Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.7.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.59839	0.452
27DAP/17DAP	0.79904	0.475
39DAP/27DAP	1.13742	0.944
41DAP/39DAP	1.01397	0.839
42DAP/41DAP	1.23778	0.786
43DAP/42DAP	0.91918	0.854
47DAP/43DAP	1.34215	0.277
52DAP/47DAP	1.17063	0.763
57DAP/52DAP	1.19429	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93232	0.352
17DAP/reference	0.96163	0.536
27DAP/reference	1.11406	0.118
39DAP/reference	1.11094	0.628
41DAP/reference	0.93247	0.341
42DAP/reference	0.9117	0.052
43DAP/reference	1.02602	0.866
47DAP/reference	1.06987	0.175
52DAP/reference	1.10257	0.524
57DAP/reference	1.24671	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91563	0.442
27DAP/17DAP	1.03875	0.9
39DAP/27DAP	1.07496	0.514
41DAP/39DAP	1.16155	0.69
42DAP/41DAP	0.90115	0.368
43DAP/42DAP	1.07695	0.382
47DAP/43DAP	0.99814	0.997
52DAP/47DAP	0.97832	0.9
57DAP/52DAP	0.96422	0.657
57DAP/7DAP	0.94876	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15974	0.664
17DAP/reference	1.11999	0.896
27DAP/reference	0.94875	0.375
39DAP/reference	1.24503	0.081
41DAP/reference	1.01024	1
42DAP/reference	1.07876	0.686
43DAP/reference	0.96748	0.459
47DAP/reference	1.0732	0.421
52DAP/reference	1.15544	0.491
57DAP/reference	1.12803	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7593	0.048
17DAP/reference	1.08008	1
27DAP/reference	0.9463	0.327
39DAP/reference	1.00578	1
41DAP/reference	0.93187	0.156
42DAP/reference	0.90395	0.061
43DAP/reference	0.95761	0.438
47DAP/reference	0.9294	0.133
52DAP/reference	0.97593	0.5
57DAP/reference	0.97612	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8996	0.112
17DAP/reference	0.98559	0.739
27DAP/reference	0.98155	0.657
39DAP/reference	1.04796	0.512
41DAP/reference	1.07676	0.692
42DAP/reference	1.04379	0.979
43DAP/reference	1.01224	0.712
47DAP/reference	1.10672	0.155
52DAP/reference	0.98607	0.747
57DAP/reference	1.1527	0.164

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00858	1
26DAP/20DAP	0.82056	0.512
34DAP/26DAP	1.10628	1
51DAP/34DAP	0.956	0.727
52DAP/51DAP	0.96845	1
53DAP/52DAP	1.07979	0.594
55DAP/53DAP	0.95604	0.686
57DAP/55DAP	1.11114	0.311
62DAP/57DAP	0.9182	0.994
68DAP/62DAP	1.68227	0.087
68DAP/14DAP	1.67595	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91451	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92964	0.577
Mature Green Tomato/Ripe Tomato	0.73488	0.182
Immature Eggplant/Mature Eggplant	1.56125	0.379
Ripe Pepper/Ripe Tomato	0.84647	1
Mature Eggplant/Ripe Tomato	0.31894	1

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	0.96023
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	1.21121
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	1.0049
5-3/M82	1.06315
6-2/M82	N/A	N/A
6-3/M82	1.18822
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.96836	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.45124	0.277
IL2-6/WTpooled	0.9906	1
IL7-5/WTpooled	1.01677	1
IL7-3/WTpooled	1.06052	1
IL12-4/WTpooled	0.84096	0.71
IL1-4/WTpooled	1.03145	1
WT/WTpooled	0.86745	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	0.95439	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08218	0.823
DC3000/delta hrp 6h	1.35715	0.777
DC3000/delta hrp 12h	1.00142	1
DC3000/delta hrp 24h	0.94231	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18684	0.355
DC3000 delta B/DC3000 delta AB	1.19979	0.292

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9687	1
Exp 36h	0.94276	0.879
Exp 60h	1.21174	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0072	1
Var 0h	0.94695	1
Var 12h I row2-row1	1.12608	0.473
Var 12h NI row2-row1	0.79314	0.349
Var 36h I row2-row1	0.79824	0.805
Var 36h NI row2-row1	0.88014	0.478
Var 60h I row2-row1	1.06688	0.562
Var 60h NI row2-row1	1.12959	0.904
Time course 0hI-0hNI	1.08475	0.833
Time course 12hI-12hNI	0.98743	0.953
Time course 36hI-36hNI	0.96343	0.45
Time course 60hI-60hNI	1.06098	0.216

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)	0.99729	0.931
transgenic ySAMdc/azygous control (breaker)	1.20827	1
transgenic ySAMdc/azygous control (red)	0.91524	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99985	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91294	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8394	0.172
Manapal/WT (break)	0.87877	1
Manapal/WT (red)	N/A	N/A