Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.11.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20304	0.498
27DAP/17DAP	1.36194	0.56
39DAP/27DAP	1.40425	0.113
41DAP/39DAP	0.74917	0.148
42DAP/41DAP	1.04317	0.971
43DAP/42DAP	1.10884	1
47DAP/43DAP	1.28579	0.391
52DAP/47DAP	1.07608	0.941
57DAP/52DAP	1.06393	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82344	0.051
17DAP/reference	1.08629	0.045
27DAP/reference	1.1185	0.042
39DAP/reference	1.10002	0.423
41DAP/reference	1.06997	0.552
42DAP/reference	1.12137	0.025
43DAP/reference	1.0976	0.175
47DAP/reference	1.18341	0.024
52DAP/reference	1.19173	0.065
57DAP/reference	0.99965	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35185	0.081
27DAP/17DAP	1.08771	0.694
39DAP/27DAP	0.93411	0.308
41DAP/39DAP	0.9669	0.91
42DAP/41DAP	1.01113	0.913
43DAP/42DAP	0.92563	0.079
47DAP/43DAP	1.02658	0.906
52DAP/47DAP	1.09696	0.734
57DAP/52DAP	1.09049	0.489
57DAP/7DAP	1.29064	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91618	0.115
17DAP/reference	1.04853	0.244
27DAP/reference	1.11869	0.041
39DAP/reference	1.25032	0.006
41DAP/reference	1.12154	0.28
42DAP/reference	1.16659	0.046
43DAP/reference	1.16373	0.006
47DAP/reference	1.55321	0.015
52DAP/reference	1.25716	0.025
57DAP/reference	1.28608	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82239	0.029
17DAP/reference	1.10928	0.07
27DAP/reference	1.11245	0.203
39DAP/reference	1.30959	0.023
41DAP/reference	1.08865	0.48
42DAP/reference	1.07699	0.583
43DAP/reference	1.08867	0.761
47DAP/reference	1.05212	0.24
52DAP/reference	1.21256	0.012
57DAP/reference	0.99209	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90446	0.028
17DAP/reference	0.90883	0.124
27DAP/reference	1.11828	0.038
39DAP/reference	1.14591	0.019
41DAP/reference	1.07682	0.077
42DAP/reference	1.20036	0.142
43DAP/reference	1.07356	0.369
47DAP/reference	1.43606	0.019
52DAP/reference	1.3375	0.038
57DAP/reference	1.35031	0.522

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00701	1
26DAP/20DAP	1.03092	0.962
34DAP/26DAP	0.90619	0.509
51DAP/34DAP	1.30501	0.1
52DAP/51DAP	0.94984	1
53DAP/52DAP	1.1138
55DAP/53DAP	0.95428
57DAP/55DAP	1.00025	0.935
62DAP/57DAP	1.09064	0.515
68DAP/62DAP	0.93726	0.668
68DAP/14DAP	0.81941	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29239	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.63909	0.154
Mature Green Tomato/Ripe Tomato	1.01403	0.835
Immature Eggplant/Mature Eggplant	0.96506	0.808
Ripe Pepper/Ripe Tomato	0.98226	1
Mature Eggplant/Ripe Tomato	0.6662	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90139	0.708
1-1-2/M82	1.07018	1
12-2/M82	0.91115	0.74
12-4/M82	1.12803	1
1-3/M82	1.21008	0.479
2-1-1/M82	0.97447	1
2-1/M82	0.93321	0.74
2-6/M82	0.99444	1
3-2/M82	0.98569	1
4-1-1/M82	0.92424	1
4-1/M82	1.5059	0.853
4-3-2/M82	0.95765	0.487
4-3/M82	0.7998	0.72
5-3/M82	1.08272	1
6-2/M82	0.99234	1
6-3/M82	0.96516	1
7-1/M82	1.0157	1
7-2/M82	0.99251	1
9-3-2/M82	1.20101	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92987
IL2-6/WTpooled	1.00172	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.77223	0.31
IL12-4/WTpooled	1.00397	1
IL1-4/WTpooled	1.05823	1
WT/WTpooled	1.0359	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	0.8642	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01906	0.921
DC3000/delta hrp 6h	1.23904	1
DC3000/delta hrp 12h	0.93092	1
DC3000/delta hrp 24h	1.03935	0.582

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17927	0.053
DC3000 delta B/DC3000 delta AB	1.15559	0.223

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.42244	1
Exp 36h	1.13488	1
Exp 60h	1.25856	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96954	1
Var 0h	1.46624	0.98
Var 12h I row2-row1	1.09568	0.296
Var 12h NI row2-row1	0.98968	0.906
Var 36h I row2-row1	0.89539	1
Var 36h NI row2-row1	1.12759	1
Var 60h I row2-row1	1.0231	1
Var 60h NI row2-row1	1.00082	1
Time course 0hI-0hNI	1.07545	0.451
Time course 12hI-12hNI	1.0136	0.818
Time course 36hI-36hNI	1.06132	0.128
Time course 60hI-60hNI	1.26405	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)	1.05767	0.397
transgenic ySAMdc/azygous control (breaker)	1.19697	0.166
transgenic ySAMdc/azygous control (red)	0.95259	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.19107	0.096

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.61435	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.50212	0.172
Manapal/WT (break)	0.70944	0.333
Manapal/WT (red)	0.60907	0.181