Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67946	0.272
27DAP/17DAP	0.82957	0.571
39DAP/27DAP	0.88524	0.495
41DAP/39DAP	0.94818	0.777
42DAP/41DAP	1.10641	0.898
43DAP/42DAP	0.81836	0.639
47DAP/43DAP	1.11858	0.809
52DAP/47DAP	1.19956	0.665
57DAP/52DAP	1.28934	0.955

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76254	0.085
17DAP/reference	0.86129	0.018
27DAP/reference	0.98125	0.654
39DAP/reference	1.08175	0.311
41DAP/reference	0.87677	0.085
42DAP/reference	0.97745	0.337
43DAP/reference	0.95836	0.519
47DAP/reference	0.93723	0.207
52DAP/reference	1.04103	0.476
57DAP/reference	1.06694	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.042	0.923
27DAP/17DAP	0.77826	0.39
39DAP/27DAP	0.99838	1
41DAP/39DAP	0.92382	0.781
42DAP/41DAP	1.05278	0.879
43DAP/42DAP	0.93327	0.538
47DAP/43DAP	1.06938	0.822
52DAP/47DAP	1.16532	0.965
57DAP/52DAP	1.00341	0.813
57DAP/7DAP	0.88962	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85927	0.138
17DAP/reference	0.98148	0.518
27DAP/reference	1.01824	0.974
39DAP/reference	1.07805	0.634
41DAP/reference	0.92274	0.247
42DAP/reference	1.00055	0.675
43DAP/reference	0.9833	0.527
47DAP/reference	0.93378	0.293
52DAP/reference	0.91763	0.196
57DAP/reference	0.91493	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89051	0.14
17DAP/reference	0.67977	0.01
27DAP/reference	0.83052	0.09
39DAP/reference	0.93145	0.081
41DAP/reference	0.88885	0.133
42DAP/reference	0.89672	0.237
43DAP/reference	1.04478	0.706
47DAP/reference	0.921	0.126
52DAP/reference	0.88712	0.066
57DAP/reference	0.75791	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89172	0.112
17DAP/reference	0.90956	0.203
27DAP/reference	0.87023	0.243
39DAP/reference	1.05275	1
41DAP/reference	1.12766	0.257
42DAP/reference	0.9937	0.816
43DAP/reference	0.92154	0.319
47DAP/reference	0.96767	0.434
52DAP/reference	0.79934	0.142
57DAP/reference	1.06074	0.856

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22745	0.966
26DAP/20DAP	1.03643	1
34DAP/26DAP	1.23106	0.819
51DAP/34DAP	1.34507	0.473
52DAP/51DAP	1.16245	0.481
53DAP/52DAP	0.93205	0.803
55DAP/53DAP	0.81471	0.43
57DAP/55DAP	0.85156	0.42
62DAP/57DAP	2.53102	0.35
68DAP/62DAP	1.36808	0.046
68DAP/14DAP	1.39569	0.108

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.52672	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.32258	0.068
Mature Green Tomato/Ripe Tomato	1.14007	0.437
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	31.1725	0.256
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	1.39363
12-2/M82	N/A	N/A
12-4/M82	1.04429	1
1-3/M82	0.65084	0.378
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	0.73776
4-1-1/M82	N/A	N/A
4-1/M82	0.8269
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.93173	1
6-2/M82	1.0621
6-3/M82	0.88241	1
7-1/M82	1.2051
7-2/M82	0.93282	0.565
9-3-2/M82	0.97111

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02808	1
IL2-6/WTpooled	1.43018	0.395
IL7-5/WTpooled	1.01795	1
IL7-3/WTpooled	0.82779	0.293
IL12-4/WTpooled	1.12252	0.891
IL1-4/WTpooled	0.86509	0.834
WT/WTpooled	1.17006	0.911

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	0.89721	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92809	1
DC3000/delta hrp 6h	1.26382	1
DC3000/delta hrp 12h	1.06741	1
DC3000/delta hrp 24h	0.87651	0.252

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8856	0.691
DC3000 delta B/DC3000 delta AB	0.55668	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03596	1
Exp 36h	0.69591	0.449
Exp 60h	0.81889	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95952	1
Var 0h	1.13799	0.594
Var 12h I row2-row1	0.87113	0.514
Var 12h NI row2-row1	1.06693	1
Var 36h I row2-row1	0.8849	0.805
Var 36h NI row2-row1	1.2877	1
Var 60h I row2-row1	1.13932	0.347
Var 60h NI row2-row1	1.1322	0.904
Time course 0hI-0hNI	0.94259	0.659
Time course 12hI-12hNI	0.94336	0.497
Time course 36hI-36hNI	0.8152	0.03
Time course 60hI-60hNI	0.17363	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)	0.86535	0.18
transgenic ySAMdc/azygous control (breaker)	1.65557	0.178
transgenic ySAMdc/azygous control (red)	1.17398	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00936	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.29761	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.56103	0.083
Manapal/WT (break)	1.71226	0.14
Manapal/WT (red)	1.17867	0.413