Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.13.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.58837	0.087
27DAP/17DAP	0.62496	0.149
39DAP/27DAP	1.02702	1
41DAP/39DAP	1.15105	0.597
42DAP/41DAP	0.74639	0.397
43DAP/42DAP	0.52463	0.554
47DAP/43DAP	1.17823	0.825
52DAP/47DAP	1.3386	0.718
57DAP/52DAP	0.84355	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.12623	0.008
17DAP/reference	1.274	0.045
27DAP/reference	1.05474	0.684
39DAP/reference	1.05389	0.628
41DAP/reference	1.14893	0.085
42DAP/reference	0.90394	0.023
43DAP/reference	0.94458	0.377
47DAP/reference	0.81677	0.003
52DAP/reference	0.78502	0.014
57DAP/reference	0.84063	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.39092	0.026
27DAP/17DAP	1.1667	0.557
39DAP/27DAP	0.90383	0.45
41DAP/39DAP	0.92513	0.839
42DAP/41DAP	0.87345	0.147
43DAP/42DAP	1.14745	0.585
47DAP/43DAP	1.13392	0.765
52DAP/47DAP	1.08758	0.73
57DAP/52DAP	0.96198	0.528
57DAP/7DAP	0.62546	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86829	0.224
17DAP/reference	0.78513	0.011
27DAP/reference	0.83206	0.109
39DAP/reference	0.84547	0.018
41DAP/reference	0.82005	0.044
42DAP/reference	0.75133	0.014
43DAP/reference	0.67887	0.011
47DAP/reference	0.8308	0.168
52DAP/reference	0.72278	0.02
57DAP/reference	0.79347	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.73313	0.029
17DAP/reference	1.31973	0.022
27DAP/reference	1.18728	0.292
39DAP/reference	1.04358	0.848
41DAP/reference	1.16538	0.149
42DAP/reference	1.20406	0.094
43DAP/reference	1.06275	0.681
47DAP/reference	1.06295	0.274
52DAP/reference	0.93353	0.28
57DAP/reference	1.2051	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83803	0.127
17DAP/reference	1.02312	0.966
27DAP/reference	0.89272	0.206
39DAP/reference	0.7901	0.014
41DAP/reference	0.88561	0.05
42DAP/reference	0.75728	0.025
43DAP/reference	0.8478	0.038
47DAP/reference	0.75715	0.008
52DAP/reference	0.74609	0.103
57DAP/reference	0.67377	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.42444	0.966
26DAP/20DAP	0.91596	1
34DAP/26DAP	0.76457	0.462
51DAP/34DAP	1.19449	0.785
52DAP/51DAP	1.06097	0.848
53DAP/52DAP	0.94444	0.776
55DAP/53DAP	1.07328	0.733
57DAP/55DAP	0.90428	0.587
62DAP/57DAP	1.25038	0.393
68DAP/62DAP	0.84886	0.429
68DAP/14DAP	0.56819

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.26904	0.055

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.08193
Immature Eggplant/Mature Eggplant	1.22882	0.074
Ripe Pepper/Ripe Tomato	0.52824
Mature Eggplant/Ripe Tomato	1.18949	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95142	0.944
1-1-2/M82	1.00154	1
12-2/M82	1.15587	0.61
12-4/M82	0.96156	0.358
1-3/M82	0.94561	1
2-1-1/M82	0.90958	0.92
2-1/M82	0.94435	1
2-6/M82	1.05526	0.695
3-2/M82	0.9489
4-1-1/M82	0.87755	0.985
4-1/M82	1.18724
4-3-2/M82	0.28536
4-3/M82	0.91983	1
5-3/M82	1.10907	1
6-2/M82	0.89214	0.497
6-3/M82	0.9788	1
7-1/M82	1.01063	1
7-2/M82	1.11097	0.324
9-3-2/M82	0.57489

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95734
IL2-6/WTpooled	1.03814
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.08531	1
IL1-4/WTpooled	0.96858	0.389
WT/WTpooled	0.98712	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	1.76207	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0604	0.823
DC3000/delta hrp 6h	0.9901	0.95
DC3000/delta hrp 12h	0.94143	1
DC3000/delta hrp 24h	1.28194	0.054

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.3321	0.047
DC3000 delta B/DC3000 delta AB	1.17885	0.24

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.60051	0.449
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	N/A	N/A
Var 0h	1.06232	0.782
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.99238	0.862
transgenic ySAMdc/azygous control (breaker)	1.40966	1
transgenic ySAMdc/azygous control (red)	1.6565	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.29336	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.61778	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.5462	1
Manapal/WT (break)	0.96512	1
Manapal/WT (red)	0.66849	0.181