Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.10.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02834	0.912
27DAP/17DAP	1.566	0.435
39DAP/27DAP	0.98597	0.749
41DAP/39DAP	0.91369	0.636
42DAP/41DAP	1.16268	0.647
43DAP/42DAP	1.10231	1
47DAP/43DAP	1.25703	0.405
52DAP/47DAP	1.01018	0.957
57DAP/52DAP	0.96368	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84156	0.078
17DAP/reference	0.92892	0.208
27DAP/reference	1.06161	0.66
39DAP/reference	1.15577	0.318
41DAP/reference	1.28541	0.054
42DAP/reference	0.9926	0.484
43DAP/reference	0.96094	0.594
47DAP/reference	1.10417	0.685
52DAP/reference	1.03779	0.951
57DAP/reference	1.12416	0.463

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16584	0.077
27DAP/17DAP	0.97832	0.887
39DAP/27DAP	1.13173	0.56
41DAP/39DAP	0.9268	0.446
42DAP/41DAP	1.13979	0.134
43DAP/42DAP	0.97139	0.774
47DAP/43DAP	0.98619	0.928
52DAP/47DAP	1.34646	0.226
57DAP/52DAP	1.33479	0.092
57DAP/7DAP	1.40893	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99013	0.682
17DAP/reference	0.91812	0.124
27DAP/reference	1.11082	0.088
39DAP/reference	0.86152	0.073
41DAP/reference	1.03075	0.864
42DAP/reference	0.89354	0.053
43DAP/reference	1.00026	0.694
47DAP/reference	0.84996	0.101
52DAP/reference	0.88352	0.213
57DAP/reference	0.93501	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05711	0.156
17DAP/reference	0.98483	0.626
27DAP/reference	1.11704	0.583
39DAP/reference	0.96106	0.257
41DAP/reference	0.98777	0.545
42DAP/reference	1.20043	0.17
43DAP/reference	1.83917	0.021
47DAP/reference	1.54774	0.008
52DAP/reference	1.07069	0.322
57DAP/reference	1.08748	0.593

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88343	0.214
17DAP/reference	1.02773	0.934
27DAP/reference	0.91667	0.243
39DAP/reference	0.93514	0.179
41DAP/reference	1.12615	0.657
42DAP/reference	1.14021	0.233
43DAP/reference	0.91183	0.432
47DAP/reference	1.14173	0.251
52DAP/reference	0.95486	0.582
57DAP/reference	1.02031	0.902

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.33527	0.43
26DAP/20DAP	1.51858	0.192
34DAP/26DAP	1.23798	1
51DAP/34DAP	1.88498	0.043
52DAP/51DAP	1.09857	1
53DAP/52DAP	1.00858	0.961
55DAP/53DAP	1.07331	0.861
57DAP/55DAP	0.8236	0.286
62DAP/57DAP	0.92883	0.871
68DAP/62DAP	1.53471	0.298
68DAP/14DAP	1.05191	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.55596	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.33866	0.073
Mature Green Tomato/Ripe Tomato	0.77832	0.026
Immature Eggplant/Mature Eggplant	2.32631	0.052
Ripe Pepper/Ripe Tomato	4.51727	0.244
Mature Eggplant/Ripe Tomato	3.23199	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06618
1-1-2/M82	1.26643
12-2/M82	N/A	N/A
12-4/M82	1.39349	0.694
1-3/M82	0.61953
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.23284
3-2/M82	1.15887
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.93738	0.37
4-3/M82	N/A	N/A
5-3/M82	1.09983	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.13756	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98622	1
IL2-6/WTpooled	1.09828	0.584
IL7-5/WTpooled	0.91616	1
IL7-3/WTpooled	1.05464	1
IL12-4/WTpooled	1.06638	0.595
IL1-4/WTpooled	0.94327	0.834
WT/WTpooled	1.05264	0.774

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	0.94879	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0701	0.921
DC3000/delta hrp 6h	1.3212	1
DC3000/delta hrp 12h	1.01012	1
DC3000/delta hrp 24h	0.68516	0.039

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86378	0.033
DC3000 delta B/DC3000 delta AB	0.95307	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0878	1
Exp 36h	0.97584	0.943
Exp 60h	1.09417	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01154	1
Var 0h	0.50723	1
Var 12h I row2-row1	1.05144	0.654
Var 12h NI row2-row1	1.17615	0.649
Var 36h I row2-row1	1.03751	1
Var 36h NI row2-row1	1.20876	0.482
Var 60h I row2-row1	0.7799	0.285
Var 60h NI row2-row1	1.45379	0.701
Time course 0hI-0hNI	0.93213	0.6
Time course 12hI-12hNI	1.07839	0.503
Time course 36hI-36hNI	0.99834	0.768
Time course 60hI-60hNI	0.56123	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)	0.84442	0.289
transgenic ySAMdc/azygous control (breaker)	1.2402	0.166
transgenic ySAMdc/azygous control (red)	0.93369	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04259	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.29704	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.59035	1
Manapal/WT (break)	0.9484	1
Manapal/WT (red)	1.2312	1