Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.5.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21741	0.67
27DAP/17DAP	0.966	0.945
39DAP/27DAP	0.95476	0.67
41DAP/39DAP	0.87436	0.501
42DAP/41DAP	0.82078	0.774
43DAP/42DAP	0.98403	0.925
47DAP/43DAP	1.11617	0.756
52DAP/47DAP	1.18213	0.718
57DAP/52DAP	0.89929	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9677	0.513
17DAP/reference	0.92682	0.419
27DAP/reference	1.08737	0.426
39DAP/reference	0.87133	0.292
41DAP/reference	0.87433	0.049
42DAP/reference	0.83541	0.041
43DAP/reference	0.90637	0.36
47DAP/reference	0.84849	0.027
52DAP/reference	0.97028	0.489
57DAP/reference	0.96118	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28198	0.158
27DAP/17DAP	1.09037	0.671
39DAP/27DAP	0.95489	0.712
41DAP/39DAP	1.02007	1
42DAP/41DAP	1.10162	0.539
43DAP/42DAP	0.76043	0.022
47DAP/43DAP	0.96996	0.857
52DAP/47DAP	1.03897	0.9
57DAP/52DAP	0.88766	0.346
57DAP/7DAP	1.08314	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18055	0.173
17DAP/reference	0.95255	0.447
27DAP/reference	1.06978	0.551
39DAP/reference	1.06697	0.486
41DAP/reference	0.8232	0.127
42DAP/reference	0.83332	0.13
43DAP/reference	0.91702	0.321
47DAP/reference	0.91909	0.383
52DAP/reference	1.36025	0.352
57DAP/reference	0.95299	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88942	0.115
17DAP/reference	0.95421	0.499
27DAP/reference	0.84559	0.123
39DAP/reference	0.79668	0.257
41DAP/reference	0.81199	0.133
42DAP/reference	0.99462	0.655
43DAP/reference	0.8554	0.212
47DAP/reference	0.9178	0.178
52DAP/reference	0.9002	0.22
57DAP/reference	1.11881	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07675	0.616
17DAP/reference	0.87792	0.322
27DAP/reference	0.81028	0.053
39DAP/reference	0.81368	0.133
41DAP/reference	0.89956	0.185
42DAP/reference	0.88227	0.287
43DAP/reference	1.1323	0.474
47DAP/reference	0.86541	0.286
52DAP/reference	1.27726	0.609
57DAP/reference	0.8936	0.122

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01056	1
26DAP/20DAP	1.44407	0.353
34DAP/26DAP	1.08588	1
51DAP/34DAP	0.89596	0.649
52DAP/51DAP	1.08541	0.842
53DAP/52DAP	1.20664	0.858
55DAP/53DAP	0.99115	0.894
57DAP/55DAP	1.31473	0.906
62DAP/57DAP	1.80477
68DAP/62DAP	2.11143
68DAP/14DAP	1.10113

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.88138	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.04451	0.044
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.03819
12-2/M82	N/A	N/A
12-4/M82	1.08322
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.9784
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	N/A	N/A
5-3/M82	0.98828	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.47361
7-2/M82	N/A	N/A
9-3-2/M82	1.44372

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99781	1
IL2-6/WTpooled	0.89012	1
IL7-5/WTpooled	0.84557
IL7-3/WTpooled	1.0908	1
IL12-4/WTpooled	0.92855	1
IL1-4/WTpooled	0.93662	0.699
WT/WTpooled	1.11396	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	0.87551	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98687	1
DC3000/delta hrp 6h	1.01208	1
DC3000/delta hrp 12h	0.94331	1
DC3000/delta hrp 24h	0.91115	0.371

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02344	1
Var 0h	1.14693	0.259
Var 12h I row2-row1	1.12437	0.654
Var 12h NI row2-row1	1.03889	1
Var 36h I row2-row1	1.10218	0.908
Var 36h NI row2-row1	1.21874	1
Var 60h I row2-row1	0.90441	0.306
Var 60h NI row2-row1	1.05861	0.904
Time course 0hI-0hNI	1.07288	0.719
Time course 12hI-12hNI	0.98195	0.897
Time course 36hI-36hNI	1.0433	0.651
Time course 60hI-60hNI	0.9897	1

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)	0.99205	0.862
transgenic ySAMdc/azygous control (breaker)	1.00536	1
transgenic ySAMdc/azygous control (red)	1.27512	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91402	0.143

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04678	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83076	1
Manapal/WT (break)	1.27795	0.14
Manapal/WT (red)	1.0904	0.413