Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.11.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05593	0.878
27DAP/17DAP	0.96684	0.939
39DAP/27DAP	1.24128	0.888
41DAP/39DAP	0.97137	0.883
42DAP/41DAP	1.10885	0.974
43DAP/42DAP	1.17499	0.726
47DAP/43DAP	1.20019	0.595
52DAP/47DAP	0.86535	0.627
57DAP/52DAP	1.13976	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1069	0.052
17DAP/reference	1.1172	0.024
27DAP/reference	1.04791	0.205
39DAP/reference	1.06434	0.581
41DAP/reference	0.99956	1
42DAP/reference	1.06746	0.084
43DAP/reference	0.9704	0.653
47DAP/reference	1.06345	0.284
52DAP/reference	0.95829	0.371
57DAP/reference	0.89057	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95127	0.629
27DAP/17DAP	1.05265	0.836
39DAP/27DAP	1.09408	0.296
41DAP/39DAP	1.06461	0.705
42DAP/41DAP	0.92253	0.617
43DAP/42DAP	1.02769	0.585
47DAP/43DAP	0.94691	0.588
52DAP/47DAP	1.05933	0.766
57DAP/52DAP	1.03062	0.832
57DAP/7DAP	1.12185	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99312	0.682
17DAP/reference	0.96603	0.108
27DAP/reference	1.00497	1
39DAP/reference	0.99098	0.64
41DAP/reference	1.00427	1
42DAP/reference	1.10177	0.1
43DAP/reference	1.05469	0.034
47DAP/reference	1.00365	1
52DAP/reference	1.00576	1
57DAP/reference	0.98654	0.443

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04414	0.424
17DAP/reference	1.06501	0.271
27DAP/reference	1.0346	0.67
39DAP/reference	1.09846	0.2
41DAP/reference	1.00471	0.718
42DAP/reference	1.06636	0.519
43DAP/reference	0.99567	0.787
47DAP/reference	1.03023	0.264
52DAP/reference	1.01684	0.838
57DAP/reference	1.08754	0.08

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03504	0.984
17DAP/reference	1.0436	0.631
27DAP/reference	0.9088	0.195
39DAP/reference	0.95958	0.36
41DAP/reference	0.98764	0.459
42DAP/reference	0.97401	0.445
43DAP/reference	0.97497	0.503
47DAP/reference	1.03083	0.966
52DAP/reference	0.94538	0.31
57DAP/reference	0.87881	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9885	1
26DAP/20DAP	1.122	0.778
34DAP/26DAP	1.0547	0.819
51DAP/34DAP	0.92744	0.64
52DAP/51DAP	1.00539	1
53DAP/52DAP	1.04064	0.768
55DAP/53DAP	1.02808	0.922
57DAP/55DAP	1.22933	0.559
62DAP/57DAP	0.90985	0.466
68DAP/62DAP	1.40013	0.831
68DAP/14DAP	0.95537	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93076	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.99699	0.898
Immature Eggplant/Mature Eggplant	1.10468	0.311
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.53427

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89255	0.605
1-1-2/M82	1.02576	1
12-2/M82	0.97922	0.955
12-4/M82	0.97663	0.619
1-3/M82	0.978	0.501
2-1-1/M82	1.11533	0.689
2-1/M82	1.0464	1
2-6/M82	0.99449	1
3-2/M82	1.17057	0.84
4-1-1/M82	0.98645	1
4-1/M82	1.03615
4-3-2/M82	1.1451
4-3/M82	0.92662	1
5-3/M82	0.97833	1
6-2/M82	1.02257	1
6-3/M82	1.03333	1
7-1/M82	0.94991	0.803
7-2/M82	0.99621	1
9-3-2/M82	0.84638

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31273	0.277
IL2-6/WTpooled	0.88236	0.473
IL7-5/WTpooled	1.20349	0.792
IL7-3/WTpooled	1.18678	1
IL12-4/WTpooled	1.08764	0.673
IL1-4/WTpooled	1.15523	1
WT/WTpooled	0.98624	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	0.88884	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06283	0.823
DC3000/delta hrp 6h	1.09511	1
DC3000/delta hrp 12h	1.05957	1
DC3000/delta hrp 24h	1.0586	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9267	0.538
DC3000 delta B/DC3000 delta AB	0.97026	0.729

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9737	1
Exp 36h	1.07048	1
Exp 60h	1.04388	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01907	1
Var 0h	1.09616	0.936
Var 12h I row2-row1	0.98884	0.948
Var 12h NI row2-row1	0.92291	0.713
Var 36h I row2-row1	1.308	0.908
Var 36h NI row2-row1	1.14074	0.276
Var 60h I row2-row1	1.13997	1
Var 60h NI row2-row1	1.19671	0.904
Time course 0hI-0hNI	1.00678	1
Time course 12hI-12hNI	1.07427	0.678
Time course 36hI-36hNI	0.97469	0.484
Time course 60hI-60hNI	0.88567	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)	1.19735	0.511
transgenic ySAMdc/azygous control (breaker)	1.00678	1
transgenic ySAMdc/azygous control (red)	1.14092	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04807	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72365	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06905	1
Manapal/WT (break)	0.78402	1
Manapal/WT (red)	1.00625	1