Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.2.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1432	0.725
27DAP/17DAP	1.25859	0.8
39DAP/27DAP	0.72782	0.353
41DAP/39DAP	1.15781	0.691
42DAP/41DAP	1.11811	0.978
43DAP/42DAP	1.03813	0.937
47DAP/43DAP	1.056	0.904
52DAP/47DAP	1.15887	0.856
57DAP/52DAP	1.11517	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93329	0.269
17DAP/reference	1.0324	0.427
27DAP/reference	1.01788	0.771
39DAP/reference	0.96377	0.391
41DAP/reference	0.99691	1
42DAP/reference	0.98889	0.413
43DAP/reference	0.99432	0.84
47DAP/reference	0.97242	0.191
52DAP/reference	0.96197	0.3
57DAP/reference	0.92123	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99926	0.899
27DAP/17DAP	0.97789	0.821
39DAP/27DAP	1.01557	0.832
41DAP/39DAP	1.244	0.232
42DAP/41DAP	0.90817	0.208
43DAP/42DAP	0.95531	0.641
47DAP/43DAP	1.08395	0.475
52DAP/47DAP	0.9602	0.753
57DAP/52DAP	1.00147	0.929
57DAP/7DAP	1.1832	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84744	0.138
17DAP/reference	0.7218	0.012
27DAP/reference	0.71786	0.01
39DAP/reference	0.75424	0.012
41DAP/reference	0.80857	0.05
42DAP/reference	0.80222	0.09
43DAP/reference	0.61824	0.013
47DAP/reference	0.79973	0.168
52DAP/reference	0.66558	0.027
57DAP/reference	0.75228	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9832	0.736
17DAP/reference	0.96482	0.357
27DAP/reference	0.92564	0.167
39DAP/reference	0.92994	0.074
41DAP/reference	1.02631	1
42DAP/reference	0.93478	0.108
43DAP/reference	0.87566	0.062
47DAP/reference	0.96616	0.246
52DAP/reference	1.04747	0.114
57DAP/reference	1.00401	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85795	0.098
17DAP/reference	0.94855	0.433
27DAP/reference	0.77155	0.031
39DAP/reference	0.73668	0.016
41DAP/reference	0.83262	0.132
42DAP/reference	0.68103	0.059
43DAP/reference	0.79111	0.031
47DAP/reference	0.96645	0.325
52DAP/reference	0.80619	0.193
57DAP/reference	0.99585	0.765

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03742	0.966
26DAP/20DAP	0.90087	0.317
34DAP/26DAP	0.90952	0.702
51DAP/34DAP	1.00804	0.988
52DAP/51DAP	0.99837	1
53DAP/52DAP	0.90482	0.342
55DAP/53DAP	0.97738	0.852
57DAP/55DAP	0.90069	0.548
62DAP/57DAP	1.10652	0.569
68DAP/62DAP	1.14029	0.597
68DAP/14DAP	1.1938	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03766	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.61558	0.058
Mature Green Tomato/Ripe Tomato	0.82136	0.446
Immature Eggplant/Mature Eggplant	0.95329	0.808
Ripe Pepper/Ripe Tomato	0.51884	0.224
Mature Eggplant/Ripe Tomato	0.8323	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96616	0.961
1-1-2/M82	0.84999	1
12-2/M82	1.14768	1
12-4/M82	0.93041	1
1-3/M82	0.83524	0.441
2-1-1/M82	1.01394
2-1/M82	N/A	N/A
2-6/M82	1.3262	0.452
3-2/M82	N/A	N/A
4-1-1/M82	0.88298	1
4-1/M82	1.04622	1
4-3-2/M82	0.89961
4-3/M82	0.91858	1
5-3/M82	1.02944	1
6-2/M82	1.00409	1
6-3/M82	0.91859	1
7-1/M82	N/A	N/A
7-2/M82	1.0152	1
9-3-2/M82	0.96512	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.39509	0.243
IL2-6/WTpooled	1.10592	0.419
IL7-5/WTpooled	0.85789	1
IL7-3/WTpooled	1.08735	1
IL12-4/WTpooled	1.15034	0.695
IL1-4/WTpooled	0.73448	0.444
WT/WTpooled	1.18683	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	0.95863	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00969	1
DC3000/delta hrp 6h	1.03935	1
DC3000/delta hrp 12h	1.12289	1
DC3000/delta hrp 24h	1.00739	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10929	0.16
DC3000 delta B/DC3000 delta AB	1.03092	0.586

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26872	1
Exp 36h	1.24245	1
Exp 60h	1.12234	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.89781	1
Var 0h	1.00891	1
Var 12h I row2-row1	1.11952	0.406
Var 12h NI row2-row1	1.03326	1
Var 36h I row2-row1	0.91057	1
Var 36h NI row2-row1	0.74397	1
Var 60h I row2-row1	1.45587	1
Var 60h NI row2-row1	1.0946	0.904
Time course 0hI-0hNI	1.04835	0.852
Time course 12hI-12hNI	1.01253	0.854
Time course 36hI-36hNI	1.06869	0.651
Time course 60hI-60hNI	1.22988	0.009

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)	1.15291	0.571
transgenic ySAMdc/azygous control (breaker)	0.73642	0.251
transgenic ySAMdc/azygous control (red)	0.86883	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97102	0.227

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79594	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10356	0.307
Manapal/WT (break)	1.29866	1
Manapal/WT (red)	1.54833	0.222