Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.13.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1313	0.977
27DAP/17DAP	0.88764	0.822
39DAP/27DAP	0.76088	0.397
41DAP/39DAP	1.36467	0.833
42DAP/41DAP	0.77025	0.774
43DAP/42DAP	1.05952	1
47DAP/43DAP	0.93127	0.724
52DAP/47DAP	0.84444	0.572
57DAP/52DAP	0.85238	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95875	0.317
17DAP/reference	1.09051	0.025
27DAP/reference	1.01451	0.735
39DAP/reference	1.02006	0.514
41DAP/reference	1.0651	0.062
42DAP/reference	0.91031	0.007
43DAP/reference	0.97158	0.448
47DAP/reference	0.93312	0.014
52DAP/reference	0.86597	0.033
57DAP/reference	1.0496	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15611	0.736
27DAP/17DAP	1.17188	0.447
39DAP/27DAP	1.41445	0.178
41DAP/39DAP	1.09732	0.88
42DAP/41DAP	1.03461	0.887
43DAP/42DAP	1.11202	0.83
47DAP/43DAP	1.00223	0.961
52DAP/47DAP	1.35501	0.366
57DAP/52DAP	0.96831	0.721
57DAP/7DAP	0.98847	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98987	0.613
17DAP/reference	0.90445	0.094
27DAP/reference	0.90306	0.045
39DAP/reference	0.99541	0.64
41DAP/reference	0.8572	0.139
42DAP/reference	0.84468	0.136
43DAP/reference	0.88589	0.115
47DAP/reference	0.82667	0.293
52DAP/reference	0.77597	0.021
57DAP/reference	0.93871	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92181	0.124
17DAP/reference	0.98821	0.642
27DAP/reference	1.00024	0.686
39DAP/reference	0.81109	0.043
41DAP/reference	0.90573	0.237
42DAP/reference	0.88968	0.055
43DAP/reference	1.23667	0.135
47DAP/reference	0.93026	0.141
52DAP/reference	1.0114	0.838
57DAP/reference	1.09837	0.161

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93608	0.23
17DAP/reference	1.00372	0.9
27DAP/reference	1.01279	1
39DAP/reference	0.9467	0.246
41DAP/reference	0.92336	0.264
42DAP/reference	0.87025	0.172
43DAP/reference	0.82121	0.076
47DAP/reference	0.9068	0.191
52DAP/reference	4.34301	0.088
57DAP/reference	1.50224	0.744

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95272	1
26DAP/20DAP	1.73085	0.499
34DAP/26DAP	1.00829	0.972
51DAP/34DAP	0.92704	0.824
52DAP/51DAP	1.24162	0.708
53DAP/52DAP	1.02003	0.891
55DAP/53DAP	0.74647	0.218
57DAP/55DAP	1.02499	0.947
62DAP/57DAP	0.94918	0.871
68DAP/62DAP	0.94615	0.769
68DAP/14DAP	0.84814	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.54714	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.88134
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	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	0.75408	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.44554	1
IL12-4/WTpooled	1.35886	0.522
IL1-4/WTpooled	0.88935	0.699
WT/WTpooled	1.04267	0.789

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	1.01185	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	2.13258	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.27399	1
DC3000/delta hrp 24h	N/A	N/A

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	0.73116	0.328
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	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.18177	0.863
transgenic ySAMdc/azygous control (breaker)	1.12106	1
transgenic ySAMdc/azygous control (red)	1.1479	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9433	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.94561	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8989	1
Manapal/WT (break)	1.77975	0.381
Manapal/WT (red)	0.7175	0.183