Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.17.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19452	0.485
27DAP/17DAP	1.56869	0.552
39DAP/27DAP	1.40467	0.246
41DAP/39DAP	1.71287	0.293
42DAP/41DAP	3.66989	0.017
43DAP/42DAP	3.15241	0.593
47DAP/43DAP	1.8363	0.384
52DAP/47DAP	0.37859	0.034
57DAP/52DAP	1.67273	0.731

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00672	0.589
17DAP/reference	0.87968	0.147
27DAP/reference	0.97456	0.642
39DAP/reference	1.21177	0.039
41DAP/reference	1.20994	0.122
42DAP/reference	1.82577	0.001
43DAP/reference	3.16988	0.006
47DAP/reference	2.67677	0.001
52DAP/reference	1.87009	0.008
57DAP/reference	2.27422	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01823	1
27DAP/17DAP	1.28893	0.399
39DAP/27DAP	1.62214	0.074
41DAP/39DAP	0.58193	0.201
42DAP/41DAP	2.03303	0.002
43DAP/42DAP	3.07949	0.014
47DAP/43DAP	1.80945	0.017
52DAP/47DAP	1.31841	0.372
57DAP/52DAP	0.48618	0.047
57DAP/7DAP	3.68152	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81527	0.122
17DAP/reference	0.65949	0.014
27DAP/reference	0.84315	0.039
39DAP/reference	0.74358	0.039
41DAP/reference	0.88288	0.153
42DAP/reference	0.98865	0.582
43DAP/reference	1.18854	0.212
47DAP/reference	1.51322	0.015
52DAP/reference	1.11621	0.401
57DAP/reference	0.78032	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01328	0.951
17DAP/reference	0.95279	0.548
27DAP/reference	1.24136	0.092
39DAP/reference	1.24185	0.136
41DAP/reference	1.38269	0.277
42DAP/reference	1.19282	0.202
43DAP/reference	1.20537	0.605
47DAP/reference	1.33665	0.059
52DAP/reference	1.21658	0.393
57DAP/reference	0.94784	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.6968	0.074
17DAP/reference	1.07049	0.778
27DAP/reference	0.76981	0.055
39DAP/reference	0.79029	0.05
41DAP/reference	0.89475	0.417
42DAP/reference	1.39489	0.036
43DAP/reference	1.40276	0.241
47DAP/reference	1.80147	0.007
52DAP/reference	1.3044	0.167
57DAP/reference	1.05572	0.827

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.81004	1
26DAP/20DAP	1.60722	0.101
34DAP/26DAP	0.82859	0.394
51DAP/34DAP	0.67039	0.125
52DAP/51DAP	1.03026	0.965
53DAP/52DAP	0.96203	0.835
55DAP/53DAP	0.6266	0.036
57DAP/55DAP	1.12775	0.927
62DAP/57DAP	0.67948	0.016
68DAP/62DAP	1.24112	0.821
68DAP/14DAP	1.01161

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	20.2764	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	11.3328	0.058
Mature Green Tomato/Ripe Tomato	0.22308	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.0403	0.224
Mature Eggplant/Ripe Tomato	0.0785	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12766	0.742
1-1-2/M82	1.52444	1
12-2/M82	0.86772	0.955
12-4/M82	1.1713	1
1-3/M82	2.50804	0.248
2-1-1/M82	0.89763	0.465
2-1/M82	0.71532	0.519
2-6/M82	1.06643	0.395
3-2/M82	1.68702	0.463
4-1-1/M82	1.32343	1
4-1/M82	2.41628	0.853
4-3-2/M82	1.36357	1
4-3/M82	0.95047	1
5-3/M82	1.0598	1
6-2/M82	1.22105	1
6-3/M82	1.07427	1
7-1/M82	1.09111	0.925
7-2/M82	1.05263	1
9-3-2/M82	1.71713	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.41123	0.243
IL2-6/WTpooled	1.06142	0.788
IL7-5/WTpooled	0.99746	1
IL7-3/WTpooled	0.32506	0.294
IL12-4/WTpooled	0.73261	0.581
IL1-4/WTpooled	0.65043	0.444
WT/WTpooled	0.97921	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	1.03509	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01089	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.55832	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15011
DC3000 delta B/DC3000 delta AB	1.20612	0.315

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.74931	1
Exp 36h	N/A	N/A
Exp 60h	0.80143	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9885	1
Var 0h	1.13912	1
Var 12h I row2-row1	0.94629	0.705
Var 12h NI row2-row1	1.15319	1
Var 36h I row2-row1	1.16385	1
Var 36h NI row2-row1	1.24067	0.482
Var 60h I row2-row1	0.81213	0.832
Var 60h NI row2-row1	1.12859	0.904
Time course 0hI-0hNI	0.95481	0.729
Time course 12hI-12hNI	0.93743	0.464
Time course 36hI-36hNI	0.72407	0.023
Time course 60hI-60hNI	0.45284	0.007

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)	0.72924	0.391
transgenic ySAMdc/azygous control (breaker)	1.18682	0.248
transgenic ySAMdc/azygous control (red)	0.9278	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99287	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81277	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.94194	1
Manapal/WT (red)	0.98406	0.863