP	0.76346	0.085
52DAP/51DAP	1.00538	1
53DAP/52DAP	0.78765	0.379
55DAP/53DAP	1.17671	0.645
57DAP/55DAP	0.87554	0.612
62DAP/57DAP	1.44579	0.133
68DAP/62DAP	1.48973	0.565
68DAP/14DAP	0.78317	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65113	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.76066	0.219
Mature Green Tomato/Ripe Tomato	1.94557	0.036
Immature Eggplant/Mature Eggplant	0.67783	0.064
Ripe Pepper/Ripe Tomato	1.10811	1
Mature Eggplant/Ripe Tomato	1.42416	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.33177
12-2/M82	0.86238
12-4/M82	0.63012	0.274
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.34426
4-3/M82	1.56455	1
5-3/M82	1.1084	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.22224	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.76334	0.277
IL2-6/WTpooled	0.89373	1
IL7-5/WTpooled	0.91302	1
IL7-3/WTpooled	1.39443	1
IL12-4/WTpooled	1.08641	0.646
IL1-4/WTpooled	1.13881	1
WT/WTpooled	0.99045	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	0.76196	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90678	1
DC3000/delta hrp 6h	1.10825	1
DC3000/delta hrp 12h	1.06699	1
DC3000/delta hrp 24h	1.00602	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61298	0.041
DC3000 delta B/DC3000 delta AB	0.49524	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99769	1
Exp 36h	0.77666	0.504
Exp 60h	0.73512	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00861	1
Var 0h	1.05463	1
Var 12h I row2-row1	0.78236	0.344
Var 12h NI row2-row1	0.94402	0.713
Var 36h I row2-row1	0.96297	1
Var 36h NI row2-row1	1.11889	1
Var 60h I row2-row1	1.20726	0.543
Var 60h NI row2-row1	1.04423	1
Time course 0hI-0hNI	0.97193	0.879
Time course 12hI-12hNI	0.96792	0.739
Time course 36hI-36hNI	0.82366	0.032
Time course 60hI-60hNI	0.17934	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)	1.00036	1
transgenic ySAMdc/azygous control (breaker)	1.07934	0.172
transgenic ySAMdc/azygous control (red)	1.0106	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98516	0.651

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.46426	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.65005	0.105
Manapal/WT (break)	1.17147	0.381
Manapal/WT (red)	1.18163	1