Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.2.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78069	0.153
27DAP/17DAP	0.82352	0.471
39DAP/27DAP	1.30641	0.42
41DAP/39DAP	0.7917	0.276
42DAP/41DAP	1.03536	0.983
43DAP/42DAP	0.94209	0.846
47DAP/43DAP	0.86503	0.565
52DAP/47DAP	0.93436	0.781
57DAP/52DAP	1.19147	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0329	0.814
17DAP/reference	0.98796	0.777
27DAP/reference	1.01739	0.925
39DAP/reference	0.8924	0.097
41DAP/reference	0.78644	0.009
42DAP/reference	0.85781	0.006
43DAP/reference	1.19095	0.403
47DAP/reference	0.95978	0.242
52DAP/reference	1.02357	1
57DAP/reference	1.34294	0.041

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01039	1
27DAP/17DAP	1.04229	0.863
39DAP/27DAP	0.83067	0.065
41DAP/39DAP	1.0556	0.849
42DAP/41DAP	1.01042	1
43DAP/42DAP	0.86963	0.028
47DAP/43DAP	1.03134	0.844
52DAP/47DAP	0.91037	0.565
57DAP/52DAP	0.95824	0.587
57DAP/7DAP	0.85289	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38112	0.046
17DAP/reference	1.33595	0.147
27DAP/reference	0.64828	0.146
39DAP/reference	1.19062	0.126
41DAP/reference	1.09506	0.314
42DAP/reference	1.11451	0.405
43DAP/reference	1.07254	1
47DAP/reference	1.15969	0.142
52DAP/reference	0.91254	0.254
57DAP/reference	1.07651	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8824	0.204
17DAP/reference	0.8564	0.092
27DAP/reference	0.78699	0.031
39DAP/reference	0.8844	0.117
41DAP/reference	0.88514	0.137
42DAP/reference	0.78677	0.032
43DAP/reference	0.78	0.08
47DAP/reference	0.89373	0.092
52DAP/reference	0.82471	0.02
57DAP/reference	0.75809	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24079	0.176
17DAP/reference	1.12009	0.572
27DAP/reference	1.35002	0.085
39DAP/reference	1.10668	0.962
41DAP/reference	0.76606	0.107
42DAP/reference	0.92437	0.445
43DAP/reference	0.89893	0.416
47DAP/reference	0.86596	0.048
52DAP/reference	0.86993	0.36
57DAP/reference	0.93473	0.288

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05334	0.966
26DAP/20DAP	1.05962	1
34DAP/26DAP	0.83536	0.21
51DAP/34DAP	1.0734	0.416
52DAP/51DAP	0.79396	1
53DAP/52DAP	1.18601	0.334
55DAP/53DAP	0.746	0.021
57DAP/55DAP	0.90482	0.56
62DAP/57DAP	1.4243	0.257
68DAP/62DAP	1.44734	0.31
68DAP/14DAP	1.41405	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15498	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.46628	0.063
Mature Green Tomato/Ripe Tomato	0.97205	0.774
Immature Eggplant/Mature Eggplant	0.55783	0.057
Ripe Pepper/Ripe Tomato	2.72773	1
Mature Eggplant/Ripe Tomato	8.39876	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.95775	1
12-2/M82	1.08288
12-4/M82	0.67039	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.57787
2-1/M82	N/A	N/A
2-6/M82	1.74729	0.452
3-2/M82	1.09749
4-1-1/M82	N/A	N/A
4-1/M82	1.70855
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.68562	1
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	1.43363	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11212	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.98921	1
IL7-3/WTpooled	2.02645
IL12-4/WTpooled	0.98949	1
IL1-4/WTpooled	1.31298	1
WT/WTpooled	0.9299	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	1.47259	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97245	1
DC3000/delta hrp 6h	1.22104	0.95
DC3000/delta hrp 12h	1.19437	1
DC3000/delta hrp 24h	0.57841	0.039

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.48892	0.025
DC3000 delta B/DC3000 delta AB	0.42811	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0492	1
Exp 36h	0.87008	0.471
Exp 60h	0.83451	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96737	1
Var 0h	1.05862	1
Var 12h I row2-row1	0.72974	0.363
Var 12h NI row2-row1	0.97763	0.906
Var 36h I row2-row1	1.07025	1
Var 36h NI row2-row1	1.40336	0.482
Var 60h I row2-row1	1.42692	0.562
Var 60h NI row2-row1	1.09521	1
Time course 0hI-0hNI	1.00673	1
Time course 12hI-12hNI	0.93799	0.501
Time course 36hI-36hNI	0.83102	0.03
Time course 60hI-60hNI	0.08936	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)	0.91949	0.454
transgenic ySAMdc/azygous control (breaker)	1.6002	0.248
transgenic ySAMdc/azygous control (red)	1.561	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85843	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.4807	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.2602	0.083
Manapal/WT (break)	4.51251	0.126
Manapal/WT (red)	2.876	0.142