Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.8174	0.094
27DAP/17DAP	1.08221	0.864
39DAP/27DAP	1.11444	0.981
41DAP/39DAP	1.02133	0.964
42DAP/41DAP	0.91592	0.774
43DAP/42DAP	0.91484	0.705
47DAP/43DAP	1.37338	0.208
52DAP/47DAP	0.91745	0.702
57DAP/52DAP	1.174	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89853	0.162
17DAP/reference	0.9633	0.448
27DAP/reference	0.985	0.741
39DAP/reference	1.09429	0.04
41DAP/reference	0.97349	0.667
42DAP/reference	0.9075	0.013
43DAP/reference	1.05486	0.495
47DAP/reference	1.06648	0.046
52DAP/reference	0.98639	0.598
57DAP/reference	0.89034	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90787	0.509
27DAP/17DAP	0.97655	0.878
39DAP/27DAP	1.0728	0.519
41DAP/39DAP	0.65985	0.013
42DAP/41DAP	1.27267	0.072
43DAP/42DAP	1.18461	0.03
47DAP/43DAP	1.06666	0.396
52DAP/47DAP	0.80302	0.112
57DAP/52DAP	0.70505	0.043
57DAP/7DAP	0.90994	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49152	0.036
17DAP/reference	1.96168	0.007
27DAP/reference	1.58429	0.009
39DAP/reference	2.07178	0.005
41DAP/reference	1.82507	0.011
42DAP/reference	1.80904	0.009
43DAP/reference	2.44785	0.007
47DAP/reference	1.76114	0.106
52DAP/reference	1.9658	0.007
57DAP/reference	1.95144	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12482	0.384
17DAP/reference	0.91699	0.116
27DAP/reference	0.80019	0.304
39DAP/reference	0.81345	0.055
41DAP/reference	0.75651	0.044
42DAP/reference	0.91094	0.237
43DAP/reference	0.88206	0.344
47DAP/reference	1.09478	0.353
52DAP/reference	0.90592	0.055
57DAP/reference	1.06669	0.626

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34215	0.034
17DAP/reference	1.17926	0.443
27DAP/reference	1.98249	0.02
39DAP/reference	1.69752	0.012
41DAP/reference	1.7028	0.012
42DAP/reference	1.6404	0.015
43DAP/reference	2.08232	0.007
47DAP/reference	0.93529	0.278
52DAP/reference	1.56336	0.247
57DAP/reference	1.434	0.73

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97958	1
26DAP/20DAP	0.83112	0.244
34DAP/26DAP	0.9993	1
51DAP/34DAP	0.89062	0.571
52DAP/51DAP	0.91747	1
53DAP/52DAP	0.94802	0.824
55DAP/53DAP	1.099	0.813
57DAP/55DAP	0.96332	0.831
62DAP/57DAP	1.05323	1
68DAP/62DAP	0.89727	0.505
68DAP/14DAP	1.0149	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.72315	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.59866	0.075
Mature Green Tomato/Ripe Tomato	0.97629	0.66
Immature Eggplant/Mature Eggplant	2.28169	0.05
Ripe Pepper/Ripe Tomato	0.22121	0.224
Mature Eggplant/Ripe Tomato	0.32298	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12256	0.742
1-1-2/M82	1.0628	1
12-2/M82	0.97501	1
12-4/M82	1.10702	1
1-3/M82	1.19045	0.479
2-1-1/M82	0.98102	0.92
2-1/M82	0.8047	0.322
2-6/M82	1.09749	0.695
3-2/M82	1.07968	0.967
4-1-1/M82	0.95912	1
4-1/M82	1.76439	0.853
4-3-2/M82	0.93231	0.698
4-3/M82	1.01808	1
5-3/M82	1.04631	1
6-2/M82	0.75711	0.497
6-3/M82	1.04459	1
7-1/M82	0.93594	1
7-2/M82	0.90761	0.881
9-3-2/M82	1.20109	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20491	0.493
IL2-6/WTpooled	1.077	1
IL7-5/WTpooled	0.93621	1
IL7-3/WTpooled	0.80961	0.298
IL12-4/WTpooled	1.00961	0.891
IL1-4/WTpooled	0.89328	0.699
WT/WTpooled	1.02349	0.87

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	1.47101	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04865	0.921
DC3000/delta hrp 6h	1.0594	1
DC3000/delta hrp 12h	1.29083	0.649
DC3000/delta hrp 24h	0.85964	0.319

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	0.86636	0.619

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.33504	0.693
Exp 60h	1.17975	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93072	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.20969	0.209
Var 12h NI row2-row1	0.90413	0.627
Var 36h I row2-row1	0.83714	0.805
Var 36h NI row2-row1	0.74721	1
Var 60h I row2-row1	0.96981	0.952
Var 60h NI row2-row1	1.27343	0.904
Time course 0hI-0hNI	1.27968	0.764
Time course 12hI-12hNI	0.98478	0.924
Time course 36hI-36hNI	0.83861	0.029
Time course 60hI-60hNI	1.16088	0.013

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)	0.99402	0.931
transgenic ySAMdc/azygous control (breaker)	1.08696	1
transgenic ySAMdc/azygous control (red)	0.55724	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15688	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.51593	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78192	1
Manapal/WT (break)	1.05008	1
Manapal/WT (red)	0.83792	0.424