Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.16.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12446	0.739
27DAP/17DAP	0.89639	0.766
39DAP/27DAP	0.83472	0.392
41DAP/39DAP	0.92904	0.73
42DAP/41DAP	1.08872	0.962
43DAP/42DAP	0.97921	0.925
47DAP/43DAP	1.12642	0.715
52DAP/47DAP	1.04364	0.845
57DAP/52DAP	1.34357	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29397	0.045
17DAP/reference	1.192	0.083
27DAP/reference	1.16113	0.111
39DAP/reference	1.30287	0.072
41DAP/reference	1.26955	0.043
42DAP/reference	1.34013	0.001
43DAP/reference	1.05238	0.899
47DAP/reference	1.23921	0.001
52DAP/reference	1.30976	0.036
57DAP/reference	1.08145	0.6

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8928	0.164
27DAP/17DAP	1.12717	0.69
39DAP/27DAP	0.93894	0.482
41DAP/39DAP	1.19969	0.232
42DAP/41DAP	0.94458	0.535
43DAP/42DAP	0.96049	0.641
47DAP/43DAP	1.11392	0.188
52DAP/47DAP	0.95239	0.839
57DAP/52DAP	0.85668	0.25
57DAP/7DAP	1.04895	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20814	0.241
17DAP/reference	1.43659	0.02
27DAP/reference	1.73968	0.008
39DAP/reference	1.22417	0.314
41DAP/reference	1.51509	0.015
42DAP/reference	1.36686	0.018
43DAP/reference	1.39309	0.029
47DAP/reference	1.30101	0.112
52DAP/reference	1.69353	0.009
57DAP/reference	1.20861	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16849	0.449
17DAP/reference	1.46597	0.008
27DAP/reference	1.35497	0.022
39DAP/reference	1.33645	0.013
41DAP/reference	1.41418	0.008
42DAP/reference	1.27862	0.013
43DAP/reference	1.20993	0.297
47DAP/reference	1.26031	0.015
52DAP/reference	1.30714	0.007
57DAP/reference	1.45277	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18811	0.049
17DAP/reference	1.22429	0.258
27DAP/reference	1.25548	0.171
39DAP/reference	1.21218	0.022
41DAP/reference	1.30029	0.041
42DAP/reference	1.54685	0.032
43DAP/reference	1.71903	0.007
47DAP/reference	1.1473	0.187
52DAP/reference	1.60422	0.05
57DAP/reference	1.35921	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40576	1
26DAP/20DAP	0.86772	0.317
34DAP/26DAP	0.90565	0.741
51DAP/34DAP	1.07533	0.692
52DAP/51DAP	1.14806	0.358
53DAP/52DAP	0.93926	0.475
55DAP/53DAP	1.29598	0.17
57DAP/55DAP	1.01964	0.986
62DAP/57DAP	0.97538	0.994
68DAP/62DAP	0.8134	0.505
68DAP/14DAP	0.56665	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11598	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.5946	0.155
Mature Green Tomato/Ripe Tomato	1.45274	0.478
Immature Eggplant/Mature Eggplant	1.60639	0.05
Ripe Pepper/Ripe Tomato	0.97672	1
Mature Eggplant/Ripe Tomato	0.37275

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	N/A	N/A
IL2-6/WTpooled	0.92394	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08023	0.362
IL12-4/WTpooled	0.89975	0.71
IL1-4/WTpooled	1.02291
WT/WTpooled	0.96863	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	1.08545	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.12683	1
DC3000/delta hrp 12h	1.19718	1
DC3000/delta hrp 24h	2.40047

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18596	0.087
DC3000 delta B/DC3000 delta AB	0.99933	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06572	1
Exp 36h	0.95449	0.943
Exp 60h	0.94643	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96538	1
Var 0h	0.83711	0.933
Var 12h I row2-row1	0.92042	0.418
Var 12h NI row2-row1	0.91322	0.546
Var 36h I row2-row1	1.06912	0.742
Var 36h NI row2-row1	0.97149	0.791
Var 60h I row2-row1	0.99376	1
Var 60h NI row2-row1	0.94404	0.63
Time course 0hI-0hNI	1.02999	0.63
Time course 12hI-12hNI	0.95373	0.424
Time course 36hI-36hNI	1.15193	0.063
Time course 60hI-60hNI	1.11882	0.137

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)	0.89535	0.306
transgenic ySAMdc/azygous control (breaker)	0.92132	0.49
transgenic ySAMdc/azygous control (red)	0.99246	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97507	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13041	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35104	0.088
Manapal/WT (break)	1.47211	0.183
Manapal/WT (red)	1.33988	0.413