Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22431	0.681
27DAP/17DAP	0.75602	0.398
39DAP/27DAP	1.37445	0.658
41DAP/39DAP	1.16643	0.701
42DAP/41DAP	1.18065	0.876
43DAP/42DAP	1.55895	0.234
47DAP/43DAP	1.31147	0.668
52DAP/47DAP	1.0664	0.913
57DAP/52DAP	1.11091	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76344	0.04
17DAP/reference	0.77627	0.016
27DAP/reference	0.72468	0.013
39DAP/reference	0.66718	0.017
41DAP/reference	0.66222	0.014
42DAP/reference	0.63604	0.001
43DAP/reference	0.68846	0.02
47DAP/reference	0.58959	0.001
52DAP/reference	0.49362	0.012
57DAP/reference	0.62189	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.79526	0.036
27DAP/17DAP	0.71722	0.187
39DAP/27DAP	0.40993	0.029
41DAP/39DAP	1.43443	0.077
42DAP/41DAP	0.68459	0.037
43DAP/42DAP	0.60726	0.026
47DAP/43DAP	1.03375	0.99
52DAP/47DAP	1.01473	0.979
57DAP/52DAP	0.95138	0.685
57DAP/7DAP	0.50307	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84961	0.115
17DAP/reference	0.86345	0.447
27DAP/reference	0.98066	0.53
39DAP/reference	0.98868	0.64
41DAP/reference	1.05878	0.848
42DAP/reference	0.90838	0.262
43DAP/reference	0.91344	0.121
47DAP/reference	0.6193	0.066
52DAP/reference	0.91273	0.213
57DAP/reference	1.27856	0.331

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69631	0.011
17DAP/reference	0.60755	0.004
27DAP/reference	0.65141	0.01
39DAP/reference	0.47723	0.008
41DAP/reference	0.62705	0.008
42DAP/reference	0.53287	0.011
43DAP/reference	0.80917	0.117
47DAP/reference	0.56358	0.009
52DAP/reference	0.53935	0.005
57DAP/reference	0.49042	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3593	0.093
17DAP/reference	1.27604	0.111
27DAP/reference	1.14148	0.552
39DAP/reference	0.76109	0.022
41DAP/reference	1.18359	0.692
42DAP/reference	0.80463	0.361
43DAP/reference	0.46289	0.022
47DAP/reference	0.49828	0.004
52DAP/reference	0.65709	0.148
57DAP/reference	0.66119	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17859	0.966
26DAP/20DAP	0.83136	0.512
34DAP/26DAP	0.88062	0.539
51DAP/34DAP	0.4971	0.059
52DAP/51DAP	1.8472	0.126
53DAP/52DAP	0.87967	0.365
55DAP/53DAP	0.81222	0.363
57DAP/55DAP	1.51544	0.474
62DAP/57DAP	1.03437	0.935
68DAP/62DAP	0.83849	0.505
68DAP/14DAP	0.61615	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.4183	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	5.1301	0.058
Mature Green Tomato/Ripe Tomato	3.53603	0.015
Immature Eggplant/Mature Eggplant	0.43729	0.063
Ripe Pepper/Ripe Tomato	30
Mature Eggplant/Ripe Tomato	116.884	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94475	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.89464	0.834
WT/WTpooled	1.09883

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	1.40159	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98751	1
DC3000/delta hrp 6h	0.96667	0.95
DC3000/delta hrp 12h	1.10619	1
DC3000/delta hrp 24h	0.71306	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.7531	0.023
DC3000 delta B/DC3000 delta AB	0.42512	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9785	1
Exp 36h	1.01793	1
Exp 60h	0.83221	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95686	1
Var 0h	4.02863	0.98
Var 12h I row2-row1	0.83679	0.418
Var 12h NI row2-row1	1.04186	1
Var 36h I row2-row1	0.95456	1
Var 36h NI row2-row1	1.04007	1
Var 60h I row2-row1	1.35248	0.562
Var 60h NI row2-row1	1.06486	1
Time course 0hI-0hNI	0.98326	0.955
Time course 12hI-12hNI	1.00207	1
Time course 36hI-36hNI	1.01537	0.975
Time course 60hI-60hNI	0.23866	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)	1.10769	0.748
transgenic ySAMdc/azygous control (breaker)	3.1191	0.162
transgenic ySAMdc/azygous control (red)	1.19906	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.56092	0.074

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.37453	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	16.0332	0.083
Manapal/WT (break)	6.73006	0.123
Manapal/WT (red)	1.39512	1