Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.13.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96573	0.76
27DAP/17DAP	1.01386	1
39DAP/27DAP	0.82836	0.487
41DAP/39DAP	1.12607	0.735
42DAP/41DAP	1.38553	0.644
43DAP/42DAP	0.96525	0.91
47DAP/43DAP	0.95927	0.804
52DAP/47DAP	1.66829	0.204
57DAP/52DAP	0.8939	0.878

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93861	0.246
17DAP/reference	1.00704	0.907
27DAP/reference	1.0148	0.82
39DAP/reference	1.10235	0.186
41DAP/reference	1.05343	0.587
42DAP/reference	0.9706	0.202
43DAP/reference	1.05181	0.118
47DAP/reference	0.84001	0.042
52DAP/reference	0.81633	0.041
57DAP/reference	0.83738	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88081	0.228
27DAP/17DAP	1.0006	0.969
39DAP/27DAP	1.0763	0.534
41DAP/39DAP	0.98128	0.997
42DAP/41DAP	0.99595	0.892
43DAP/42DAP	0.94746	0.321
47DAP/43DAP	1.02323	0.906
52DAP/47DAP	1.01181	0.991
57DAP/52DAP	1.02977	0.885
57DAP/7DAP	1.03614	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9008	0.138
17DAP/reference	0.94229	0.094
27DAP/reference	0.87849	0.011
39DAP/reference	0.94451	0.095
41DAP/reference	0.90095	0.073
42DAP/reference	0.84124	0.011
43DAP/reference	0.90569	0.126
47DAP/reference	0.91117	0.128
52DAP/reference	0.81716	0.014
57DAP/reference	0.84108	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04241	0.712
17DAP/reference	0.99734	0.693
27DAP/reference	0.93062	0.393
39DAP/reference	0.83056	0.102
41DAP/reference	0.88405	0.13
42DAP/reference	0.93241	0.289
43DAP/reference	1.05901	0.681
47DAP/reference	1.03431	0.795
52DAP/reference	1.01006	1
57DAP/reference	1.0894	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94042	0.054
17DAP/reference	1.00545	0.886
27DAP/reference	0.9288	0.108
39DAP/reference	0.89916	0.063
41DAP/reference	0.88814	0.043
42DAP/reference	0.79682	0.032
43DAP/reference	0.78837	0.061
47DAP/reference	0.94199	0.396
52DAP/reference	0.82785	0.174
57DAP/reference	0.65388	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91943	0.997
26DAP/20DAP	0.8845	0.317
34DAP/26DAP	1.02493	1
51DAP/34DAP	0.95325	0.674
52DAP/51DAP	1.00096	1
53DAP/52DAP	0.9504	0.783
55DAP/53DAP	0.94737	0.592
57DAP/55DAP	0.97074	0.831
62DAP/57DAP	1.15621	0.569
68DAP/62DAP	1.21394	0.729
68DAP/14DAP	1.59467	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92755	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.93389	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.20911
Mature Eggplant/Ripe Tomato	0.41804	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00801	1
1-1-2/M82	0.85563	1
12-2/M82	1.0341	1
12-4/M82	0.89614	1
1-3/M82	1.05173	1
2-1-1/M82	1.0908	0.764
2-1/M82	0.98107	1
2-6/M82	1.00598	1
3-2/M82	1.04753	0.967
4-1-1/M82	1.09406	1
4-1/M82	0.67989	0.737
4-3-2/M82	0.99863	1
4-3/M82	1.04143	1
5-3/M82	1.00259	1
6-2/M82	0.98293	1
6-3/M82	1.00335	1
7-1/M82	1.03983	1
7-2/M82	1.06077	1
9-3-2/M82	0.86349	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.86898
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97276	1
IL12-4/WTpooled	0.91501
IL1-4/WTpooled	0.69949
WT/WTpooled	0.95435	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	1.20278	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99949	1
DC3000/delta hrp 6h	1.02045	1
DC3000/delta hrp 12h	1.14907	1
DC3000/delta hrp 24h	1.01542	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.46093	0.042
DC3000 delta B/DC3000 delta AB	1.027	0.694

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89888	1
Exp 36h	1.37793	0.326
Exp 60h	0.93472	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95872	1
Var 0h	1.46682	1
Var 12h I row2-row1	1.07655	0.379
Var 12h NI row2-row1	0.94351	0.82
Var 36h I row2-row1	0.83522	0.805
Var 36h NI row2-row1	0.89097	0.61
Var 60h I row2-row1	1.20081	0.562
Var 60h NI row2-row1	1.17631	0.904
Time course 0hI-0hNI	1.12323	0.63
Time course 12hI-12hNI	1.01445	0.861
Time course 36hI-36hNI	1.12995	0.017
Time course 60hI-60hNI	1.50982	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)	1.03556	0.748
transgenic ySAMdc/azygous control (breaker)	0.98049	1
transgenic ySAMdc/azygous control (red)	1.04016	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02406	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64838	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78641	1
Manapal/WT (break)	0.83312	1
Manapal/WT (red)	0.94714	0.607