Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.20.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9537	0.671
27DAP/17DAP	1.2049	0.859
39DAP/27DAP	0.94566	0.652
41DAP/39DAP	1.12945	0.935
42DAP/41DAP	0.82871	1
43DAP/42DAP	1.30168	0.848
47DAP/43DAP	1.1934	0.689
52DAP/47DAP	1.10248	1
57DAP/52DAP	1.22651	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95875	0.362
17DAP/reference	0.98799	0.664
27DAP/reference	1.00415	0.925
39DAP/reference	0.98775	0.691
41DAP/reference	0.97274	0.542
42DAP/reference	0.93134	0.008
43DAP/reference	0.93416	0.211
47DAP/reference	0.99109	0.568
52DAP/reference	1.05524	0.84
57DAP/reference	0.91353	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98545	0.75
27DAP/17DAP	0.93753	0.748
39DAP/27DAP	1.05728	0.496
41DAP/39DAP	1.10765	0.623
42DAP/41DAP	0.97934	0.772
43DAP/42DAP	0.96967	0.415
47DAP/43DAP	0.98125	0.877
52DAP/47DAP	1.01394	0.939
57DAP/52DAP	1.07495	0.58
57DAP/7DAP	1.11497	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92273	0.246
17DAP/reference	1.01123	1
27DAP/reference	0.90143	0.088
39DAP/reference	0.94616	0.17
41DAP/reference	0.87807	0.073
42DAP/reference	0.85165	0.014
43DAP/reference	0.89267	0.126
47DAP/reference	0.9787	0.671
52DAP/reference	0.92657	0.115
57DAP/reference	0.88834	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97734	0.706
17DAP/reference	0.89172	0.047
27DAP/reference	0.91347	0.081
39DAP/reference	0.92384	0.119
41DAP/reference	0.9308	0.137
42DAP/reference	0.9335	0.261
43DAP/reference	0.89832	0.111
47DAP/reference	0.92279	0.092
52DAP/reference	0.91743	0.021
57DAP/reference	0.92677	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95092	0.422
17DAP/reference	0.96879	0.601
27DAP/reference	0.88905	0.05
39DAP/reference	0.94485	0.36
41DAP/reference	1.02848	0.916
42DAP/reference	0.93015	0.22
43DAP/reference	0.91547	0.188
47DAP/reference	1.04424	0.388
52DAP/reference	0.91372	0.232
57DAP/reference	1.00093	0.842

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00679	1
26DAP/20DAP	0.8756	0.244
34DAP/26DAP	1.01063	1
51DAP/34DAP	0.96933	0.77
52DAP/51DAP	0.98498	1
53DAP/52DAP	1.04095	0.797
55DAP/53DAP	0.98726	0.864
57DAP/55DAP	1.09226	0.448
62DAP/57DAP	1.01071	1
68DAP/62DAP	0.96013	0.787
68DAP/14DAP	1.23487	0.108

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00241	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88597
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.41382	0.069
Ripe Pepper/Ripe Tomato	1.29644	1
Mature Eggplant/Ripe Tomato	1.12382	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99511
1-1-2/M82	N/A	N/A
12-2/M82	0.79972
12-4/M82	0.9942
1-3/M82	1.35996
2-1-1/M82	N/A	N/A
2-1/M82	1.04056
2-6/M82	N/A	N/A
3-2/M82	1.03138
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	0.95786
5-3/M82	1.13492	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.14263	0.291
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.1378	0.365
IL2-6/WTpooled	1.10169	0.427
IL7-5/WTpooled	1.15602	0.792
IL7-3/WTpooled	1.2685	1
IL12-4/WTpooled	1.03914	0.891
IL1-4/WTpooled	1.18037	1
WT/WTpooled	1.0265	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	0.76763	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96863	1
DC3000/delta hrp 6h	1.17555	1
DC3000/delta hrp 12h	0.96809	1
DC3000/delta hrp 24h	1.06286	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06009	0.333
DC3000 delta B/DC3000 delta AB	1.04744	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07501	1
Exp 36h	1.26197	1
Exp 60h	1.56525	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98219	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.21889	0.272
Var 12h NI row2-row1	1.13786	0.649
Var 36h I row2-row1	0.93606	1
Var 36h NI row2-row1	0.79662	0.61
Var 60h I row2-row1	1.04107	0.562
Var 60h NI row2-row1	1.04528	1
Time course 0hI-0hNI	1.06465	0.852
Time course 12hI-12hNI	1.0101	1
Time course 36hI-36hNI	1.13271	0.513
Time course 60hI-60hNI	2.3595	0.01

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)	1.0228	0.273
transgenic ySAMdc/azygous control (breaker)	0.80333	0.173
transgenic ySAMdc/azygous control (red)	0.90852	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05087	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88448	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09321	1
Manapal/WT (break)	0.82439	1
Manapal/WT (red)	1.27792	1