Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.8.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07855	0.932
27DAP/17DAP	0.93221	0.801
39DAP/27DAP	0.84198	0.549
41DAP/39DAP	1.38204	0.54
42DAP/41DAP	1.26855	0.519
43DAP/42DAP	0.78828	0.613
47DAP/43DAP	0.98214	0.773
52DAP/47DAP	1.3713	0.405
57DAP/52DAP	0.84067	0.729

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92408	0.336
17DAP/reference	0.95779	0.503
27DAP/reference	0.97719	0.623
39DAP/reference	0.94857	0.36
41DAP/reference	1.07278	0.145
42DAP/reference	0.8949	0.029
43DAP/reference	1.01941	0.787
47DAP/reference	0.84519	0.009
52DAP/reference	0.76914	0.033
57DAP/reference	0.84372	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01337	1
27DAP/17DAP	0.91674	0.537
39DAP/27DAP	1.015	0.874
41DAP/39DAP	1.05948	0.914
42DAP/41DAP	1.07084	0.81
43DAP/42DAP	1.03311	0.664
47DAP/43DAP	1.03953	0.857
52DAP/47DAP	0.99246	0.962
57DAP/52DAP	1.0572	0.688
57DAP/7DAP	1.39422	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91516	0.146
17DAP/reference	0.89991	0.011
27DAP/reference	0.90913	0.014
39DAP/reference	0.91207	0.011
41DAP/reference	0.86739	0.027
42DAP/reference	0.90666	0.222
43DAP/reference	0.91803	0.082
47DAP/reference	0.90439	0.222
52DAP/reference	0.80725	0.04
57DAP/reference	0.87205	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98714	0.811
17DAP/reference	0.91868	0.153
27DAP/reference	0.86498	0.134
39DAP/reference	0.90868	0.257
41DAP/reference	0.7984	0.083
42DAP/reference	0.8492	0.15
43DAP/reference	1.04186	0.662
47DAP/reference	0.98136	0.527
52DAP/reference	0.92844	0.239
57DAP/reference	1.07252	0.494

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89076	0.049
17DAP/reference	1.02805	0.988
27DAP/reference	0.87952	0.065
39DAP/reference	0.85623	0.009
41DAP/reference	0.9316	0.064
42DAP/reference	0.85699	0.059
43DAP/reference	0.79596	0.088
47DAP/reference	0.93185	0.348
52DAP/reference	0.9054	0.256
57DAP/reference	0.65751	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85807	0.89
26DAP/20DAP	1.02983	1
34DAP/26DAP	1.22332	0.819
51DAP/34DAP	1.3021	0.154
52DAP/51DAP	1.02819	0.792
53DAP/52DAP	0.93018	0.621
55DAP/53DAP	0.94944	0.675
57DAP/55DAP	1.07246	0.935
62DAP/57DAP	1.10618	0.833
68DAP/62DAP	1.20231	0.729
68DAP/14DAP	0.7544	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59948	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.14965	0.417
Mature Green Tomato/Ripe Tomato	0.94697	0.569
Immature Eggplant/Mature Eggplant	1.02976	0.683
Ripe Pepper/Ripe Tomato	0.98768	1
Mature Eggplant/Ripe Tomato	1.83852	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91341	0.673
1-1-2/M82	0.96252	1
12-2/M82	1.04348	1
12-4/M82	1.1055	1
1-3/M82	0.8984	0.501
2-1-1/M82	1.051	1
2-1/M82	0.86138	0.74
2-6/M82	1.13174	0.695
3-2/M82	0.97096	0.752
4-1-1/M82	0.94853	1
4-1/M82	0.9707	1
4-3-2/M82	0.94384	1
4-3/M82	1.03807	1
5-3/M82	1.02729	1
6-2/M82	1.05699	1
6-3/M82	0.97757	1
7-1/M82	1.05236	0.598
7-2/M82	1.06697	1
9-3-2/M82	0.9007	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93249	0.243
IL2-6/WTpooled	0.95042	0.473
IL7-5/WTpooled	1.32478	0.792
IL7-3/WTpooled	1.01111	1
IL12-4/WTpooled	0.97723	1
IL1-4/WTpooled	0.97431	0.834
WT/WTpooled	0.95453	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	1.00237	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01278	0.921
DC3000/delta hrp 6h	0.99603	0.95
DC3000/delta hrp 12h	1.12191	1
DC3000/delta hrp 24h	1.07167	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02012	1
DC3000 delta B/DC3000 delta AB	1.1922	0.269

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91513	1
Exp 36h	1.45997	0.693
Exp 60h	1.16873	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0242	1
Var 0h	9.57372	0.782
Var 12h I row2-row1	0.98871	1
Var 12h NI row2-row1	0.96934	0.906
Var 36h I row2-row1	1.00235	1
Var 36h NI row2-row1	0.92755	0.549
Var 60h I row2-row1	1.7613	1
Var 60h NI row2-row1	1.00361	1
Time course 0hI-0hNI	1.03367	0.662
Time course 12hI-12hNI	0.972	0.739
Time course 36hI-36hNI	1.06554	0.58
Time course 60hI-60hNI	1.12467	0.037

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)	1.14422	0.292
transgenic ySAMdc/azygous control (breaker)	0.69243	0.15
transgenic ySAMdc/azygous control (red)	0.90694	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06984	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75494	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79066	1
Manapal/WT (break)	0.84503	0.333
Manapal/WT (red)	0.73776	0.181