Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.2.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11066	0.975
27DAP/17DAP	0.99445	1
39DAP/27DAP	1.35137	0.449
41DAP/39DAP	1.27619	0.278
42DAP/41DAP	1.14332	0.999
43DAP/42DAP	0.86274	0.7
47DAP/43DAP	1.02327	0.999
52DAP/47DAP	1.39025	0.292
57DAP/52DAP	1.02303	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07198	0.685
17DAP/reference	0.99108	0.819
27DAP/reference	0.97861	0.581
39DAP/reference	0.94205	0.35
41DAP/reference	1.04603	0.552
42DAP/reference	1.21615	0.007
43DAP/reference	1.07433	0.163
47DAP/reference	1.12678	0.018
52DAP/reference	1.0966	0.286
57DAP/reference	1.05423	0.511

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93263	0.388
27DAP/17DAP	1.00057	0.969
39DAP/27DAP	1.07565	0.603
41DAP/39DAP	1.005	1
42DAP/41DAP	1.01722	0.932
43DAP/42DAP	0.99056	0.928
47DAP/43DAP	1.05642	0.857
52DAP/47DAP	0.9923	0.93
57DAP/52DAP	0.91791	0.275
57DAP/7DAP	0.99897	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01785	1
17DAP/reference	1.04121	0.693
27DAP/reference	0.93571	0.264
39DAP/reference	0.85705	0.126
41DAP/reference	0.93362	0.271
42DAP/reference	0.87463	0.111
43DAP/reference	0.9821	0.527
47DAP/reference	1.14839	0.413
52DAP/reference	0.80041	0.126
57DAP/reference	0.901	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23389	0.046
17DAP/reference	1.36744	0.008
27DAP/reference	1.4712	0.035
39DAP/reference	1.18475	0.103
41DAP/reference	1.29744	0.112
42DAP/reference	1.18958	0.176
43DAP/reference	1.55131	0.024
47DAP/reference	1.0891	0.098
52DAP/reference	1.27254	0.006
57DAP/reference	1.45381	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05404	0.827
17DAP/reference	1.09305	0.612
27DAP/reference	0.76	0.047
39DAP/reference	0.98569	0.643
41DAP/reference	1.03694	1
42DAP/reference	1.20083	0.529
43DAP/reference	1.22404	0.209
47DAP/reference	1.07101	0.461
52DAP/reference	1.20707	0.908
57DAP/reference	1.07358	0.549

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92707	1
26DAP/20DAP	0.85627	1
34DAP/26DAP	1.05527	1
51DAP/34DAP	0.93681	0.587
52DAP/51DAP	1.11519	0.722
53DAP/52DAP	0.91782	0.455
55DAP/53DAP	1.38052	0.748
57DAP/55DAP	0.8888	0.644
62DAP/57DAP	1.06622	1
68DAP/62DAP	0.82281	0.505
68DAP/14DAP	0.77282	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18474	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00314	0.886
Mature Green Tomato/Ripe Tomato	0.89013	0.411
Immature Eggplant/Mature Eggplant	0.55473	0.064
Ripe Pepper/Ripe Tomato	0.59154	0.293
Mature Eggplant/Ripe Tomato	0.75209	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05872
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.9994	1
1-3/M82	1.15999	1
2-1-1/M82	1.30529
2-1/M82	N/A	N/A
2-6/M82	0.93396	1
3-2/M82	0.83081
4-1-1/M82	1.03458	1
4-1/M82	0.96694
4-3-2/M82	0.97505	1
4-3/M82	0.80595
5-3/M82	0.99653	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.23128
7-2/M82	1.00082
9-3-2/M82	0.95942

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.30707
IL2-6/WTpooled	0.93446	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.17267	1
IL12-4/WTpooled	1.244	0.503
IL1-4/WTpooled	0.84432
WT/WTpooled	1.04195	0.999

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	1.2142	0.127

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98221	1
DC3000/delta hrp 6h	0.61478	0.942
DC3000/delta hrp 12h	0.81319	1
DC3000/delta hrp 24h	1.16963	0.271

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	1.07074	0.423

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10682	1
Exp 36h	1.78966	0.693
Exp 60h	1.23464	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98368	1
Var 0h	0.56326	0.289
Var 12h I row2-row1	1.15151	0.263
Var 12h NI row2-row1	1.33144	1
Var 36h I row2-row1	1.32223	1
Var 36h NI row2-row1	0.98294	0.852
Var 60h I row2-row1	0.84859	0.582
Var 60h NI row2-row1	1.2411	1
Time course 0hI-0hNI	1.01432	1
Time course 12hI-12hNI	1.05629	0.72
Time course 36hI-36hNI	1.06901	0.513
Time course 60hI-60hNI	1.60068	0.013

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)	0.78662	0.289
transgenic ySAMdc/azygous control (breaker)	0.77957	0.132
transgenic ySAMdc/azygous control (red)	0.91099	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03489	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87736	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77282	1
Manapal/WT (break)	1.02879	1
Manapal/WT (red)	0.85168	0.36