Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.17.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83326	0.324
27DAP/17DAP	0.99368	0.939
39DAP/27DAP	1.06952	0.782
41DAP/39DAP	1.41825	0.32
42DAP/41DAP	1.02377	1
43DAP/42DAP	0.95567	0.895
47DAP/43DAP	0.91436	0.687
52DAP/47DAP	1.19487	0.869
57DAP/52DAP	0.96049	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06926	0.5
17DAP/reference	1.10487	0.294
27DAP/reference	1.08829	0.457
39DAP/reference	0.91818	0.188
41DAP/reference	1.04777	0.451
42DAP/reference	1.00547	0.645
43DAP/reference	1.0176	0.982
47DAP/reference	1.04792	0.34
52DAP/reference	1.21001	0.102
57DAP/reference	1.02847	0.762

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92786	0.629
27DAP/17DAP	0.93904	0.821
39DAP/27DAP	1.14561	0.353
41DAP/39DAP	0.93846	0.849
42DAP/41DAP	1.02454	1
43DAP/42DAP	0.97881	0.854
47DAP/43DAP	1.01416	0.973
52DAP/47DAP	0.99644	0.93
57DAP/52DAP	0.85262	0.407
57DAP/7DAP	0.86811	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21657	0.121
17DAP/reference	1.63814	0.025
27DAP/reference	1.23057	0.371
39DAP/reference	0.98838	0.64
41DAP/reference	1.35029	0.28
42DAP/reference	1.16574	0.534
43DAP/reference	1.21629	0.178
47DAP/reference	0.92253	0.293
52DAP/reference	1.12586	0.197
57DAP/reference	1.59739	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95422	0.623
17DAP/reference	0.9979	0.766
27DAP/reference	1.14938	0.427
39DAP/reference	1.14703	0.16
41DAP/reference	1.11463	0.878
42DAP/reference	0.90837	0.261
43DAP/reference	0.9862	0.633
47DAP/reference	0.95273	0.292
52DAP/reference	1.21666	0.069
57DAP/reference	1.11073	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94989	0.041
17DAP/reference	1.21196	0.482
27DAP/reference	1.07793	0.621
39DAP/reference	1.136	0.528
41DAP/reference	1.28865	0.714
42DAP/reference	1.10135	0.893
43DAP/reference	1.22614	0.109
47DAP/reference	0.98261	0.558
52DAP/reference	0.93339	0.529
57DAP/reference	1.4682	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03438	1
26DAP/20DAP	0.81508	0.512
34DAP/26DAP	0.83011	0.381
51DAP/34DAP	1.04142	0.936
52DAP/51DAP	1.20439	0.481
53DAP/52DAP	1.03939	0.944
55DAP/53DAP	1.25371	0.335
57DAP/55DAP	1.11316	0.975
62DAP/57DAP	1.15198	0.767
68DAP/62DAP	1.10809	0.885
68DAP/14DAP	1.30412	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91857	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.68051
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	8.56466
Mature Eggplant/Ripe Tomato	4.61616	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17728	0.526
1-1-2/M82	0.96838	1
12-2/M82	1.39854	1
12-4/M82	0.52941	0.358
1-3/M82	1.77166	0.277
2-1-1/M82	1.26844	0.764
2-1/M82	1.81417	1
2-6/M82	1.27299	0.594
3-2/M82	1.0938
4-1-1/M82	1.60074	1
4-1/M82	0.77232	1
4-3-2/M82	1.0839	1
4-3/M82	2.03462	1
5-3/M82	1.2112	0.572
6-2/M82	1.65305
6-3/M82	1.04388	1
7-1/M82	0.99673	1
7-2/M82	2.16359	0.324
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.95928	1
IL7-5/WTpooled	1.35965
IL7-3/WTpooled	0.90359	1
IL12-4/WTpooled	1.10676	0.891
IL1-4/WTpooled	1.2834	1
WT/WTpooled	1.00908	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	1.30244	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92851	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09869	1
DC3000/delta hrp 24h	1.48669	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0887	0.333
DC3000 delta B/DC3000 delta AB	1.18397	0.292

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	0.95775	1
Var 0h	0.95436	1
Var 12h I row2-row1	1.11051	0.544
Var 12h NI row2-row1	0.95789	0.713
Var 36h I row2-row1	1.00379	1
Var 36h NI row2-row1	1.07942	1
Var 60h I row2-row1	0.89876	0.582
Var 60h NI row2-row1	0.88638	0.38
Time course 0hI-0hNI	1.10017	0.719
Time course 12hI-12hNI	1.49225	0.009
Time course 36hI-36hNI	2.22639	0.005
Time course 60hI-60hNI	3.25008	0.008

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)	1.1172	0.511
transgenic ySAMdc/azygous control (breaker)	1.19754	0.248
transgenic ySAMdc/azygous control (red)	1.03398	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	0.78762	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8552	1
Manapal/WT (break)	1.5046	1
Manapal/WT (red)	3.623	0.222