Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86583	0.389
27DAP/17DAP	0.89569	0.749
39DAP/27DAP	1.57586	0.061
41DAP/39DAP	0.83172	0.394
42DAP/41DAP	1.48817	0.599
43DAP/42DAP	1.47478	0.785
47DAP/43DAP	0.47958	0.049
52DAP/47DAP	0.9996	0.81
57DAP/52DAP	1.34708	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11542	0.662
17DAP/reference	1.08743	0.957
27DAP/reference	0.87921	0.176
39DAP/reference	1.39345	0.368
41DAP/reference	1.0555	1
42DAP/reference	2.83826	0.001
43DAP/reference	1.87041	0.007
47DAP/reference	1.60354	0.001
52DAP/reference	1.1017	0.633
57DAP/reference	1.3241	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.80374	0.04
27DAP/17DAP	1.05751	0.973
39DAP/27DAP	0.83905	0.338
41DAP/39DAP	1.3869	0.719
42DAP/41DAP	1.06802	0.932
43DAP/42DAP	1.19104	0.192
47DAP/43DAP	0.9527	0.774
52DAP/47DAP	0.88655	0.56
57DAP/52DAP	0.8938	0.415
57DAP/7DAP	0.69777	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.57771	0.027
17DAP/reference	2.20248	0.006
27DAP/reference	1.83806	0.006
39DAP/reference	1.62506	0.007
41DAP/reference	2.01739	0.01
42DAP/reference	3.56326	0.006
43DAP/reference	4.49001	0.006
47DAP/reference	5.0299	0.014
52DAP/reference	3.82138	0.007
57DAP/reference	3.25453	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71317	0.032
17DAP/reference	1.62477	0.081
27DAP/reference	1.79683	0.024
39DAP/reference	1.07997	0.935
41DAP/reference	1.31003	0.035
42DAP/reference	1.75948	0.01
43DAP/reference	1.17762	0.89
47DAP/reference	1.53556	0.022
52DAP/reference	0.93249	0.22
57DAP/reference	1.08561	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13841	0.532
17DAP/reference	1.13576	0.918
27DAP/reference	1.56159	0.033
39DAP/reference	1.87068	0.009
41DAP/reference	1.56213	0.008
42DAP/reference	3.45792	0.006
43DAP/reference	3.54238	0.006
47DAP/reference	1.39251	0.099
52DAP/reference	1.62525	0.051
57DAP/reference	2.46047	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0277	1
26DAP/20DAP	2.11502	0.13
34DAP/26DAP	0.82846	0.431
51DAP/34DAP	1.21973	0.251
52DAP/51DAP	0.9917	1
53DAP/52DAP	0.69035	0.049
55DAP/53DAP	0.42616	0.016
57DAP/55DAP	0.75457	0.282
62DAP/57DAP	1.08652	0.678
68DAP/62DAP	1.05448	0.858
68DAP/14DAP	0.97243	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	9.71895	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.02811	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.80581	0.197
Ripe Pepper/Ripe Tomato	0.56608	0.224
Mature Eggplant/Ripe Tomato	0.83788	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95203	0.934
1-1-2/M82	1.96132	1
12-2/M82	0.93536	0.464
12-4/M82	0.97325	1
1-3/M82	2.27149	0.26
2-1-1/M82	0.96037	0.465
2-1/M82	0.75948	0.74
2-6/M82	1.17726	0.594
3-2/M82	1.0187	0.967
4-1-1/M82	2.38187	1
4-1/M82	5.00393	0.853
4-3-2/M82	3.25097	0.246
4-3/M82	1.12882	1
5-3/M82	0.93046	1
6-2/M82	1.77228	1
6-3/M82	1.08627	1
7-1/M82	1.00847	1
7-2/M82	1.84119	1
9-3-2/M82	2.53455	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.76418	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.33683	1
IL12-4/WTpooled	0.99582	1
IL1-4/WTpooled	1.04986
WT/WTpooled	0.97332	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	1.09565	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03603	0.914
DC3000/delta hrp 6h	0.91485	0.95
DC3000/delta hrp 12h	1.196	1
DC3000/delta hrp 24h	0.73097	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61426	0.025
DC3000 delta B/DC3000 delta AB	0.65209	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91363	1
Exp 36h	1.69258	1
Exp 60h	0.95743	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04269	1
Var 0h	1.2014	0.421
Var 12h I row2-row1	0.89934	0.705
Var 12h NI row2-row1	1.21935	0.34
Var 36h I row2-row1	1.01115	1
Var 36h NI row2-row1	1.44382	1
Var 60h I row2-row1	1.02529	1
Var 60h NI row2-row1	1.03656	1
Time course 0hI-0hNI	1.09771	0.662
Time course 12hI-12hNI	0.90137	0.252
Time course 36hI-36hNI	0.69305	0.024
Time course 60hI-60hNI	0.1839	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)	1.07981	0.699
transgenic ySAMdc/azygous control (breaker)	0.85976	0.49
transgenic ySAMdc/azygous control (red)	1.06587	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09653	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.50862	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97145	1
Manapal/WT (break)	0.98543	1
Manapal/WT (red)	0.96674	0.728