Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.10.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30655	0.863
27DAP/17DAP	0.76512	0.452
39DAP/27DAP	7.97531	0.025
41DAP/39DAP	0.85528	0.453
42DAP/41DAP	1.43132	0.825
43DAP/42DAP	1.86213	0.949
47DAP/43DAP	0.39613	0.049
52DAP/47DAP	0.65823	0.149
57DAP/52DAP	0.90813	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.02882	0.126
17DAP/reference	0.52234	0.011
27DAP/reference	0.50977	0.011
39DAP/reference	0.77684	0.149
41DAP/reference	0.56491	0.013
42DAP/reference	2.50602	0.001
43DAP/reference	2.42835	0.007
47DAP/reference	1.32989	0.243
52DAP/reference	0.55123	0.012
57DAP/reference	1.08961	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.36371	0.019
27DAP/17DAP	2.06093	0.026
39DAP/27DAP	3.15536	0.043
41DAP/39DAP	2.08664	0.355
42DAP/41DAP	0.8514	0.315
43DAP/42DAP	1.18692	0.273
47DAP/43DAP	1.39521	0.245
52DAP/47DAP	0.56035	0.078
57DAP/52DAP	1.10972	0.703
57DAP/7DAP	1.65874	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.20985	0.024
17DAP/reference	1.02556	1
27DAP/reference	1.99721	0.007
39DAP/reference	1.67727	0.022
41DAP/reference	1.97652	0.032
42DAP/reference	3.3666	0.007
43DAP/reference	3.11806	0.007
47DAP/reference	4.02921	0.014
52DAP/reference	3.6817	0.007
57DAP/reference	1.6748	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26245	0.597
17DAP/reference	0.5078	0.003
27DAP/reference	1.5938	0.097
39DAP/reference	1.11455	0.119
41DAP/reference	0.97138	0.441
42DAP/reference	1.24599	0.102
43DAP/reference	0.9964	0.394
47DAP/reference	1.86546	0.232
52DAP/reference	0.53244	0.004
57DAP/reference	1.17625	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.00374	0.058
17DAP/reference	0.68187	0.106
27DAP/reference	1.0932	0.552
39DAP/reference	2.11684	0.009
41DAP/reference	1.59412	0.006
42DAP/reference	4.02545	0.006
43DAP/reference	4.2723	0.006
47DAP/reference	1.18052	0.324
52DAP/reference	1.66462	0.113
57DAP/reference	0.76399	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.33326	0.966
26DAP/20DAP	1.33563	0.663
34DAP/26DAP	0.94376	0.936
51DAP/34DAP	0.81284	0.152
52DAP/51DAP	1.32176	0.133
53DAP/52DAP	0.97874	0.882
55DAP/53DAP	0.818	0.417
57DAP/55DAP	0.64471	0.073
62DAP/57DAP	1.367	0.723
68DAP/62DAP	1.16192	0.89
68DAP/14DAP	1.84235	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	11.9057	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.12258	0.058
Mature Green Tomato/Ripe Tomato	0.60909	0.038
Immature Eggplant/Mature Eggplant	33.6758	0.048
Ripe Pepper/Ripe Tomato	0.06596	0.224
Mature Eggplant/Ripe Tomato	0.50218	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.38666	0.591
1-1-2/M82	2.54069	1
12-2/M82	1.31958	1
12-4/M82	2.51917	1
1-3/M82	3.78506	1
2-1-1/M82	1.41172	0.689
2-1/M82	0.8308	0.345
2-6/M82	1.75722	0.405
3-2/M82	1.33946	0.461
4-1-1/M82	2.42322	1
4-1/M82	2.60786	1
4-3-2/M82	3.66309	0.253
4-3/M82	2.39968	0.268
5-3/M82	0.89915	1
6-2/M82	4.8716	0.219
6-3/M82	1.27444	1
7-1/M82	0.83394	0.509
7-2/M82	1.51435	0.385
9-3-2/M82	4.07465	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10414
IL2-6/WTpooled	1.03454	1
IL7-5/WTpooled	1.05909	1
IL7-3/WTpooled	1.14608	0.362
IL12-4/WTpooled	1.10656	0.891
IL1-4/WTpooled	0.87557	0.699
WT/WTpooled	1.02514	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	1.26032	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07652	0.692
DC3000/delta hrp 6h	1.18906	1
DC3000/delta hrp 12h	0.92373	1
DC3000/delta hrp 24h	2.70467	0.024

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.32841	0.042
DC3000 delta B/DC3000 delta AB	2.86113	0.032

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.53922	1
Exp 36h	2.34327	0.409
Exp 60h	2.50126	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03764	1
Var 0h	0.53095	0.98
Var 12h I row2-row1	1.21531	0.283
Var 12h NI row2-row1	1.35915	0.649
Var 36h I row2-row1	1.58147	0.368
Var 36h NI row2-row1	0.76416	0.584
Var 60h I row2-row1	0.97135	0.952
Var 60h NI row2-row1	0.80941	0.932
Time course 0hI-0hNI	1.03879	0.852
Time course 12hI-12hNI	1.71121	0.004
Time course 36hI-36hNI	3.96829	0.004
Time course 60hI-60hNI	4.40968	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)	0.66181	0.237
transgenic ySAMdc/azygous control (breaker)	0.83789	0.49
transgenic ySAMdc/azygous control (red)	1.14797	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00895	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.55087	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.65799	1
Manapal/WT (break)	0.67711	0.299
Manapal/WT (red)	1.65012	0.164