Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.14.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20112	0.291
27DAP/17DAP	1.11087	0.845
39DAP/27DAP	1.11218	1
41DAP/39DAP	1.04558	0.88
42DAP/41DAP	0.99262	1
43DAP/42DAP	1.00706	1
47DAP/43DAP	1.15645	0.469
52DAP/47DAP	0.92844	0.771
57DAP/52DAP	0.94803	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21818	0.101
17DAP/reference	0.95222	0.26
27DAP/reference	0.99244	0.779
39DAP/reference	1.06212	0.277
41DAP/reference	1.12555	0.041
42DAP/reference	1.128	0.005
43DAP/reference	1.05973	0.518
47DAP/reference	1.08879	0.142
52DAP/reference	1.16845	0.056
57DAP/reference	1.01904	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8825	0.251
27DAP/17DAP	0.85546	0.169
39DAP/27DAP	1.08074	0.728
41DAP/39DAP	1.07875	1
42DAP/41DAP	1.24543	0.053
43DAP/42DAP	0.9837	0.801
47DAP/43DAP	0.85283	0.439
52DAP/47DAP	2.1909	0.048
57DAP/52DAP	1.70434	0.077
57DAP/7DAP	4.29815	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00075	1
17DAP/reference	0.93924	0.22
27DAP/reference	1.02085	0.664
39DAP/reference	1.02307	0.333
41DAP/reference	1.07386	0.199
42DAP/reference	1.03536	0.405
43DAP/reference	0.95653	0.23
47DAP/reference	0.86473	0.128
52DAP/reference	0.96953	0.398
57DAP/reference	1.04709	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43775	0.062
17DAP/reference	1.42766	0.009
27DAP/reference	1.54093	0.02
39DAP/reference	1.4344	0.018
41DAP/reference	1.50389	0.018
42DAP/reference	1.34306	0.016
43DAP/reference	1.73527	0.042
47DAP/reference	1.27016	0.02
52DAP/reference	1.55304	0.006
57DAP/reference	1.56196	0.022

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03216	0.709
17DAP/reference	1.24902	0.228
27DAP/reference	1.07062	0.248
39DAP/reference	1.01084	0.935
41DAP/reference	1.15301	0.343
42DAP/reference	1.09923	0.5
43DAP/reference	1.15258	0.25
47DAP/reference	1.15875	0.309
52DAP/reference	1.06623	0.735
57DAP/reference	1.11157	0.371

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94616	0.915
26DAP/20DAP	2.30171	0.319
34DAP/26DAP	2.99539	1
51DAP/34DAP	1.18092	0.747
52DAP/51DAP	4.12815	0.033
53DAP/52DAP	0.74342	0.057
55DAP/53DAP	1.56419	0.041
57DAP/55DAP	0.59478	0.057
62DAP/57DAP	1.52799	0.678
68DAP/62DAP	0.90217	0.579
68DAP/14DAP	0.64992	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.34971	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00641	0.908
Mature Green Tomato/Ripe Tomato	1.10949	0.399
Immature Eggplant/Mature Eggplant	1.27601	0.076
Ripe Pepper/Ripe Tomato	0.42909	0.224
Mature Eggplant/Ripe Tomato	0.75668	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06583	0.742
1-1-2/M82	1.06779	1
12-2/M82	1.10843	1
12-4/M82	1.59358	1
1-3/M82	1.1116	0.277
2-1-1/M82	1.08922	0.764
2-1/M82	1.20793	1
2-6/M82	0.96809	1
3-2/M82	1.11876	0.967
4-1-1/M82	1.05606	1
4-1/M82	1.37912	0.466
4-3-2/M82	1.11548	0.284
4-3/M82	1.11789	1
5-3/M82	1.02091	1
6-2/M82	1.042	1
6-3/M82	1.02457	1
7-1/M82	0.92488
7-2/M82	1.00734	1
9-3-2/M82	0.95084	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.60421
IL2-6/WTpooled	0.65913
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.13968
IL12-4/WTpooled	1.24479	1
IL1-4/WTpooled	0.94598	0.834
WT/WTpooled	1.1358	0.89

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	1.10196	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96204	1
DC3000/delta hrp 6h	1.02822	1
DC3000/delta hrp 12h	1.0785	1
DC3000/delta hrp 24h	1.07925	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.33369	0.057
DC3000 delta B/DC3000 delta AB	1.40751	0.169

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99181	1
Exp 36h	1.1529	1
Exp 60h	1.27947	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98479	1
Var 0h	1.03947	0.98
Var 12h I row2-row1	1.08121	0.613
Var 12h NI row2-row1	1.06431	1
Var 36h I row2-row1	0.9794	1
Var 36h NI row2-row1	1.33448	0.482
Var 60h I row2-row1	1.10735	1
Var 60h NI row2-row1	0.96832	1
Time course 0hI-0hNI	0.9131	0.472
Time course 12hI-12hNI	1.13811	0.44
Time course 36hI-36hNI	0.99646	0.533
Time course 60hI-60hNI	1.1911	0.115

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)	0.95668	0.567
transgenic ySAMdc/azygous control (breaker)	1.01422	1
transgenic ySAMdc/azygous control (red)	0.92621	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95558	0.057

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04656	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69712	1
Manapal/WT (break)	0.80108	1
Manapal/WT (red)	0.99092	0.863