Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00217	0.876
27DAP/17DAP	0.97892	1
39DAP/27DAP	0.9007	0.583
41DAP/39DAP	1.10157	0.569
42DAP/41DAP	1.51288	0.256
43DAP/42DAP	1.19197	0.768
47DAP/43DAP	0.77128	0.334
52DAP/47DAP	0.6757	0.405
57DAP/52DAP	1.53306	0.883

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9528	0.442
17DAP/reference	1.10424	0.148
27DAP/reference	0.95806	0.484
39DAP/reference	0.9083	0.475
41DAP/reference	1.10939	0.287
42DAP/reference	0.94966	0.095
43DAP/reference	1.03403	0.547
47DAP/reference	0.88504	0.015
52DAP/reference	0.76615	0.053
57DAP/reference	0.79178	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80409	0.238
27DAP/17DAP	0.88147	0.418
39DAP/27DAP	1.1068	0.824
41DAP/39DAP	0.90844	0.781
42DAP/41DAP	1.03912	0.87
43DAP/42DAP	1.09029	1
47DAP/43DAP	1.00261	0.977
52DAP/47DAP	0.96685	0.899
57DAP/52DAP	1.16456	0.638
57DAP/7DAP	0.71507	0.159

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03975	1
17DAP/reference	1.1279	0.896
27DAP/reference	0.66525	0.01
39DAP/reference	1.29409	0.371
41DAP/reference	1.36795	0.038
42DAP/reference	1.38211	0.132
43DAP/reference	1.15231	0.167
47DAP/reference	1.0783	0.647
52DAP/reference	1.50089	0.024
57DAP/reference	1.56345	0.198

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9338	0.412
17DAP/reference	0.9461	0.434
27DAP/reference	0.80046	0.084
39DAP/reference	0.77189	0.039
41DAP/reference	0.76538	0.039
42DAP/reference	0.77317	0.035
43DAP/reference	0.97421	0.539
47DAP/reference	0.8638	0.011
52DAP/reference	0.98432	0.407
57DAP/reference	1.18522	0.14

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17058	0.963
17DAP/reference	0.84827	0.292
27DAP/reference	1.12807	0.298
39DAP/reference	2.06705	0.163
41DAP/reference	1.19553	0.306
42DAP/reference	0.73634	0.22
43DAP/reference	1.06712	0.614
47DAP/reference	1.0046	0.687
52DAP/reference	1.17331	0.393
57DAP/reference	0.54	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96541	1
26DAP/20DAP	0.89807	1
34DAP/26DAP	1.33582	0.542
51DAP/34DAP	1.03124	0.924
52DAP/51DAP	1.06469	0.77
53DAP/52DAP	0.97664	0.848
55DAP/53DAP	1.23365	0.218
57DAP/55DAP	1.10347	0.947
62DAP/57DAP	1.06823	0.767
68DAP/62DAP	1.00062	0.885
68DAP/14DAP	1.067	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86754	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.60039
Mature Green Tomato/Ripe Tomato	0.62292	0.042
Immature Eggplant/Mature Eggplant	0.94577	1
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	0.83969	0.736
1-1-2/M82	1.05289	1
12-2/M82	1.03282	1
12-4/M82	1.06004	1
1-3/M82	0.82571	0.378
2-1-1/M82	1.13882
2-1/M82	N/A	N/A
2-6/M82	1.10589	1
3-2/M82	0.93851
4-1-1/M82	1.155	1
4-1/M82	1.5923	0.853
4-3-2/M82	1.41539	0.508
4-3/M82	0.80087	1
5-3/M82	1.0032	1
6-2/M82	0.93284	0.481
6-3/M82	1.19531	1
7-1/M82	1.0873	1
7-2/M82	1.0923	0.385
9-3-2/M82	3.50384	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
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	N/A	N/A
WT/WTpooled	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0311	1
DC3000/delta hrp 6h	0.70219	0.637
DC3000/delta hrp 12h	1.49115	1
DC3000/delta hrp 24h	1.22287	0.085

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	1.33042	0.228
Exp 36h	1.4672	0.693
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	0.8983	1
Var 0h	0.91192	1
Var 12h I row2-row1	1.09685	0.544
Var 12h NI row2-row1	0.79073	0.494
Var 36h I row2-row1	0.79818	0.805
Var 36h NI row2-row1	1.04714	1
Var 60h I row2-row1	1.19632
Var 60h NI row2-row1	1.12445	1
Time course 0hI-0hNI	1.05221	0.867
Time course 12hI-12hNI	1.14796	0.774
Time course 36hI-36hNI	0.98377	0.654
Time course 60hI-60hNI	1.26914	0.216

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)	0.91075	0.662
transgenic ySAMdc/azygous control (breaker)	0.71777	0.15
transgenic ySAMdc/azygous control (red)	1.06536	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00316	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99879	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.92297	1
Manapal/WT (red)	1.34543	0.413