Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85391	0.373
27DAP/17DAP	1.33949	0.828
39DAP/27DAP	0.96884	0.733
41DAP/39DAP	1.04192	1
42DAP/41DAP	1.14559	0.898
43DAP/42DAP	1.08394	1
47DAP/43DAP	1.12978	0.727
52DAP/47DAP	1.20259	0.801
57DAP/52DAP	1.05901	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89616	0.205
17DAP/reference	0.9365	0.298
27DAP/reference	0.91897	0.176
39DAP/reference	0.94493	0.381
41DAP/reference	0.86066	0.026
42DAP/reference	0.85821	0.012
43DAP/reference	0.94505	0.123
47DAP/reference	0.96324	0.345
52DAP/reference	1.02361	1
57DAP/reference	1.0896	0.073

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10623	0.482
27DAP/17DAP	0.99299	0.969
39DAP/27DAP	0.99402	1
41DAP/39DAP	1.00972	0.91
42DAP/41DAP	0.895	0.591
43DAP/42DAP	0.86661	0.149
47DAP/43DAP	0.86887	0.516
52DAP/47DAP	1.22528	0.645
57DAP/52DAP	0.97528	0.782
57DAP/7DAP	0.58673	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94132	0.361
17DAP/reference	1.07314	0.822
27DAP/reference	1.2057	1
39DAP/reference	1.08094	0.705
41DAP/reference	1.11247	0.539
42DAP/reference	1.0421	0.889
43DAP/reference	1.04147	0.727
47DAP/reference	1.02058	1
52DAP/reference	0.99364	0.679
57DAP/reference	1.14602	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87658	0.214
17DAP/reference	0.70673	0.006
27DAP/reference	0.78861	0.048
39DAP/reference	0.89929	0.147
41DAP/reference	0.94016	0.284
42DAP/reference	0.90045	0.108
43DAP/reference	0.82032	0.06
47DAP/reference	0.93963	0.201
52DAP/reference	0.89597	0.101
57DAP/reference	0.7537	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05862	0.545
17DAP/reference	1.02373	0.9
27DAP/reference	1.19966	0.078
39DAP/reference	1.08946	0.578
41DAP/reference	1.14512	0.239
42DAP/reference	1.12444	0.408
43DAP/reference	0.85541	0.143
47DAP/reference	0.94102	0.207
52DAP/reference	0.88868	0.529
57DAP/reference	1.06167	0.436

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9145	1
26DAP/20DAP	1.47621	0.735
34DAP/26DAP	1.12264	1
51DAP/34DAP	0.9983	0.96
52DAP/51DAP	0.96197	1
53DAP/52DAP	0.87413	0.581
55DAP/53DAP	1.4179	0.394
57DAP/55DAP	1.14449	1
62DAP/57DAP	1.00098	1
68DAP/62DAP	0.98771	0.863
68DAP/14DAP	1.22289	0.249

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01335	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.7288	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.88467
Mature Eggplant/Ripe Tomato	2.26775

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99565
1-1-2/M82	0.83041
12-2/M82	N/A	N/A
12-4/M82	0.82418
1-3/M82	N/A	N/A
2-1-1/M82	1.31074
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	0.87146	0.642
6-2/M82	N/A	N/A
6-3/M82	1.34729
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	1.30237	0.277
IL2-6/WTpooled	0.71874	0.348
IL7-5/WTpooled	0.97364
IL7-3/WTpooled	1.28603	1
IL12-4/WTpooled	1.21283	0.553
IL1-4/WTpooled	1.08882	0.378
WT/WTpooled	1.00525	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	0.99513	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.73258
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.9506	1
DC3000/delta hrp 24h	1.89673	0.038

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.92394	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.14314	1
Var 0h	0.82491	0.933
Var 12h I row2-row1	1.09945	0.58
Var 12h NI row2-row1	0.993	0.488
Var 36h I row2-row1	0.99493	1
Var 36h NI row2-row1	0.43396	1
Var 60h I row2-row1	1.06876	1
Var 60h NI row2-row1	0.66411	1
Time course 0hI-0hNI	0.96398	0.852
Time course 12hI-12hNI	1.01956	0.818
Time course 36hI-36hNI	1.32979	0.114
Time course 60hI-60hNI	1.66913	0.037

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)	1.00408	1
transgenic ySAMdc/azygous control (breaker)	1.29271	0.248
transgenic ySAMdc/azygous control (red)	1.09811	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03535	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.94662	1
Manapal/WT (red)	0.73555	0.181