Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90067	0.395
27DAP/17DAP	1.14608	0.844
39DAP/27DAP	1.26983	0.453
41DAP/39DAP	1.23131	0.676
42DAP/41DAP	1.069	1
43DAP/42DAP	1.0111	0.937
47DAP/43DAP	0.83806	0.473
52DAP/47DAP	1.58324	0.434
57DAP/52DAP	0.90195	0.895

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89502	0.121
17DAP/reference	0.91568	0.278
27DAP/reference	0.92945	0.257
39DAP/reference	0.93765	0.455
41DAP/reference	0.89733	0.201
42DAP/reference	0.90608	0.015
43DAP/reference	0.8545	0.155
47DAP/reference	0.94041	0.077
52DAP/reference	0.76927	0.05
57DAP/reference	1.04785	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9531	0.415
27DAP/17DAP	1.01337	0.969
39DAP/27DAP	1.02963	0.659
41DAP/39DAP	1.01395	0.88
42DAP/41DAP	1.0496	0.694
43DAP/42DAP	1.05503	0.23
47DAP/43DAP	1.01852	0.914
52DAP/47DAP	1.09261	0.669
57DAP/52DAP	1.02255	0.858
57DAP/7DAP	1.06767	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97814	0.402
17DAP/reference	0.98432	0.389
27DAP/reference	0.94621	0.076
39DAP/reference	0.98094	0.411
41DAP/reference	0.98327	0.449
42DAP/reference	1.02413	0.534
43DAP/reference	0.99245	0.58
47DAP/reference	1.00059	1
52DAP/reference	0.97396	0.304
57DAP/reference	0.93873	0.08

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9798	0.706
17DAP/reference	0.9722	0.51
27DAP/reference	0.86738	0.129
39DAP/reference	0.93959	0.227
41DAP/reference	0.90392	0.073
42DAP/reference	0.90974	0.121
43DAP/reference	0.88977	0.292
47DAP/reference	0.98911	0.574
52DAP/reference	0.91072	0.072
57DAP/reference	1.01375	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92916	0.036
17DAP/reference	0.94306	0.305
27DAP/reference	0.95637	0.165
39DAP/reference	0.97847	0.544
41DAP/reference	0.89863	0.058
42DAP/reference	0.9135	0.071
43DAP/reference	0.94322	0.246
47DAP/reference	0.90447	0.026
52DAP/reference	0.9867	0.763
57DAP/reference	0.82648	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00905	0.966
26DAP/20DAP	0.9648	0.156
34DAP/26DAP	1.00418	1
51DAP/34DAP	0.9788	0.911
52DAP/51DAP	0.99229	1
53DAP/52DAP	1.05585	0.643
55DAP/53DAP	1.04906	0.614
57DAP/55DAP	0.96642	0.845
62DAP/57DAP	0.93746	0.681
68DAP/62DAP	1.13806	0.682
68DAP/14DAP	1.57108	0.366

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03296	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.51946	0.121
Mature Green Tomato/Ripe Tomato	0.83577	0.226
Immature Eggplant/Mature Eggplant	0.99838	1
Ripe Pepper/Ripe Tomato	1.30837	1
Mature Eggplant/Ripe Tomato	0.62347	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97776	0.961
1-1-2/M82	0.91588	1
12-2/M82	0.96826	0.955
12-4/M82	0.99443	1
1-3/M82	1.03205	1
2-1-1/M82	1.05065	1
2-1/M82	1.21645	1
2-6/M82	0.94252	1
3-2/M82	0.9875	0.752
4-1-1/M82	0.9668	1
4-1/M82	0.98058	1
4-3-2/M82	0.9951	1
4-3/M82	0.98195	0.551
5-3/M82	1.02845	1
6-2/M82	0.98035	0.497
6-3/M82	0.9961	1
7-1/M82	1.02508	0.992
7-2/M82	0.96081	0.881
9-3-2/M82	1.0626	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83879	1
IL2-6/WTpooled	0.94267	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05333	1
IL12-4/WTpooled	1.27208	0.673
IL1-4/WTpooled	0.95893	1
WT/WTpooled	0.995	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	1.12027	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0444	0.894
DC3000/delta hrp 6h	1.00663	0.95
DC3000/delta hrp 12h	0.96354	1
DC3000/delta hrp 24h	0.9955	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20383	0.042
DC3000 delta B/DC3000 delta AB	1.15226	0.253

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26737	1
Exp 36h	1.47131	1
Exp 60h	0.9335	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00523	1
Var 0h	0.9436	1
Var 12h I row2-row1	1.14616	0.201
Var 12h NI row2-row1	1.14303	1
Var 36h I row2-row1	1.05186	1
Var 36h NI row2-row1	1.0362	1
Var 60h I row2-row1	1.07297	0.562
Var 60h NI row2-row1	1.03674	1
Time course 0hI-0hNI	1.0832	0.764
Time course 12hI-12hNI	1.04023	0.747
Time course 36hI-36hNI	1.09746	0.044
Time course 60hI-60hNI	1.55245	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)	0.99486	0.931
transgenic ySAMdc/azygous control (breaker)	1.54934	0.178
transgenic ySAMdc/azygous control (red)	1.00938	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94299	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02594	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17809	0.14
Manapal/WT (break)	0.66482	0.333
Manapal/WT (red)	1.05288	1