Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.1.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.61826	0.403
27DAP/17DAP	0.72134	0.216
39DAP/27DAP	1.06352	0.749
41DAP/39DAP	1.0278	0.978
42DAP/41DAP	0.78901	0.397
43DAP/42DAP	0.87822	0.863
47DAP/43DAP	1.1313	0.825
52DAP/47DAP	0.87143	0.612
57DAP/52DAP	0.7866	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93858	0.39
17DAP/reference	0.95842	0.597
27DAP/reference	1.26263	0.052
39DAP/reference	1.0326	0.771
41DAP/reference	1.02809	0.963
42DAP/reference	1.02841	0.931
43DAP/reference	0.97965	0.745
47DAP/reference	0.94459	0.032
52DAP/reference	1.04497	0.134
57DAP/reference	1.16622	0.032

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6679	0.036
27DAP/17DAP	1.10388	0.817
39DAP/27DAP	0.85551	0.291
41DAP/39DAP	0.62359	0.027
42DAP/41DAP	1.26438	0.593
43DAP/42DAP	2.32149	0.014
47DAP/43DAP	1.0772	0.221
52DAP/47DAP	0.51683	0.041
57DAP/52DAP	0.84975	0.307
57DAP/7DAP	0.78519	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.006	1
17DAP/reference	1.24002	0.045
27DAP/reference	1.20857	0.018
39DAP/reference	1.23088	0.12
41DAP/reference	1.11796	0.153
42DAP/reference	0.99121	0.612
43DAP/reference	1.16318	0.14
47DAP/reference	1.2195	0.21
52DAP/reference	0.98399	0.571
57DAP/reference	0.98595	0.61

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04904	0.75
17DAP/reference	0.90042	0.113
27DAP/reference	1.00614	0.735
39DAP/reference	1.08444	0.316
41DAP/reference	0.96673	0.432
42DAP/reference	1.08203	0.17
43DAP/reference	0.98468	0.657
47DAP/reference	1.09061	0.639
52DAP/reference	1.10922	0.444
57DAP/reference	0.92067	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98913	0.653
17DAP/reference	1.1473	0.283
27DAP/reference	1.09469	0.408
39DAP/reference	1.21381	0.037
41DAP/reference	1.04994	0.754
42DAP/reference	1.1226	0.134
43DAP/reference	1.21017	0.194
47DAP/reference	0.97441	0.525
52DAP/reference	0.89405	0.204
57DAP/reference	1.10539	0.347

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32652	0.966
26DAP/20DAP	1.09852	0.818
34DAP/26DAP	0.66534	0.322
51DAP/34DAP	0.59807	0.143
52DAP/51DAP	1.10852	0.542
53DAP/52DAP	1.02741	1
55DAP/53DAP	1.08402	0.904
57DAP/55DAP	0.836	0.479
62DAP/57DAP	1.59585	N/A
68DAP/62DAP	1.56633	0.5
68DAP/14DAP	0.96109	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12007	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.56766	0.058
Mature Green Tomato/Ripe Tomato	4.56889	0.016
Immature Eggplant/Mature Eggplant	2.079	N/A
Ripe Pepper/Ripe Tomato	0.60433	N/A
Mature Eggplant/Ripe Tomato	0.37275	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.40349	N/A
1-1-2/M82	1.32924	0.977
12-2/M82	N/A	N/A
12-4/M82	0.8189	0.619
1-3/M82	0.69576	0.376
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.05604	1
3-2/M82	0.82286	N/A
4-1-1/M82	0.9083	N/A
4-1/M82	1.37627	N/A
4-3-2/M82	1.97345	N/A
4-3/M82	1.54062	N/A
5-3/M82	0.98195	1
6-2/M82	1.05474	1
6-3/M82	0.94436	N/A
7-1/M82	0.57081	N/A
7-2/M82	0.71912	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.54877	N/A
IL2-6/WTpooled	0.97011	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.7323	0.31
IL12-4/WTpooled	0.96013	1
IL1-4/WTpooled	0.89752	N/A
WT/WTpooled	1.09937	0.785

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	0.99259	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16798	0.538
DC3000/delta hrp 6h	0.90543	0.95
DC3000/delta hrp 12h	1.04962	1
DC3000/delta hrp 24h	0.80373	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.45907	0.094
DC3000 delta B/DC3000 delta AB	1.06127	0.503

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90027	1
Exp 36h	0.78353	0.504
Exp 60h	0.75881	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.01207	1
Var 12h I row2-row1	1.01746	1
Var 12h NI row2-row1	1.27261	0.649
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	1.52825	1
Var 60h I row2-row1	1.09228	1
Var 60h NI row2-row1	1.01065	1
Time course 0hI-0hNI	0.90549	0.327
Time course 12hI-12hNI	0.85285	0.26
Time course 36hI-36hNI	0.84619	0.183
Time course 60hI-60hNI	0.35866	0.006

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)	1.13606	0.431
transgenic ySAMdc/azygous control (breaker)	2.22965	0.178
transgenic ySAMdc/azygous control (red)	1.09346	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97495	0.237

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16521	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35267	0.307
Manapal/WT (break)	0.9693	1
Manapal/WT (red)	0.48032	0.181