Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.14.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70893	0.107
27DAP/17DAP	1.28931	1
39DAP/27DAP	0.91358	0.608
41DAP/39DAP	0.95123	0.422
42DAP/41DAP	0.79776	1
43DAP/42DAP	1.12866	1
47DAP/43DAP	0.84844	0.51
52DAP/47DAP	1.49559	0.331
57DAP/52DAP	1.17529	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10474	0.04
17DAP/reference	1.14139	0.306
27DAP/reference	0.98285	0.683
39DAP/reference	0.93526	0.404
41DAP/reference	0.87082	0.065
42DAP/reference	0.77012	0.001
43DAP/reference	0.84449	0.027
47DAP/reference	0.84292	0.007
52DAP/reference	0.90155	0.292
57DAP/reference	0.97915	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25119	0.067
27DAP/17DAP	0.87239	0.259
39DAP/27DAP	0.92112	0.291
41DAP/39DAP	1.644	0.009
42DAP/41DAP	0.76688	0.021
43DAP/42DAP	0.76929	0.023
47DAP/43DAP	1.10835	0.389
52DAP/47DAP	1.02612	0.915
57DAP/52DAP	1.03022	0.891
57DAP/7DAP	0.92778	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37337	0.035
17DAP/reference	1.22647	0.008
27DAP/reference	1.1385	0.107
39DAP/reference	1.38469	0.006
41DAP/reference	1.26577	0.042
42DAP/reference	1.44661	0.03
43DAP/reference	1.27523	0.011
47DAP/reference	1.32639	0.161
52DAP/reference	1.40203	0.028
57DAP/reference	1.1341	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1207	0.463
17DAP/reference	1.29095	0.25
27DAP/reference	0.9808	0.537
39DAP/reference	1.13779	0.588
41DAP/reference	1.39505	0.068
42DAP/reference	1.05124	0.879
43DAP/reference	1.08294	0.793
47DAP/reference	0.98673	0.574
52DAP/reference	1.01863	0.761
57DAP/reference	0.87399	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.252	0.026
17DAP/reference	1.13738	0.365
27DAP/reference	1.05198	0.531
39DAP/reference	1.33398	0.116
41DAP/reference	1.02497	0.916
42DAP/reference	0.98774	0.816
43DAP/reference	0.88498	0.216
47DAP/reference	0.77877	0.019
52DAP/reference	1.02579	0.99
57DAP/reference	1.15781	0.888

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1053	1
26DAP/20DAP	2.0784	0.099
34DAP/26DAP	0.39368	0.05
51DAP/34DAP	0.18438	0.049
52DAP/51DAP	1.04944	0.776
53DAP/52DAP	1.09262	0.678
55DAP/53DAP	1.2699	0.306
57DAP/55DAP	0.8935	0.606
62DAP/57DAP	1.20265	0.057
68DAP/62DAP	1.24063	0.912
68DAP/14DAP	0.13868	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03079	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	54.2847	0.058
Mature Green Tomato/Ripe Tomato	2.8521	0.016
Immature Eggplant/Mature Eggplant	1.28572	0.053
Ripe Pepper/Ripe Tomato	0.28178
Mature Eggplant/Ripe Tomato	31.2633	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90251	0.944
1-1-2/M82	0.94987
12-2/M82	N/A	N/A
12-4/M82	1.20414
1-3/M82	0.48608
2-1-1/M82	0.95534
2-1/M82	N/A	N/A
2-6/M82	1.085
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.42179
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.03854	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	0.92704	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.15966	0.46
IL7-5/WTpooled	1.36608
IL7-3/WTpooled	1.04518	1
IL12-4/WTpooled	1.01125	1
IL1-4/WTpooled	1.03399	1
WT/WTpooled	0.98813	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	0.97625	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0645	0.921
DC3000/delta hrp 6h	1.17676	0.978
DC3000/delta hrp 12h	1.00148	1
DC3000/delta hrp 24h	0.95427	0.7

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94829	0.841
DC3000 delta B/DC3000 delta AB	0.92314	0.369

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89649	1
Exp 36h	1.28172	1
Exp 60h	0.84463	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05824	1
Var 0h	1.34623	0.98
Var 12h I row2-row1	1.84479	0.506
Var 12h NI row2-row1	1.0192	1
Var 36h I row2-row1	0.90203	0.374
Var 36h NI row2-row1	1.2047	1
Var 60h I row2-row1	0.97512	0.952
Var 60h NI row2-row1	1.18801	0.904
Time course 0hI-0hNI	1.13735	0.63
Time course 12hI-12hNI	1.01935	0.803
Time course 36hI-36hNI	0.75764	0.038
Time course 60hI-60hNI	1.68989	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)	0.76765	0.315
transgenic ySAMdc/azygous control (breaker)	0.73899	0.173
transgenic ySAMdc/azygous control (red)	0.90891	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07421	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.2721	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08596	1
Manapal/WT (break)	1.21925	1
Manapal/WT (red)	1.43215	1