Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.4.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18188	0.77
27DAP/17DAP	0.58811	0.09
39DAP/27DAP	0.95699	0.67
41DAP/39DAP	0.74075	0.191
42DAP/41DAP	1.81102	0.619
43DAP/42DAP	1.12891	1
47DAP/43DAP	0.56199	0.08
52DAP/47DAP	0.9932	0.668
57DAP/52DAP	1.3697	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66159	0.027
17DAP/reference	0.42034	0.007
27DAP/reference	0.39731	0.012
39DAP/reference	0.48834	0.016
41DAP/reference	0.23108	0.008
42DAP/reference	0.49602	0.001
43DAP/reference	0.3745
47DAP/reference	0.54253	0.008
52DAP/reference	0.25672	0.01
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.66718	0.049
27DAP/17DAP	0.94133	0.821
39DAP/27DAP	0.50328	0.035
41DAP/39DAP	1.26609	0.682
42DAP/41DAP	0.94655	0.61
43DAP/42DAP	1.09935	0.585
47DAP/43DAP	0.96235	0.815
52DAP/47DAP	1.17404	0.563
57DAP/52DAP	0.92667	0.626
57DAP/7DAP	0.54818	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01508	1
17DAP/reference	1.04105	0.244
27DAP/reference	1.04533	0.371
39DAP/reference	1.30369	0.056
41DAP/reference	1.10081	0.977
42DAP/reference	1.32686	0.024
43DAP/reference	1.01766	1
47DAP/reference	0.68606	0.128
52DAP/reference	1.02108	1
57DAP/reference	1.01992	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50293	0.014
17DAP/reference	0.43061	0.012
27DAP/reference	0.56748	0.017
39DAP/reference	0.43486	0.01
41DAP/reference	0.53401	0.01
42DAP/reference	0.58964	0.014
43DAP/reference	0.52516	0.016
47DAP/reference	0.51013	0.014
52DAP/reference	0.27366	0.003
57DAP/reference	0.19874	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27235	0.019
17DAP/reference	1.39079	0.091
27DAP/reference	1.31057	0.026
39DAP/reference	0.96007	0.43
41DAP/reference	1.10778	0.156
42DAP/reference	1.07277	0.701
43DAP/reference	0.92152	0.384
47DAP/reference	0.49624	0.005
52DAP/reference	0.84703	0.327
57DAP/reference	1.32618	0.184

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90148	1
26DAP/20DAP	1.40786	0.24
34DAP/26DAP	1.07001	1
51DAP/34DAP	2.43923	0.022
52DAP/51DAP	0.99095	1
53DAP/52DAP	1.21326	0.24
55DAP/53DAP	0.82556	0.218
57DAP/55DAP	0.99348	0.812
62DAP/57DAP	0.33711	0.005
68DAP/62DAP	1.55177	0.031
68DAP/14DAP	1.67346	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66954	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84989	0.318
Mature Green Tomato/Ripe Tomato	1.35807	0.07
Immature Eggplant/Mature Eggplant	1.11171	0.311
Ripe Pepper/Ripe Tomato	2.04988	0.258
Mature Eggplant/Ripe Tomato	1.48371	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10333	0.574
1-1-2/M82	2.47311	1
12-2/M82	0.67566
12-4/M82	1.0774	1
1-3/M82	2.4069	0.479
2-1-1/M82	0.98848
2-1/M82	N/A	N/A
2-6/M82	1.11161	0.695
3-2/M82	2.41467
4-1-1/M82	1.74655	0.968
4-1/M82	1.06023
4-3-2/M82	1.7739
4-3/M82	2.34171	0.268
5-3/M82	0.75993	0.642
6-2/M82	N/A	N/A
6-3/M82	0.46842	0.857
7-1/M82	0.97106	1
7-2/M82	1.38033	0.324
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.6158
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.79489
IL12-4/WTpooled	0.84704	0.71
IL1-4/WTpooled	1.37739	0.395
WT/WTpooled	0.97149	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	1.03575	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91196	1
DC3000/delta hrp 6h	0.89366	0.95
DC3000/delta hrp 12h	1.26661	1
DC3000/delta hrp 24h	0.97361	0.831

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.51952	0.026
DC3000 delta B/DC3000 delta AB	0.3896	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90827	1
Exp 36h	0.82407	0.434
Exp 60h	0.77478	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02499	1
Var 0h	1.10462	0.98
Var 12h I row2-row1	1.07579	0.443
Var 12h NI row2-row1	0.93633	0.82
Var 36h I row2-row1	1.04623	0.908
Var 36h NI row2-row1	1.12348	0.482
Var 60h I row2-row1	0.96538	0.439
Var 60h NI row2-row1	0.96392	1
Time course 0hI-0hNI	1.07123	0.764
Time course 12hI-12hNI	1.10363	0.347
Time course 36hI-36hNI	3.39823	0.004
Time course 60hI-60hNI	2.63188	0.012

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)	1.05818	0.748
transgenic ySAMdc/azygous control (breaker)	1.44532	0.248
transgenic ySAMdc/azygous control (red)	1.06358	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.62419	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.69798	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.32228	0.093
Manapal/WT (break)	1.55624	0.183
Manapal/WT (red)	2.81357	0.222