Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.10.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99684	0.858
27DAP/17DAP	0.79418	0.478
39DAP/27DAP	1.31292	0.429
41DAP/39DAP	0.87435	0.506
42DAP/41DAP	1.04475	1
43DAP/42DAP	0.96651	0.9
47DAP/43DAP	1.53903	0.208
52DAP/47DAP	0.80332	0.513
57DAP/52DAP	1.13573	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27805	0.027
17DAP/reference	0.92384	0.224
27DAP/reference	0.9551	0.359
39DAP/reference	0.86779	0.058
41DAP/reference	0.83471	0.267
42DAP/reference	0.88372	0.018
43DAP/reference	0.91262	0.234
47DAP/reference	0.82584	0.018
52DAP/reference	0.92488	0.093
57DAP/reference	1.03334	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86762	0.068
27DAP/17DAP	1.16089	0.476
39DAP/27DAP	0.95806	0.628
41DAP/39DAP	1.01062	1
42DAP/41DAP	1.07038	0.694
43DAP/42DAP	0.85041	0.038
47DAP/43DAP	1.0536	0.678
52DAP/47DAP	1.05194	0.799
57DAP/52DAP	0.8995	0.395
57DAP/7DAP	0.77087	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02266	0.945
17DAP/reference	0.94675	0.167
27DAP/reference	0.82674	0.01
39DAP/reference	0.87738	0.014
41DAP/reference	0.75519	0.014
42DAP/reference	0.7818	0.01
43DAP/reference	0.73194	0.011
47DAP/reference	0.94871	0.222
52DAP/reference	0.70896	0.012
57DAP/reference	0.78187	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02851	0.926
17DAP/reference	0.83905	0.009
27DAP/reference	1.03057	0.757
39DAP/reference	0.94873	0.314
41DAP/reference	0.95294	0.242
42DAP/reference	0.91307	0.121
43DAP/reference	0.98283	0.646
47DAP/reference	0.9071	0.069
52DAP/reference	0.77593	0.004
57DAP/reference	0.7873	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05635	0.212
17DAP/reference	1.00497	0.934
27DAP/reference	0.90931	0.119
39DAP/reference	0.84699	0.019
41DAP/reference	0.97205	0.459
42DAP/reference	0.88846	0.108
43DAP/reference	0.8839	0.088
47DAP/reference	0.8563	0.038
52DAP/reference	0.79212	0.082
57DAP/reference	1.0805	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95717	1
26DAP/20DAP	0.94408	1
34DAP/26DAP	0.90098	0.712
51DAP/34DAP	1.07683	0.785
52DAP/51DAP	0.99407	1
53DAP/52DAP	1.11541	0.565
55DAP/53DAP	1.1597	0.144
57DAP/55DAP	1.08838	0.955
62DAP/57DAP	0.56763	0.005
68DAP/62DAP	1.08073	1
68DAP/14DAP	0.89578	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05457	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.91502	0.491
Mature Green Tomato/Ripe Tomato	1.8826	0.07
Immature Eggplant/Mature Eggplant	1.34492	0.055
Ripe Pepper/Ripe Tomato	3.53221	0.256
Mature Eggplant/Ripe Tomato	2.10517	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.00726
12-2/M82	N/A	N/A
12-4/M82	0.67544
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
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	1.07863
4-3-2/M82	1.02317
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.04519
7-2/M82	N/A	N/A
9-3-2/M82	1.08784

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81642	0.243
IL2-6/WTpooled	0.80148	1
IL7-5/WTpooled	0.9995	1
IL7-3/WTpooled	0.79517	0.294
IL12-4/WTpooled	0.94978	1
IL1-4/WTpooled	0.85918	0.415
WT/WTpooled	0.99425	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	0.91242	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.02773	1
DC3000/delta hrp 12h	0.72308	1
DC3000/delta hrp 24h	1.83703	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11043	0.441
DC3000 delta B/DC3000 delta AB	0.91075	0.431

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14428	1
Exp 36h	0.69312	0.41
Exp 60h	0.66162	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09512	1
Var 0h	0.67367	1
Var 12h I row2-row1	1.24881	0.406
Var 12h NI row2-row1	0.78558	0.466
Var 36h I row2-row1	0.98164	1
Var 36h NI row2-row1	1.14892	0.482
Var 60h I row2-row1	1.1222	0.562
Var 60h NI row2-row1	1.08757	0.904
Time course 0hI-0hNI	1.00738	1
Time course 12hI-12hNI	0.89277	0.138
Time course 36hI-36hNI	0.83222	0.028
Time course 60hI-60hNI	0.67332	0.015

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)	1.03631	0.921
transgenic ySAMdc/azygous control (breaker)	0.80669	0.15
transgenic ySAMdc/azygous control (red)	0.84291	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03598	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.96205	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.57233	0.093
Manapal/WT (break)	1.11651	0.381
Manapal/WT (red)	1.19697	0.413