Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.17.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18025	0.739
27DAP/17DAP	1.04187	0.9
39DAP/27DAP	1.23647	0.378
41DAP/39DAP	1.74355	0.225
42DAP/41DAP	2.38454	0.021
43DAP/42DAP	1.40256	0.831
47DAP/43DAP	1.07353	0.569
52DAP/47DAP	0.79555	0.498
57DAP/52DAP	1.58662	0.941

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26365	0.097
17DAP/reference	1.30033	0.055
27DAP/reference	1.17064	0.264
39DAP/reference	1.25937	0.108
41DAP/reference	1.59076	0.027
42DAP/reference	1.43227	0.005
43DAP/reference	1.26423	0.089
47DAP/reference	1.55631	0.001
52DAP/reference	1.20247	0.176
57DAP/reference	1.01513	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04153	0.593
27DAP/17DAP	0.96226	0.821
39DAP/27DAP	1.17975	0.324
41DAP/39DAP	0.82532	0.108
42DAP/41DAP	1.36849	0.043
43DAP/42DAP	2.41752	0.014
47DAP/43DAP	1.05741	0.865
52DAP/47DAP	0.93266	0.746
57DAP/52DAP	0.82453	0.289
57DAP/7DAP	1.40204	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.755	0.077
17DAP/reference	0.83086	0.039
27DAP/reference	0.7994	0.019
39DAP/reference	0.87441	0.095
41DAP/reference	0.95545	0.311
42DAP/reference	0.86847	0.055
43DAP/reference	0.82928	0.038
47DAP/reference	1.05832	0.996
52DAP/reference	0.87638	0.033
57DAP/reference	0.9479	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25265	0.3
17DAP/reference	1.67151	0.008
27DAP/reference	1.16806	0.212
39DAP/reference	1.33867	0.013
41DAP/reference	1.36277	0.047
42DAP/reference	1.22716	0.064
43DAP/reference	1.4383	0.031
47DAP/reference	1.29146	0.035
52DAP/reference	1.21742	0.114
57DAP/reference	1.50977	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88319	0.119
17DAP/reference	1.06371	0.804
27DAP/reference	0.7121	0.055
39DAP/reference	0.97356	0.544
41DAP/reference	1.00705	0.754
42DAP/reference	1.07033	0.576
43DAP/reference	1.13939	0.828
47DAP/reference	1.56379	0.007
52DAP/reference	1.07153	0.917
57DAP/reference	0.93443	0.304

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07707	1
26DAP/20DAP	1.05926	0.818
34DAP/26DAP	1.23732	0.819
51DAP/34DAP	0.83266	0.23
52DAP/51DAP	1.19029	0.313
53DAP/52DAP	1.09951	0.608
55DAP/53DAP	1.4546	0.042
57DAP/55DAP	0.94708	0.724
62DAP/57DAP	0.53799	0.005
68DAP/62DAP	1.00572	0.722
68DAP/14DAP	0.71973	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.72966	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.17359	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.69354
Mature Eggplant/Ripe Tomato	0.53489	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12133
1-1-2/M82	1.64021
12-2/M82	N/A	N/A
12-4/M82	1.98272	1
1-3/M82	0.87515
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.03281
3-2/M82	0.2125	0.455
4-1-1/M82	N/A	N/A
4-1/M82	2.28232	0.512
4-3-2/M82	1.17103	1
4-3/M82	N/A	N/A
5-3/M82	0.85212
6-2/M82	0.98663
6-3/M82	N/A	N/A
7-1/M82	1.15598
7-2/M82	0.97622
9-3-2/M82	1.39135	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.18423	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.84816	0.418
IL12-4/WTpooled	1.08148	0.785
IL1-4/WTpooled	1.08723	1
WT/WTpooled	1.00011	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	1.05536	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02855	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.23052	1
DC3000/delta hrp 24h	1.21806	0.165

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32523	0.081
DC3000 delta B/DC3000 delta AB	1.01855	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96881	1
Var 0h	0.99829	1
Var 12h I row2-row1	0.96715	0.856
Var 12h NI row2-row1	1.01534	1
Var 36h I row2-row1	1.25734	0.908
Var 36h NI row2-row1	1.16407	1
Var 60h I row2-row1	0.83803	0.293
Var 60h NI row2-row1	1.03278	1
Time course 0hI-0hNI	0.9597	0.755
Time course 12hI-12hNI	0.95377	0.687
Time course 36hI-36hNI	1.01793	1
Time course 60hI-60hNI	0.69028	0.007

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)	1.45616	0.931
transgenic ySAMdc/azygous control (breaker)	0.97168	1
transgenic ySAMdc/azygous control (red)	0.85518	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.66199	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89744	1
Manapal/WT (break)	1.16105	0.183
Manapal/WT (red)	1.16433	0.413