Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.12.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.57613	0.072
27DAP/17DAP	0.85021	0.589
39DAP/27DAP	1.11808	0.885
41DAP/39DAP	0.83808	0.353
42DAP/41DAP	1.15932	0.92
43DAP/42DAP	0.82803	0.697
47DAP/43DAP	0.72508	0.219
52DAP/47DAP	0.82905	0.562
57DAP/52DAP	0.85352	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28585	0.116
17DAP/reference	1.25426	0.039
27DAP/reference	1.21612	0.111
39DAP/reference	1.11322	0.218
41DAP/reference	1.47043	0.013
42DAP/reference	1.35077	0.013
43DAP/reference	1.19991	0.287
47DAP/reference	1.2384	0.071
52DAP/reference	1.19268	0.083
57DAP/reference	0.97875	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.83569	0.036
27DAP/17DAP	0.83655	0.39
39DAP/27DAP	0.91067	0.514
41DAP/39DAP	0.9472	0.885
42DAP/41DAP	1.09872	0.783
43DAP/42DAP	0.87995	0.149
47DAP/43DAP	0.79149	0.011
52DAP/47DAP	1.04417	0.81
57DAP/52DAP	0.78547	0.119
57DAP/7DAP	0.62849	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8637	0.115
17DAP/reference	0.9488	0.295
27DAP/reference	0.87208	0.094
39DAP/reference	0.91887	0.198
41DAP/reference	1.01042	1
42DAP/reference	0.91361	0.289
43DAP/reference	0.99465	0.58
47DAP/reference	1.0982	0.395
52DAP/reference	1.04524	0.684
57DAP/reference	0.95662	0.26

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96072	0.623
17DAP/reference	1.14007	0.613
27DAP/reference	1.24991	0.283
39DAP/reference	1.00458	0.702
41DAP/reference	1.4047	0.115
42DAP/reference	1.22087	0.22
43DAP/reference	1.29637	0.071
47DAP/reference	1.08501	0.89
52DAP/reference	1.41575	0.027
57DAP/reference	1.17418	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93107	0.169
17DAP/reference	0.91955	0.389
27DAP/reference	0.93038	0.302
39DAP/reference	1.0325	0.885
41DAP/reference	0.93543	0.209
42DAP/reference	1.04041	0.893
43DAP/reference	1.19672	0.254
47DAP/reference	1.53382	0.171
52DAP/reference	0.94588	0.529
57DAP/reference	0.97495	0.593

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23805	0.966
26DAP/20DAP	1.08324	0.785
34DAP/26DAP	1.04522	0.819
51DAP/34DAP	1.58052	0.038
52DAP/51DAP	0.80001	1
53DAP/52DAP	0.96891	0.848
55DAP/53DAP	0.73709	0.025
57DAP/55DAP	1.29193	0.881
62DAP/57DAP	1.07235	0.935
68DAP/62DAP	1.14357	0.885
68DAP/14DAP	1.01144	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0473	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.70292	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	9.71992

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.71869
12-2/M82	N/A	N/A
12-4/M82	1.36646
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	1.48096	0.512
4-3-2/M82	1.11549	1
4-3/M82	N/A	N/A
5-3/M82	1.17521
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	1.04158	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02828	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.29737
IL7-3/WTpooled	0.81468	0.418
IL12-4/WTpooled	0.85149	0.71
IL1-4/WTpooled	1.02537	1
WT/WTpooled	0.99734	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	1.0451	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89667	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.85997	1
DC3000/delta hrp 24h	0.59968	0.046

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60432	0.025
DC3000 delta B/DC3000 delta AB	0.45393	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03162	1
Var 0h	0.56384	0.98
Var 12h I row2-row1	0.85636	0.338
Var 12h NI row2-row1	1.03863	1
Var 36h I row2-row1	0.95649	0.805
Var 36h NI row2-row1	1.11088	0.482
Var 60h I row2-row1	1.2172	0.487
Var 60h NI row2-row1	1.05203	1
Time course 0hI-0hNI	0.98291	0.943
Time course 12hI-12hNI	1.04659	0.663
Time course 36hI-36hNI	0.98544	0.611
Time course 60hI-60hNI	0.35914	0.006

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.85084	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.17412	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.30787	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.05141	1
Manapal/WT (red)	N/A	N/A