Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2018	0.709
27DAP/17DAP	0.86616	0.686
39DAP/27DAP	1.04107	0.974
41DAP/39DAP	0.80068	0.208
42DAP/41DAP	1.11187	0.971
43DAP/42DAP	1.12234	0.968
47DAP/43DAP	0.95394	0.815
52DAP/47DAP	0.973	0.814
57DAP/52DAP	1.17569	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23993	0.029
17DAP/reference	1.16056	0.248
27DAP/reference	0.93907	0.304
39DAP/reference	1.25369	0.064
41DAP/reference	1.34307	0.014
42DAP/reference	1.0511	0.688
43DAP/reference	1.27475	0.031
47DAP/reference	1.10818	0.243
52DAP/reference	0.82147	0.195
57DAP/reference	0.95413	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23859	0.1
27DAP/17DAP	1.04576	0.909
39DAP/27DAP	0.97761	0.795
41DAP/39DAP	1.14505	0.656
42DAP/41DAP	1.11692	0.47
43DAP/42DAP	0.84645	0.033
47DAP/43DAP	0.96972	0.75
52DAP/47DAP	0.91548	0.6
57DAP/52DAP	0.88619	0.125
57DAP/7DAP	0.8236	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49357	0.029
17DAP/reference	1.40059	0.006
27DAP/reference	1.41061	0.008
39DAP/reference	1.40112	0.007
41DAP/reference	1.1989	0.077
42DAP/reference	1.01761	1
43DAP/reference	1.00051	0.665
47DAP/reference	1.15448	0.318
52DAP/reference	1.40368	0.092
57DAP/reference	1.45226	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00051	0.786
17DAP/reference	1.13186	0.21
27DAP/reference	1.09524	0.639
39DAP/reference	1.03099	0.745
41DAP/reference	1.13827	0.48
42DAP/reference	1.08601	0.664
43DAP/reference	0.86726	0.196
47DAP/reference	1.26014	0.009
52DAP/reference	0.90706	0.28
57DAP/reference	0.93593	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36764	0.02
17DAP/reference	1.13861	0.269
27DAP/reference	1.23529	0.02
39DAP/reference	1.18628	0.013
41DAP/reference	1.11078	0.062
42DAP/reference	1.08418	0.51
43DAP/reference	1.24235	0.139
47DAP/reference	1.14903	0.023
52DAP/reference	1.77416	0.062
57DAP/reference	0.96264	0.475

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12191	0.966
26DAP/20DAP	1.15885	0.385
34DAP/26DAP	0.95787	0.909
51DAP/34DAP	0.72304	0.059
52DAP/51DAP	0.93109	1
53DAP/52DAP	0.97602	0.882
55DAP/53DAP	0.72894	0.018
57DAP/55DAP	1.2181	0.643
62DAP/57DAP	1.04811	0.833
68DAP/62DAP	0.83945	0.177
68DAP/14DAP	0.81235	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30071	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89862	0.436
Mature Green Tomato/Ripe Tomato	5.06297	0.478
Immature Eggplant/Mature Eggplant	0.7483	0.063
Ripe Pepper/Ripe Tomato	1.14548	1
Mature Eggplant/Ripe Tomato	0.74891	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98252	0.944
1-1-2/M82	1.19331	1
12-2/M82	0.73603	0.678
12-4/M82	0.80108	0.619
1-3/M82	1.66798	0.26
2-1-1/M82	0.90174	0.92
2-1/M82	0.8732	0.322
2-6/M82	0.96772	1
3-2/M82	1.14457
4-1-1/M82	1.20399	0.998
4-1/M82	1.14833	1
4-3-2/M82	1.30582	0.262
4-3/M82	1.12932	0.268
5-3/M82	1.33596	0.36
6-2/M82	0.81887	1
6-3/M82	1.06551	1
7-1/M82	0.93437	0.803
7-2/M82	1.03437
9-3-2/M82	1.19758	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.27295	0.365
IL2-6/WTpooled	1.35384	0.659
IL7-5/WTpooled	1.12172	0.792
IL7-3/WTpooled	1.05794	1
IL12-4/WTpooled	1.10112	0.785
IL1-4/WTpooled	1.14004	1
WT/WTpooled	0.88828	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	1.14085	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08932	0.894
DC3000/delta hrp 6h	0.83585	0.95
DC3000/delta hrp 12h	0.93624	1
DC3000/delta hrp 24h	1.1625	0.397

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.39856	0.27
DC3000 delta B/DC3000 delta AB	1.26251	0.17

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12467	1
Exp 36h	1.22804	1
Exp 60h	1.26732	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00576	1
Var 0h	0.49304	1
Var 12h I row2-row1	0.89165	0.514
Var 12h NI row2-row1	1.10801	1
Var 36h I row2-row1	1.33101	0.368
Var 36h NI row2-row1	0.81682	0.522
Var 60h I row2-row1	0.88513	0.832
Var 60h NI row2-row1	0.81782	0.351
Time course 0hI-0hNI	0.91036	0.297
Time course 12hI-12hNI	1.10351	0.125
Time course 36hI-36hNI	1.39466	0.035
Time course 60hI-60hNI	1.96544	0.008

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)	0.92824	0.454
transgenic ySAMdc/azygous control (breaker)	1.06228	1
transgenic ySAMdc/azygous control (red)	1.2743	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13382	0.071

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77603	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81118	1
Manapal/WT (break)	1.0806	1
Manapal/WT (red)	1.39452	0.137