Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.4.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00731	0.961
27DAP/17DAP	1.0882	0.881
39DAP/27DAP	1.97904	0.06
41DAP/39DAP	0.89185	0.54
42DAP/41DAP	1.63213	0.743
43DAP/42DAP	1.77279	0.619
47DAP/43DAP	0.34037	0.045
52DAP/47DAP	0.98524	0.886
57DAP/52DAP	1.30816	0.817

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94219	0.308
17DAP/reference	1.04065	0.427
27DAP/reference	1.01471	1
39DAP/reference	1.01298	0.857
41DAP/reference	1.04872	0.667
42DAP/reference	0.97098	0.305
43DAP/reference	1.05172	0.838
47DAP/reference	0.98798	0.535
52DAP/reference	0.99197	0.636
57DAP/reference	0.92516	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47521	0.061
27DAP/17DAP	1.0147	0.988
39DAP/27DAP	1.18644	0.646
41DAP/39DAP	1.82869	0.883
42DAP/41DAP	1.27924	0.753
43DAP/42DAP	1.25658	0.112
47DAP/43DAP	0.95179	0.764
52DAP/47DAP	0.80625	0.142
57DAP/52DAP	0.87606	0.407
57DAP/7DAP	1.14158	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84434	0.129
17DAP/reference	0.98025	0.518
27DAP/reference	1.04321	1
39DAP/reference	1.1725	0.133
41DAP/reference	0.96373	0.469
42DAP/reference	0.92861	0.275
43DAP/reference	0.8958	0.145
47DAP/reference	1.08437	0.571
52DAP/reference	0.93698	0.232
57DAP/reference	0.99857	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9897	0.831
17DAP/reference	0.99585	0.711
27DAP/reference	0.93404	0.269
39DAP/reference	0.87513	0.122
41DAP/reference	0.89659	0.098
42DAP/reference	0.95846	0.355
43DAP/reference	0.94522	0.336
47DAP/reference	0.94712	0.188
52DAP/reference	0.96379	0.407
57DAP/reference	0.82604	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08157	0.709
17DAP/reference	0.97203	0.601
27DAP/reference	1.04779	1
39DAP/reference	0.99649	0.693
41DAP/reference	0.96455	0.56
42DAP/reference	0.95465	0.445
43DAP/reference	1.12315	0.432
47DAP/reference	0.99429	0.61
52DAP/reference	1.26515	0.384
57DAP/reference	1.13195	0.113

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98016	1
26DAP/20DAP	2.7417	0.173
34DAP/26DAP	0.7731	0.462
51DAP/34DAP	1.24119	0.445
52DAP/51DAP	0.90919	1
53DAP/52DAP	0.64287	0.049
55DAP/53DAP	0.52226	0.017
57DAP/55DAP	0.8901	0.499
62DAP/57DAP	0.80541	0.681
68DAP/62DAP	1.09418	1
68DAP/14DAP	0.87737	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	13.2192	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.10467	0.106
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.36698	0.224
Mature Eggplant/Ripe Tomato	0.33951	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00592	1
1-1-2/M82	1.69995	1
12-2/M82	0.85013	0.74
12-4/M82	2.01442	1
1-3/M82	0.91011
2-1-1/M82	1.11551	1
2-1/M82	0.97191
2-6/M82	0.98345	1
3-2/M82	1.11187	0.426
4-1-1/M82	1.2514	0.968
4-1/M82	4.23328	0.466
4-3-2/M82	2.76591
4-3/M82	1.66681	1
5-3/M82	0.95867	1
6-2/M82	1.34584	1
6-3/M82	0.80354	0.982
7-1/M82	1.10171	0.539
7-2/M82	1.17166	0.385
9-3-2/M82	1.88153	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.98622	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.83319	0.418
IL12-4/WTpooled	1.10378	0.695
IL1-4/WTpooled	1.02248
WT/WTpooled	0.94858	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	1.10526	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03366	0.875
DC3000/delta hrp 6h	0.84142	0.95
DC3000/delta hrp 12h	0.99128	1
DC3000/delta hrp 24h	1.0264	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.623	0.052
DC3000 delta B/DC3000 delta AB	0.66927	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89751	1
Exp 36h	1.16334	1
Exp 60h	0.88665	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.18931	0.374
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.12771	0.318
transgenic ySAMdc/azygous control (breaker)	0.61942	0.15
transgenic ySAMdc/azygous control (red)	1.03244	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96976	0.122

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89229	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31367	0.14
Manapal/WT (break)	1.15651	0.123
Manapal/WT (red)	0.72371	0.187