Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37135	0.575
27DAP/17DAP	0.96058	0.957
39DAP/27DAP	0.7971	0.512
41DAP/39DAP	0.99953	0.769
42DAP/41DAP	1.18343	0.841
43DAP/42DAP	1.2347	0.712
47DAP/43DAP	0.90198	0.66
52DAP/47DAP	0.89958	0.716
57DAP/52DAP	1.01526	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84859	0.238
17DAP/reference	1.25644	0.546
27DAP/reference	3.20342	0.007
39DAP/reference	1.88972	0.013
41DAP/reference	1.23312	0.365
42DAP/reference	1.03409	0.523
43DAP/reference	0.90692	0.377
47DAP/reference	0.9635	0.345
52DAP/reference	0.77183	0.089
57DAP/reference	0.96412	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98883	0.763
27DAP/17DAP	1.19121	0.546
39DAP/27DAP	0.79361	0.198
41DAP/39DAP	1.12445	0.88
42DAP/41DAP	1.69328	0.773
43DAP/42DAP	1.02743	1
47DAP/43DAP	1.08445	0.973
52DAP/47DAP	0.88394	0.77
57DAP/52DAP	1.2118	0.407
57DAP/7DAP	2.37861

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82162	0.074
17DAP/reference	1.06652	0.399
27DAP/reference	1.14233	0.197
39DAP/reference	1.0567	1
41DAP/reference	0.84381	0.107
42DAP/reference	1.16153	0.534
43DAP/reference	0.92258	0.21
47DAP/reference	1.01957	1
52DAP/reference	0.88515	0.106
57DAP/reference	1.23881	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8944	0.286
17DAP/reference	0.95813	0.523
27DAP/reference	0.90964	0.188
39DAP/reference	0.9759	0.442
41DAP/reference	0.72977	0.009
42DAP/reference	0.82083	0.067
43DAP/reference	0.71728	0.022
47DAP/reference	0.88714	0.173
52DAP/reference	0.77786	0.021
57DAP/reference	0.86307	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73873	0.055
17DAP/reference	0.81903	0.118
27DAP/reference	1.03001	1
39DAP/reference	1.57027	0.012
41DAP/reference	1.59053	0.007
42DAP/reference	1.06541	0.836
43DAP/reference	0.909	0.267
47DAP/reference	0.56058	0.005
52DAP/reference	1.29841	0.747
57DAP/reference	1.20346	0.109

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06757	0.966
26DAP/20DAP	1.19618	0.512
34DAP/26DAP	1.28826	1
51DAP/34DAP	1.47362	0.04
52DAP/51DAP	0.98763	1
53DAP/52DAP	0.98334	0.917
55DAP/53DAP	0.98715	0.864
57DAP/55DAP	0.90328	0.587
62DAP/57DAP	1.22569	0.034
68DAP/62DAP	0.82871	0.543
68DAP/14DAP	0.75439	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.63543	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.32496	0.058
Mature Green Tomato/Ripe Tomato	0.7859	0.256
Immature Eggplant/Mature Eggplant	1.19526	0.11
Ripe Pepper/Ripe Tomato	2.22377	1
Mature Eggplant/Ripe Tomato	1.89969	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.75817	0.503
1-1-2/M82	1.16821	0.972
12-2/M82	1.50501	1
12-4/M82	0.52749	0.358
1-3/M82	1.42437
2-1-1/M82	0.96832	1
2-1/M82	0.59873
2-6/M82	1.10478	0.452
3-2/M82	1.24866
4-1-1/M82	1.77372	0.968
4-1/M82	0.6754
4-3-2/M82	1.48207
4-3/M82	2.63263	0.268
5-3/M82	0.79268	0.364
6-2/M82	0.71463
6-3/M82	0.81031
7-1/M82	1.02587
7-2/M82	1.93766	0.291
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09728	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.08568
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	2.20538
IL1-4/WTpooled	0.88325
WT/WTpooled	0.97035

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	0.97499	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12728	0.846
DC3000/delta hrp 6h	1.02279	0.95
DC3000/delta hrp 12h	1.82428	1
DC3000/delta hrp 24h	0.7262	0.04

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94329
DC3000 delta B/DC3000 delta AB	0.91183	0.307

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.64327	0.456
Exp 60h	0.49419	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99124	1
Var 0h	0.90973	1
Var 12h I row2-row1	0.75707	0.363
Var 12h NI row2-row1	1.04493	1
Var 36h I row2-row1	0.92714	1
Var 36h NI row2-row1	1.01159	1
Var 60h I row2-row1	0.96652	0.952
Var 60h NI row2-row1	1.08117	0.904
Time course 0hI-0hNI	0.99108	1
Time course 12hI-12hNI	0.94075	0.285
Time course 36hI-36hNI	0.96987	0.476
Time course 60hI-60hNI	0.67069	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)	0.95251	0.567
transgenic ySAMdc/azygous control (breaker)	0.90393	0.49
transgenic ySAMdc/azygous control (red)	0.93724	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.44339	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.24141	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.47799	0.172
Manapal/WT (break)	0.60579	0.299
Manapal/WT (red)	0.8554	0.503