Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.13.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86566	0.486
27DAP/17DAP	0.97442	0.958
39DAP/27DAP	1.54206	0.527
41DAP/39DAP	1.34384	0.432
42DAP/41DAP	0.72249	0.259
43DAP/42DAP	1.08669	0.985
47DAP/43DAP	1.27069	0.444
52DAP/47DAP	0.95578	0.772
57DAP/52DAP	0.94262	0.903

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88154	0.043
17DAP/reference	0.90211	0.079
27DAP/reference	0.95512	0.457
39DAP/reference	0.95716	0.36
41DAP/reference	0.93166	0.434
42DAP/reference	0.94266	0.111
43DAP/reference	0.97049	0.538
47DAP/reference	0.92881	0.019
52DAP/reference	0.93941	0.35
57DAP/reference	1.04369	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76458	0.131
27DAP/17DAP	1.13106	0.905
39DAP/27DAP	1.14587	0.611
41DAP/39DAP	0.91333	0.793
42DAP/41DAP	1.01926	0.797
43DAP/42DAP	1.73923	0.013
47DAP/43DAP	1.67585	0.014
52DAP/47DAP	0.77139	0.062
57DAP/52DAP	0.70866	0.171
57DAP/7DAP	0.71773

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88193	0.203
17DAP/reference	0.91571	0.094
27DAP/reference	0.88951	0.015
39DAP/reference	0.83183	0.011
41DAP/reference	0.84007	0.039
42DAP/reference	0.89169	0.05
43DAP/reference	0.82795	0.015
47DAP/reference	0.88184	0.101
52DAP/reference	0.7771	0.02
57DAP/reference	0.80493	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9429	0.441
17DAP/reference	0.80367	0.031
27DAP/reference	0.86719	0.093
39DAP/reference	0.87344	0.079
41DAP/reference	0.80268	0.037
42DAP/reference	0.86083	0.061
43DAP/reference	0.9556	0.516
47DAP/reference	0.94741	0.184
52DAP/reference	0.79829	0.007
57DAP/reference	0.85746	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93763	0.077
17DAP/reference	0.89473	0.144
27DAP/reference	0.90197	0.025
39DAP/reference	0.90811	0.018
41DAP/reference	1.0513	0.818
42DAP/reference	0.90898	0.025
43DAP/reference	0.91123	0.092
47DAP/reference	0.8219	0.014
52DAP/reference	0.85281	0.189
57DAP/reference	0.84978	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96504	1
26DAP/20DAP	1.17115
34DAP/26DAP	0.67751
51DAP/34DAP	2.1829	0.041
52DAP/51DAP	0.80746	1
53DAP/52DAP	1.2501	0.47
55DAP/53DAP	1.03036	0.925
57DAP/55DAP	1.02363	1
62DAP/57DAP	0.88516	0.681
68DAP/62DAP	1.30752	0.664
68DAP/14DAP	1.46856	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29644	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.02631
Mature Green Tomato/Ripe Tomato	0.16076
Immature Eggplant/Mature Eggplant	15.8591	0.05
Ripe Pepper/Ripe Tomato	0.68671	0.224
Mature Eggplant/Ripe Tomato	0.42535	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.38333	0.473
1-1-2/M82	1.26132	1
12-2/M82	1.3114	1
12-4/M82	0.72102	0.619
1-3/M82	N/A	N/A
2-1-1/M82	2.40477	0.338
2-1/M82	3.89624	0.32
2-6/M82	0.83779	1
3-2/M82	0.61099
4-1-1/M82	0.99549	1
4-1/M82	1.16424
4-3-2/M82	1.7144	0.262
4-3/M82	1.5461	1
5-3/M82	1.3389	0.496
6-2/M82	N/A	N/A
6-3/M82	0.93671	1
7-1/M82	1.12346	1
7-2/M82	0.75492
9-3-2/M82	1.14465	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.90123
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.94445
IL12-4/WTpooled	0.80499	0.581
IL1-4/WTpooled	1.23414	1
WT/WTpooled	0.91307	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	1.49375	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1026	0.846
DC3000/delta hrp 6h	1.60548	0.672
DC3000/delta hrp 12h	1.02689	1
DC3000/delta hrp 24h	1.30644	0.062

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	1.81801

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21705	1
Exp 36h	2.81943	0.693
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	1.16302	1
Var 0h	1.15155	0.421
Var 12h I row2-row1	1.17203	0.187
Var 12h NI row2-row1	1.57451	1
Var 36h I row2-row1	2.02382	0.291
Var 36h NI row2-row1	0.86401	0.469
Var 60h I row2-row1	0.75809	0.832
Var 60h NI row2-row1	0.9144	0.408
Time course 0hI-0hNI	1.23257	0.799
Time course 12hI-12hNI	1.24084	0.031
Time course 36hI-36hNI	3.51079	0.014
Time course 60hI-60hNI	17.5739	0.008

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)	1.48609	0.931
transgenic ySAMdc/azygous control (breaker)	0.66939	0.15
transgenic ySAMdc/azygous control (red)	1.09393	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0674	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98673	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90273	1
Manapal/WT (break)	0.95806	1
Manapal/WT (red)	0.44191	0.181