Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1112	0.851
27DAP/17DAP	1.5037	0.588
39DAP/27DAP	1.57702	0.154
41DAP/39DAP	1.08163	0.946
42DAP/41DAP	0.87899	1
43DAP/42DAP	0.97891	0.925
47DAP/43DAP	0.80043	0.395
52DAP/47DAP	1.60044	0.285
57DAP/52DAP	0.90097	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13722	0.132
17DAP/reference	0.93254	0.104
27DAP/reference	0.90079	0.215
39DAP/reference	0.76044	0.012
41DAP/reference	0.76112	0.012
42DAP/reference	1.29474	0.001
43DAP/reference	0.93414	0.316
47DAP/reference	1.07995	0.329
52DAP/reference	1.08839	0.205
57DAP/reference	1.14603	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97895	0.732
27DAP/17DAP	0.90736	0.58
39DAP/27DAP	0.81885	0.106
41DAP/39DAP	1.39582	0.407
42DAP/41DAP	0.90438	0.379
43DAP/42DAP	0.91563	0.482
47DAP/43DAP	0.94866	0.764
52DAP/47DAP	0.95594	0.839
57DAP/52DAP	1.08504	0.722
57DAP/7DAP	0.67118	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.99665	0.025
17DAP/reference	1.52284	0.007
27DAP/reference	1.09866	0.301
39DAP/reference	2.25372	0.005
41DAP/reference	1.514	0.117
42DAP/reference	2.07253	0.006
43DAP/reference	1.89335	0.013
47DAP/reference	1.66551	0.022
52DAP/reference	1.85876	0.007
57DAP/reference	1.60514	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98705	0.786
17DAP/reference	0.94691	0.389
27DAP/reference	1.06675	0.66
39DAP/reference	1.06065	0.956
41DAP/reference	1.28265	0.012
42DAP/reference	1.20753	0.157
43DAP/reference	0.94741	0.459
47DAP/reference	1.16135	0.036
52DAP/reference	0.756	0.006
57DAP/reference	0.76699	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65624	0.019
17DAP/reference	1.11249	0.303
27DAP/reference	1.41992	0.029
39DAP/reference	1.64139	0.009
41DAP/reference	1.13556	0.062
42DAP/reference	1.18769	0.062
43DAP/reference	1.29672	0.116
47DAP/reference	1.49911	0.034
52DAP/reference	1.80961	0.059
57DAP/reference	3.15778	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99853	1
26DAP/20DAP	0.90496	1
34DAP/26DAP	1.2229	0.154
51DAP/34DAP	1.01342	0.988
52DAP/51DAP	1.19349	0.304
53DAP/52DAP	1.01865	1
55DAP/53DAP	0.88711	0.163
57DAP/55DAP	1.157	0.818
62DAP/57DAP	3.22407
68DAP/62DAP	3.48064	0.616
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9903	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82266	0.268
Mature Green Tomato/Ripe Tomato	0.9899	0.835
Immature Eggplant/Mature Eggplant	1.02132	0.683
Ripe Pepper/Ripe Tomato	1.39506	1
Mature Eggplant/Ripe Tomato	0.61831	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98036	0.961
1-1-2/M82	0.90967	0.958
12-2/M82	1.12368	1
12-4/M82	0.92846	1
1-3/M82	0.99337	1
2-1-1/M82	1.02451	1
2-1/M82	1.47866	0.345
2-6/M82	1.17151	0.594
3-2/M82	0.86232
4-1-1/M82	0.97433	1
4-1/M82	1.20543
4-3-2/M82	0.7815	1
4-3/M82	0.76225	0.611
5-3/M82	1.00696	1
6-2/M82	1.1818	1
6-3/M82	0.91795	0.715
7-1/M82	0.99333	1
7-2/M82	0.97703	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.68953	0.321
IL2-6/WTpooled	0.88143	0.473
IL7-5/WTpooled	0.62253	1
IL7-3/WTpooled	0.84841	0.294
IL12-4/WTpooled	0.75951	0.581
IL1-4/WTpooled	0.94284	1
WT/WTpooled	0.95098	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	0.86201	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99357	1
DC3000/delta hrp 6h	0.83502	0.95
DC3000/delta hrp 12h	1.14224	1
DC3000/delta hrp 24h	1.10999	0.192

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.89484	0.413
DC3000 delta B/DC3000 delta AB	0.80724	0.039

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01205	1
Exp 36h	1.48142	0.371
Exp 60h	1.16766	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98844	1
Var 0h	0.29755	0.332
Var 12h I row2-row1	1.15086	0.443
Var 12h NI row2-row1	1.19014	0.649
Var 36h I row2-row1	0.70445	0.313
Var 36h NI row2-row1	1.41774	1
Var 60h I row2-row1	0.57419	0.306
Var 60h NI row2-row1	1.06011	0.904
Time course 0hI-0hNI	0.86872	0.189
Time course 12hI-12hNI	0.96148	0.742
Time course 36hI-36hNI	0.70958	0.025
Time course 60hI-60hNI	0.27469	0.006

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)	1.28006	0.397
transgenic ySAMdc/azygous control (breaker)	0.57667	0.137
transgenic ySAMdc/azygous control (red)	0.90262	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01748	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69423	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10239	1
Manapal/WT (break)	0.91818	1
Manapal/WT (red)	1.04707	1