Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94488	0.689
27DAP/17DAP	0.96909	0.939
39DAP/27DAP	0.93007	0.62
41DAP/39DAP	1.63332	0.125
42DAP/41DAP	1.13796	1
43DAP/42DAP	0.93599	0.877
47DAP/43DAP	1.10248	0.856
52DAP/47DAP	1.50276	0.313
57DAP/52DAP	1.00415	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75659	0.034
17DAP/reference	0.91507	0.057
27DAP/reference	0.98279	0.654
39DAP/reference	0.9872	0.779
41DAP/reference	0.82509	0.114
42DAP/reference	0.83358	0.001
43DAP/reference	0.92328	0.259
47DAP/reference	0.9329	0.148
52DAP/reference	1.10449	0.195
57DAP/reference	1.0572	0.344

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15874	0.785
27DAP/17DAP	1.04147	1
39DAP/27DAP	1.2086	0.388
41DAP/39DAP	0.66215	0.013
42DAP/41DAP	0.96785	0.721
43DAP/42DAP	0.95998	0.709
47DAP/43DAP	0.85192	0.166
52DAP/47DAP	1.12493	0.681
57DAP/52DAP	1.16272	0.933
57DAP/7DAP	1.74926	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97519	0.55
17DAP/reference	1.11279	0.525
27DAP/reference	1.15459	0.197
39DAP/reference	0.85893	0.083
41DAP/reference	1.01067	1
42DAP/reference	1.06579	0.534
43DAP/reference	1.07558	0.707
47DAP/reference	0.99661	1
52DAP/reference	1.17634	0.286
57DAP/reference	1.3124	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84066	0.048
17DAP/reference	0.70806	0.007
27DAP/reference	0.78718	0.049
39DAP/reference	0.85648	0.183
41DAP/reference	0.85394	0.078
42DAP/reference	0.79547	0.023
43DAP/reference	0.7693	0.048
47DAP/reference	0.78128	0.019
52DAP/reference	0.83918	0.018
57DAP/reference	0.68941	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99577	0.699
17DAP/reference	0.90561	0.313
27DAP/reference	0.99298	0.763
39DAP/reference	1.04425	0.792
41DAP/reference	1.07177	0.692
42DAP/reference	1.11844	0.49
43DAP/reference	0.98066	0.523
47DAP/reference	0.92801	0.24
52DAP/reference	1.18132	0.664
57DAP/reference	1.19858	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10866	0.966
26DAP/20DAP	0.76926	0.244
34DAP/26DAP	1.12726	1
51DAP/34DAP	1.00851	0.917
52DAP/51DAP	0.93094	1
53DAP/52DAP	1.06677	1
55DAP/53DAP	1.04242	0.898
57DAP/55DAP	0.92536	0.698
62DAP/57DAP	1.24784	0.622
68DAP/62DAP	1.69163	0.142
68DAP/14DAP	1.11914	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78424	0.166

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.47145	0.094
Mature Green Tomato/Ripe Tomato	0.95891	0.611
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	3.70729	1
Mature Eggplant/Ripe Tomato	0.34	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.2022
1-1-2/M82	0.93586	1
12-2/M82	0.98733
12-4/M82	1.17782	1
1-3/M82	0.73595	0.378
2-1-1/M82	1.34677
2-1/M82	N/A	N/A
2-6/M82	1.16382	0.594
3-2/M82	0.90551	1
4-1-1/M82	N/A	N/A
4-1/M82	1.17696	1
4-3-2/M82	0.76667	0.698
4-3/M82	1.05152	1
5-3/M82	0.93422	0.447
6-2/M82	1.47451
6-3/M82	1.16461	0.971
7-1/M82	0.97678
7-2/M82	0.96477	1
9-3-2/M82	0.95806	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83842	0.243
IL2-6/WTpooled	1.17609	0.531
IL7-5/WTpooled	1.08834	1
IL7-3/WTpooled	0.92073	1
IL12-4/WTpooled	1.03646	0.891
IL1-4/WTpooled	0.87521	0.415
WT/WTpooled	0.93307

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	1.41934	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01546	1
DC3000/delta hrp 6h	1.06822	1
DC3000/delta hrp 12h	1.09626	1
DC3000/delta hrp 24h	1.03135	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.26759	1
Exp 60h	1.20708	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.80913
Var 0h	0.90137	1
Var 12h I row2-row1	1.30334	0.348
Var 12h NI row2-row1	0.87794	1
Var 36h I row2-row1	1.40745	0.309
Var 36h NI row2-row1	0.5026	1
Var 60h I row2-row1	1.46766	0.543
Var 60h NI row2-row1	0.73033	0.69
Time course 0hI-0hNI	1.49745	0.799
Time course 12hI-12hNI	1.28509	0.194
Time course 36hI-36hNI	2.26628	0.005
Time course 60hI-60hNI	3.92106	0.047

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)	1.15902	0.408
transgenic ySAMdc/azygous control (breaker)	0.84488	0.15
transgenic ySAMdc/azygous control (red)	0.9447	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.83455	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.52188	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19097	0.14
Manapal/WT (break)	1.18335	0.381
Manapal/WT (red)	0.58084	0.503