Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05791	0.83
27DAP/17DAP	1.11218	0.859
39DAP/27DAP	0.97557	0.733
41DAP/39DAP	0.91443	0.636
42DAP/41DAP	0.86526	1
43DAP/42DAP	0.72591	0.705
47DAP/43DAP	1.09605	0.943
52DAP/47DAP	1.04195	0.948
57DAP/52DAP	0.83945	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85844	0.075
17DAP/reference	0.95846	0.448
27DAP/reference	1.01004	0.847
39DAP/reference	1.22571	0.038
41DAP/reference	1.00424	1
42DAP/reference	0.92133	0.103
43DAP/reference	1.06224	0.518
47DAP/reference	0.91039	0.137
52DAP/reference	0.88788	0.158
57DAP/reference	1.00445	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96068	0.663
27DAP/17DAP	0.96655	0.887
39DAP/27DAP	1.03588	0.799
41DAP/39DAP	1.07184	0.88
42DAP/41DAP	0.98953	0.83
43DAP/42DAP	1.09878	0.554
47DAP/43DAP	0.94503	0.787
52DAP/47DAP	1.01312	0.951
57DAP/52DAP	0.77626	0.073
57DAP/7DAP	1.15967	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80247	0.104
17DAP/reference	0.95169	0.295
27DAP/reference	0.99526	0.698
39DAP/reference	0.76788	0.012
41DAP/reference	0.74935	0.017
42DAP/reference	0.61946	0.01
43DAP/reference	0.77705	0.028
47DAP/reference	0.69609	0.101
52DAP/reference	0.72637	0.026
57DAP/reference	0.74841	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16476	0.308
17DAP/reference	0.94668	0.378
27DAP/reference	0.9606	0.467
39DAP/reference	0.75558	0.064
41DAP/reference	0.78018	0.017
42DAP/reference	0.90828	0.089
43DAP/reference	1.64609	0.01
47DAP/reference	0.9323	0.214
52DAP/reference	0.89613	0.203
57DAP/reference	0.90712	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90173	0.268
17DAP/reference	0.9863	0.709
27DAP/reference	1.09627	0.392
39DAP/reference	0.90572	0.083
41DAP/reference	0.96313	0.417
42DAP/reference	0.91521	0.287
43DAP/reference	0.71222	0.017
47DAP/reference	0.91129	0.278
52DAP/reference	0.83002	0.084
57DAP/reference	0.85005	0.09

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24772	0.631
26DAP/20DAP	0.8875	0.512
34DAP/26DAP	1.25605	1
51DAP/34DAP	0.9486	0.747
52DAP/51DAP	0.94655	1
53DAP/52DAP	0.93304	0.854
55DAP/53DAP	1.0728	0.806
57DAP/55DAP	1.65585	0.525
62DAP/57DAP	1.0682	0.902
68DAP/62DAP	1.13357	0.664
68DAP/14DAP	1.08439

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9604	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.86471	0.66
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.78519
Mature Eggplant/Ripe Tomato	1.11213	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04236	1
1-1-2/M82	1.00747	1
12-2/M82	1.10665	1
12-4/M82	0.92855	1
1-3/M82	1.28248	0.479
2-1-1/M82	0.98582	1
2-1/M82	0.91131	0.74
2-6/M82	0.91843	1
3-2/M82	1.17163
4-1-1/M82	1.20194	1
4-1/M82	0.92127
4-3-2/M82	0.77908	0.698
4-3/M82	1.07218	1
5-3/M82	1.00504	1
6-2/M82	0.96122	1
6-3/M82	0.95558	1
7-1/M82	1.10363
7-2/M82	0.97397	1
9-3-2/M82	0.58321

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22305	0.365
IL2-6/WTpooled	0.86692	1
IL7-5/WTpooled	1.0401	1
IL7-3/WTpooled	1.03599	1
IL12-4/WTpooled	0.97302	1
IL1-4/WTpooled	1.13961	0.364
WT/WTpooled	1.00139	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	0.69276	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93182	0.536
DC3000/delta hrp 6h	1.0108	0.95
DC3000/delta hrp 12h	0.98871	1
DC3000/delta hrp 24h	0.77535	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.54576	0.036
DC3000 delta B/DC3000 delta AB	0.79515	0.038

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16544	1
Exp 36h	0.90363	0.82
Exp 60h	0.84452	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99975	1
Var 0h	1.64991	0.936
Var 12h I row2-row1	0.82795	0.338
Var 12h NI row2-row1	0.93708	0.713
Var 36h I row2-row1	0.95222	1
Var 36h NI row2-row1	1.03819	1
Var 60h I row2-row1	1.19858	0.562
Var 60h NI row2-row1	1.12331	0.904
Time course 0hI-0hNI	0.95209	0.687
Time course 12hI-12hNI	0.93116	0.33
Time course 36hI-36hNI	0.78093	0.043
Time course 60hI-60hNI	0.28964	0.005

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)	1.00096	1
transgenic ySAMdc/azygous control (breaker)	1.69909	0.161
transgenic ySAMdc/azygous control (red)	1.11583	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97165	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.29808	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.36987	0.14
Manapal/WT (break)	1.57439	0.123
Manapal/WT (red)	0.88666	0.36