Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.19.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0953	0.739
27DAP/17DAP	1.11005	0.859
39DAP/27DAP	0.8125	0.447
41DAP/39DAP	1.32221	0.245
42DAP/41DAP	0.9568	1
43DAP/42DAP	1.11001	0.976
47DAP/43DAP	1.24239	0.215
52DAP/47DAP	1.05103	0.884
57DAP/52DAP	1.11101	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.51992	0.012
17DAP/reference	1.38687	0.01
27DAP/reference	1.38417	0.009
39DAP/reference	1.40401	0.012
41DAP/reference	1.97116	0.047
42DAP/reference	1.3483	0.119
43DAP/reference	1.39009
47DAP/reference	1.28623	0.003
52DAP/reference	1.34288	0.022
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94357	0.509
27DAP/17DAP	1.02751	0.973
39DAP/27DAP	1.11006	0.558
41DAP/39DAP	0.92685	0.849
42DAP/41DAP	1.1141	0.753
43DAP/42DAP	1.16225	0.192
47DAP/43DAP	1.00295	0.99
52DAP/47DAP	0.99598	0.93
57DAP/52DAP	0.91938	0.422
57DAP/7DAP	1.08403	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55798	0.054
17DAP/reference	1.45613	0.006
27DAP/reference	1.42496	0.008
39DAP/reference	1.34904	0.022
41DAP/reference	1.74803	0.011
42DAP/reference	1.78048	0.009
43DAP/reference	1.65553	0.008
47DAP/reference	1.27734	0.292
52DAP/reference	1.58288	0.007
57DAP/reference	1.54389	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21198	0.355
17DAP/reference	1.65196	0.06
27DAP/reference	1.38303	0.107
39DAP/reference	1.37831	0.013
41DAP/reference	1.58408	0.005
42DAP/reference	1.55212	0.009
43DAP/reference	1.61716	0.116
47DAP/reference	1.44316	0.008
52DAP/reference	1.73703	0.006
57DAP/reference	1.46458	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31092	0.063
17DAP/reference	1.2604	0.303
27DAP/reference	1.6003	0.014
39DAP/reference	1.29173	0.015
41DAP/reference	1.50224	0.006
42DAP/reference	1.60453	0.011
43DAP/reference	1.5973	0.01
47DAP/reference	1.21619	0.355
52DAP/reference	1.63167	0.059
57DAP/reference	1.38528	0.184

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08571	0.966
26DAP/20DAP	0.96844	1
34DAP/26DAP	0.9909	1
51DAP/34DAP	1.0408	0.917
52DAP/51DAP	1.02092	1
53DAP/52DAP	1.01403	0.944
55DAP/53DAP	1.22268	0.368
57DAP/55DAP	1.21101	0.826
62DAP/57DAP	1.04767	1
68DAP/62DAP	0.80039	0.543
68DAP/14DAP	0.50709	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76849	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.79164	0.331
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.20378
Mature Eggplant/Ripe Tomato	0.87422	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.66851
12-2/M82	N/A	N/A
12-4/M82	0.6703	0.272
1-3/M82	N/A	N/A
2-1-1/M82	1.28323
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92636	0.247
IL2-6/WTpooled	1.08765	0.531
IL7-5/WTpooled	0.99569	1
IL7-3/WTpooled	1.0644	1
IL12-4/WTpooled	1.09163	0.839
IL1-4/WTpooled	1.09493	1
WT/WTpooled	1.017	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	0.89427	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01517	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.13913	1
DC3000/delta hrp 24h	0.74722	0.059

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.58301
DC3000 delta B/DC3000 delta AB	0.86558	0.21

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	0.99359	1
Var 0h	0.57634	0.782
Var 12h I row2-row1	0.8602	0.565
Var 12h NI row2-row1	0.88434	0.488
Var 36h I row2-row1	0.74209	0.805
Var 36h NI row2-row1	1.31631	1
Var 60h I row2-row1	1.14909	0.543
Var 60h NI row2-row1	1.22078	0.904
Time course 0hI-0hNI	1.07027	0.764
Time course 12hI-12hNI	0.91585	0.173
Time course 36hI-36hNI	0.81418	0.036
Time course 60hI-60hNI	0.52302	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.66935	1
transgenic ySAMdc/azygous control (red)	0.75226	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.83281	0.101

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.38079	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.24095	0.15