Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.19.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.52821	0.709
27DAP/17DAP	0.71254	0.572
39DAP/27DAP	1.04552	0.899
41DAP/39DAP	1.45215	0.83
42DAP/41DAP	2.6651	0.792
43DAP/42DAP	1.06448	1
47DAP/43DAP	1.07173	0.979
52DAP/47DAP	1.09802	1
57DAP/52DAP	1.80982	0.589

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27824	0.036
17DAP/reference	1.50999	0.014
27DAP/reference	1.09995	0.75
39DAP/reference	1.18761	0.214
41DAP/reference	1.62131	0.014
42DAP/reference	1.20251	0.002
43DAP/reference	1.05775	0.73
47DAP/reference	1.1455	0.057
52DAP/reference	1.13125	0.476
57DAP/reference	0.90498	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05454	1
27DAP/17DAP	1.20303	0.533
39DAP/27DAP	1.33432	0.422
41DAP/39DAP	0.98938	1
42DAP/41DAP	0.96448	0.746
43DAP/42DAP	0.71527	0.052
47DAP/43DAP	1.03032	0.956
52DAP/47DAP	1.07946	0.986
57DAP/52DAP	0.94288	0.668
57DAP/7DAP	0.61783

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40003	0.039
17DAP/reference	1.74259	0.006
27DAP/reference	1.74253	0.006
39DAP/reference	1.97556	0.005
41DAP/reference	1.90332	0.024
42DAP/reference	2.38243	0.006
43DAP/reference	2.02236	0.008
47DAP/reference	1.53983	0.127
52DAP/reference	1.6876	0.023
57DAP/reference	1.69629	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02663	0.965
17DAP/reference	1.06087	1
27DAP/reference	1.04298	1
39DAP/reference	1.24367	0.056
41DAP/reference	0.96368	0.384
42DAP/reference	1.15073	0.543
43DAP/reference	0.96557	0.539
47DAP/reference	1.53483	0.038
52DAP/reference	1.10801	0.471
57DAP/reference	1.1554	0.236

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.69896	0.015
17DAP/reference	1.28709	0.303
27DAP/reference	1.67402	0.013
39DAP/reference	1.49225	0.004
41DAP/reference	1.52412	0.007
42DAP/reference	1.57314	0.023
43DAP/reference	1.38579	0.179
47DAP/reference	0.96334	0.494
52DAP/reference	1.45889	0.201
57DAP/reference	1.13133	0.742

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11347	0.966
26DAP/20DAP	1.48091	0.114
34DAP/26DAP	1.17916	1
51DAP/34DAP	0.69252	0.065
52DAP/51DAP	0.93677	1
53DAP/52DAP	1.04898
55DAP/53DAP	0.947	0.698
57DAP/55DAP	1.46712	0.682
62DAP/57DAP	1.04161	1
68DAP/62DAP	2.41411	0.962
68DAP/14DAP	0.76018	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88991	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.48903	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.34112

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.42259
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.02074
1-3/M82	N/A	N/A
2-1-1/M82	1.19285
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.92124
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.01579
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	N/A	N/A
IL7-5/WTpooled	0.98895
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.80738
WT/WTpooled	0.94043

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	1.256	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.16814	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.10456	1
DC3000/delta hrp 24h	0.78057	0.126

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	0.99554	1
Var 0h	1.0972	0.936
Var 12h I row2-row1	1.1297	0.296
Var 12h NI row2-row1	1.18517	1
Var 36h I row2-row1	0.71382	1
Var 36h NI row2-row1	1.06987	1
Var 60h I row2-row1	1.60097	1
Var 60h NI row2-row1	0.88899	0.904
Time course 0hI-0hNI	0.94387	0.548
Time course 12hI-12hNI	1.06201	0.512
Time course 36hI-36hNI	1.06184	0.722
Time course 60hI-60hNI	0.73857	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)	0.58017	0.255
transgenic ySAMdc/azygous control (breaker)	0.90803	1
transgenic ySAMdc/azygous control (red)	0.85738	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95466	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06224	1

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)	1.32951	0.183
Manapal/WT (red)	1.31369	0.222