Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9863	0.801
27DAP/17DAP	1.56574	0.842
39DAP/27DAP	0.78296	0.421
41DAP/39DAP	1.24867	0.914
42DAP/41DAP	1.34463	0.507
43DAP/42DAP	0.93969	0.877
47DAP/43DAP	1.10526	0.95
52DAP/47DAP	1.09223	0.886
57DAP/52DAP	1.30802	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78176	0.024
17DAP/reference	0.78226	0.05
27DAP/reference	0.74679	0.032
39DAP/reference	0.698	0.024
41DAP/reference	0.65386	0.049
42DAP/reference	0.75088	0.005
43DAP/reference	0.71781	0.107
47DAP/reference	0.81046	0.018
52DAP/reference	0.69598	0.029
57DAP/reference	0.93504	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.40793	0.06
27DAP/17DAP	1.35225	0.178
39DAP/27DAP	1.06827	0.56
41DAP/39DAP	1.11947	0.883
42DAP/41DAP	1.37486	0.675
43DAP/42DAP	0.95696	0.383
47DAP/43DAP	0.94069	0.722
52DAP/47DAP	0.78454	0.572
57DAP/52DAP	0.96541	0.705
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96993	0.445
17DAP/reference	1.1603	0.297
27DAP/reference	1.25451	0.049
39DAP/reference	1.22216	0.053
41DAP/reference	1.11015	0.593
42DAP/reference	1.15592	0.03
43DAP/reference	0.99655	0.608
47DAP/reference	0.90825	0.383
52DAP/reference	1.33002	0.021
57DAP/reference	1.32216	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66977	0.019
17DAP/reference	0.65835	0.009
27DAP/reference	0.70924	0.054
39DAP/reference	0.65614	0.013
41DAP/reference	0.63346	0.015
42DAP/reference	0.71044	0.025
43DAP/reference	0.71915	0.036
47DAP/reference	0.67893	0.007
52DAP/reference	0.49833	0.003
57DAP/reference	0.48637	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24383	0.086
17DAP/reference	1.24909	0.091
27DAP/reference	1.29594	0.034
39DAP/reference	1.21326	0.182
41DAP/reference	1.10443	0.637
42DAP/reference	0.97563	0.671
43DAP/reference	0.9578	0.503
47DAP/reference	0.4566	0.004
52DAP/reference	0.87917	0.376
57DAP/reference	0.87774	0.174

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2609	0.586
26DAP/20DAP	1.45591	0.322
34DAP/26DAP	0.86114	0.164
51DAP/34DAP	1.13945	0.759
52DAP/51DAP	0.84744	1
53DAP/52DAP	1.13426	0.221
55DAP/53DAP	1.00047	0.908
57DAP/55DAP	0.9579	0.891
62DAP/57DAP	1.48821	0.515
68DAP/62DAP	1.33646	0.821
68DAP/14DAP	1.12214	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79627	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.94979	0.058
Mature Green Tomato/Ripe Tomato	0.89356	0.569
Immature Eggplant/Mature Eggplant	0.56603	0.063
Ripe Pepper/Ripe Tomato	1.0819	1
Mature Eggplant/Ripe Tomato	1.69473	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.09238
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	1.01654
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	1.14857	0.572
6-2/M82	N/A	N/A
6-3/M82	0.91855
7-1/M82	1.01408
7-2/M82	1.17383
9-3-2/M82	1.00107

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.07284	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8541	0.293
IL12-4/WTpooled	0.88732	0.581
IL1-4/WTpooled	0.86991
WT/WTpooled	1.04211	0.785

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	0.83547	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	2.0183	0.921
DC3000/delta hrp 6h	1.05497	1
DC3000/delta hrp 12h	1.13441	1
DC3000/delta hrp 24h	0.8704	0.75

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.53443	0.024
DC3000 delta B/DC3000 delta AB	0.42314	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97298	1
Exp 36h	0.72482	0.456
Exp 60h	0.68444	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94047	1
Var 0h	0.43624	0.457
Var 12h I row2-row1	0.7248	0.418
Var 12h NI row2-row1	1.16005	1
Var 36h I row2-row1	0.74324	1
Var 36h NI row2-row1	1.1128	1
Var 60h I row2-row1	1.09718	0.276
Var 60h NI row2-row1	1.00309	1
Time course 0hI-0hNI	0.97559	0.908
Time course 12hI-12hNI	0.92271	0.182
Time course 36hI-36hNI	0.8809	0.099
Time course 60hI-60hNI	0.28929	0.005

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)	1.05256	0.863
transgenic ySAMdc/azygous control (breaker)	1.68003	0.161
transgenic ySAMdc/azygous control (red)	1.04781	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.66056	0.087

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.67576	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	8.69142	0.083
Manapal/WT (break)	2.1444	0.123
Manapal/WT (red)	1.19127	0.413