Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.4.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35429	0.325
27DAP/17DAP	1.07921	1
39DAP/27DAP	0.9924	0.798
41DAP/39DAP	1.23681	0.516
42DAP/41DAP	0.99943	1
43DAP/42DAP	0.89573	0.773
47DAP/43DAP	0.8892	0.628
52DAP/47DAP	1.04049	0.976
57DAP/52DAP	0.96104	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03228	0.844
17DAP/reference	1.22883	0.025
27DAP/reference	1.07319	0.509
39DAP/reference	1.24143	0.117
41DAP/reference	1.23865	0.017
42DAP/reference	0.9388	0.099
43DAP/reference	0.99325	0.84
47DAP/reference	0.92821	0.038
52DAP/reference	0.82668	0.177
57DAP/reference	0.79997	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13315	0.379
27DAP/17DAP	1.08002	0.751
39DAP/27DAP	0.84783	0.179
41DAP/39DAP	1.08639	0.868
42DAP/41DAP	0.91014	0.387
43DAP/42DAP	1.09585	0.413
47DAP/43DAP	0.99949	0.989
52DAP/47DAP	1.14872	0.776
57DAP/52DAP	1.25144	0.32
57DAP/7DAP	1.07102	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21738	0.181
17DAP/reference	1.64262	0.006
27DAP/reference	2.23779	0.006
39DAP/reference	1.67261	0.007
41DAP/reference	1.9435	0.013
42DAP/reference	1.93471	0.007
43DAP/reference	1.67948	0.006
47DAP/reference	1.34802	0.195
52DAP/reference	1.85489	0.01
57DAP/reference	1.38876	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96817	0.72
17DAP/reference	0.84317	0.245
27DAP/reference	0.95324	0.467
39DAP/reference	0.97938	0.539
41DAP/reference	0.91205	0.268
42DAP/reference	0.84426	0.061
43DAP/reference	1.14801	0.142
47DAP/reference	0.98638	0.574
52DAP/reference	1.05484	1
57DAP/reference	1.10858	0.626

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12284	0.207
17DAP/reference	1.09857	0.558
27DAP/reference	1.43424	0.024
39DAP/reference	1.50664	0.013
41DAP/reference	1.4531	0.022
42DAP/reference	1.69931	0.089
43DAP/reference	1.34497	0.28
47DAP/reference	0.9395	0.409
52DAP/reference	1.87501	0.065
57DAP/reference	1.00959	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0683	0.966
26DAP/20DAP	0.87825
34DAP/26DAP	1.23582	1
51DAP/34DAP	1.18317	0.978
52DAP/51DAP	1.00772	1
53DAP/52DAP	1.125	0.91
55DAP/53DAP	0.63802	0.233
57DAP/55DAP	1.29118	0.074
62DAP/57DAP	1.34566
68DAP/62DAP	0.7468
68DAP/14DAP	0.7733	0.08

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01765	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.87285
Mature Green Tomato/Ripe Tomato	2.55276	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.39665	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00079
1-1-2/M82	N/A	N/A
12-2/M82	1.06958
12-4/M82	1.48448	1
1-3/M82	0.55796
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.0542	1
3-2/M82	0.88089
4-1-1/M82	N/A	N/A
4-1/M82	1.72845
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.87132	0.642
6-2/M82	0.71252
6-3/M82	0.94936
7-1/M82	N/A	N/A
7-2/M82	0.60457	0.57
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92241	1
IL2-6/WTpooled	1.60829
IL7-5/WTpooled	1.20495	0.622
IL7-3/WTpooled	1.01376	1
IL12-4/WTpooled	1.07063	0.516
IL1-4/WTpooled	0.96802	0.699
WT/WTpooled	1.0322	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	0.85443	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07257	0.921
DC3000/delta hrp 6h	1.07164	0.857
DC3000/delta hrp 12h	1.01208	1
DC3000/delta hrp 24h	0.9541	0.7

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	0.86198	0.328
Exp 36h	0.76422	0.623
Exp 60h	0.67112	0.259

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)	1.08758	0.372
transgenic ySAMdc/azygous control (breaker)	0.94474	0.49
transgenic ySAMdc/azygous control (red)	1.01365	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97795	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95479	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8251	1
Manapal/WT (break)	1.02923	1
Manapal/WT (red)	2.2498	0.413