Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.10.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09121	0.725
27DAP/17DAP	1.15852	0.833
39DAP/27DAP	0.8581	0.495
41DAP/39DAP	1.52217	0.209
42DAP/41DAP	1.07628	1
43DAP/42DAP	0.95521	0.877
47DAP/43DAP	1.03723	0.873
52DAP/47DAP	1.1792	0.649
57DAP/52DAP	0.99253	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0351	0.638
17DAP/reference	1.06037	0.193
27DAP/reference	1.06372	0.227
39DAP/reference	1.00807	0.975
41DAP/reference	1.05843	0.624
42DAP/reference	1.01807	0.504
43DAP/reference	0.96435	0.5
47DAP/reference	0.90523	0.027
52DAP/reference	0.79069	0.043
57DAP/reference	0.83435	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98502	0.75
27DAP/17DAP	1.02919	0.923
39DAP/27DAP	1.00985	0.832
41DAP/39DAP	1.07159	0.827
42DAP/41DAP	1.0651	0.635
43DAP/42DAP	1.01932	0.699
47DAP/43DAP	0.98833	0.928
52DAP/47DAP	0.99763	0.969
57DAP/52DAP	1.03055	0.79
57DAP/7DAP	1.21352	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95248	0.27
17DAP/reference	0.92672	0.028
27DAP/reference	0.89502	0.01
39DAP/reference	1.01231	0.74
41DAP/reference	1.00291	1
42DAP/reference	1.03704	0.405
43DAP/reference	1.00548	1
47DAP/reference	0.96823	0.168
52DAP/reference	0.9454	0.035
57DAP/reference	0.94301	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07427	0.308
17DAP/reference	1.03352	0.824
27DAP/reference	0.92414	0.366
39DAP/reference	0.9097	0.074
41DAP/reference	0.85908	0.026
42DAP/reference	0.98873	0.594
43DAP/reference	1.03357	0.777
47DAP/reference	1.02367	0.775
52DAP/reference	0.9919	0.619
57DAP/reference	1.0866	0.094

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0175	0.75
17DAP/reference	0.95699	0.286
27DAP/reference	0.88741	0.051
39DAP/reference	0.8967	0.069
41DAP/reference	0.9115	0.096
42DAP/reference	0.86784	0.071
43DAP/reference	0.84873	0.049
47DAP/reference	0.98065	0.538
52DAP/reference	0.90835	0.208
57DAP/reference	0.7349	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92677	1
26DAP/20DAP	0.8659	0.512
34DAP/26DAP	1.06982	1
51DAP/34DAP	0.90561	0.563
52DAP/51DAP	1.0073	0.904
53DAP/52DAP	1.07768	0.319
55DAP/53DAP	1.04447	0.869
57DAP/55DAP	1.19203	0.728
62DAP/57DAP	1.09718	0.723
68DAP/62DAP	1.13053	0.827
68DAP/14DAP	0.85965	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04777	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.68639
Mature Green Tomato/Ripe Tomato	0.89303	0.377
Immature Eggplant/Mature Eggplant	1.17232	0.081
Ripe Pepper/Ripe Tomato	1.92239	0.256
Mature Eggplant/Ripe Tomato	0.63488	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90515	0.841
1-1-2/M82	0.97288	1
12-2/M82	1.00073	1
12-4/M82	0.94738	1
1-3/M82	0.95098	1
2-1-1/M82	1.0245	1
2-1/M82	0.99558	1
2-6/M82	1.16103	0.505
3-2/M82	0.79892
4-1-1/M82	0.99709	1
4-1/M82	0.93959	1
4-3-2/M82	0.88069	1
4-3/M82	1.0898	1
5-3/M82	1.02725	1
6-2/M82	1.21997	1
6-3/M82	0.93781	1
7-1/M82	1.04053
7-2/M82	0.92446	0.881
9-3-2/M82	0.66318

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.97025
IL1-4/WTpooled	0.89482
WT/WTpooled	1.0165	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	1.00776	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9367	0.868
DC3000/delta hrp 6h	0.86741	0.95
DC3000/delta hrp 12h	1.09845	1
DC3000/delta hrp 24h	1.00026	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1448	0.16
DC3000 delta B/DC3000 delta AB	1.02162	0.625

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.37126	1
Exp 36h	1.09486	1
Exp 60h	1.21358	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03037	1
Var 0h	2.59313	0.936
Var 12h I row2-row1	1.12479	0.296
Var 12h NI row2-row1	0.96165	0.713
Var 36h I row2-row1	0.9916	1
Var 36h NI row2-row1	0.91341	0.706
Var 60h I row2-row1	1.8805	1
Var 60h NI row2-row1	1.14474	0.904
Time course 0hI-0hNI	1.17669	0.603
Time course 12hI-12hNI	1.11845	0.507
Time course 36hI-36hNI	0.94038	0.139
Time course 60hI-60hNI	0.99309	1

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)	1.01669	0.921
transgenic ySAMdc/azygous control (breaker)	1.51784	0.178
transgenic ySAMdc/azygous control (red)	0.97879	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04423	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04911	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.71926	1
Manapal/WT (break)	1.25312	0.14
Manapal/WT (red)	1.53287	0.137