Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.3.5.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79919	0.195
27DAP/17DAP	0.9842	0.952
39DAP/27DAP	0.69405	0.399
41DAP/39DAP	0.72982	0.285
42DAP/41DAP	0.98472	1
43DAP/42DAP	0.82334	0.631
47DAP/43DAP	0.87764	0.58
52DAP/47DAP	1.37396	0.699
57DAP/52DAP	1.00349	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07992	0.441
17DAP/reference	1.06633	0.476
27DAP/reference	1.02227	0.909
39DAP/reference	0.99624	0.901
41DAP/reference	1.01984	0.855
42DAP/reference	0.96805	0.225
43DAP/reference	1.04932	0.36
47DAP/reference	0.93481	0.191
52DAP/reference	0.80187	0.015
57DAP/reference	0.74814	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00952	0.801
27DAP/17DAP	0.99095	0.943
39DAP/27DAP	1.03256	0.799
41DAP/39DAP	0.74729	0.117
42DAP/41DAP	1.40312	0.2
43DAP/42DAP	0.94303	0.729
47DAP/43DAP	1.22611	0.822
52DAP/47DAP	1.14132	0.624
57DAP/52DAP	1.17991	0.192
57DAP/7DAP	1.12995	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91433	0.445
17DAP/reference	1.24933	0.361
27DAP/reference	1.05255	0.16
39DAP/reference	1.07699	0.779
41DAP/reference	0.94451	0.412
42DAP/reference	1.20219	0.308
43DAP/reference	0.97479	0.48
47DAP/reference	1.0666	1
52DAP/reference	1.05323	1
57DAP/reference	0.93344	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98209	0.756
17DAP/reference	1.20319	0.186
27DAP/reference	1.13768	0.126
39DAP/reference	0.87976	0.079
41DAP/reference	0.98565	0.505
42DAP/reference	0.89824	0.073
43DAP/reference	0.93995	0.336
47DAP/reference	0.89774	0.077
52DAP/reference	0.85787	0.06
57DAP/reference	0.89025	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97772	0.607
17DAP/reference	0.99803	0.839
27DAP/reference	0.95491	0.442
39DAP/reference	0.99931	0.819
41DAP/reference	0.94746	0.371
42DAP/reference	0.97291	0.671
43DAP/reference	0.97011	0.484
47DAP/reference	0.76614	0.005
52DAP/reference	0.89375	0.368
57DAP/reference	0.79592	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9313	1
26DAP/20DAP	2.84655	0.098
34DAP/26DAP	0.78054	0.606
51DAP/34DAP	1.16344	0.654
52DAP/51DAP	0.95782	1
53DAP/52DAP	0.8218	0.281
55DAP/53DAP	0.79102	0.125
57DAP/55DAP	1.24415	0.728
62DAP/57DAP	0.97455	0.994
68DAP/62DAP	0.78921	0.505
68DAP/14DAP	0.88804	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.38642	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88032	0.418
Mature Green Tomato/Ripe Tomato	1.31529	0.881
Immature Eggplant/Mature Eggplant	1.08367	0.278
Ripe Pepper/Ripe Tomato	1.96794	N/A
Mature Eggplant/Ripe Tomato	2.78339	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02714	1
1-1-2/M82	0.95266	N/A
12-2/M82	0.80727	0.955
12-4/M82	1.13677	N/A
1-3/M82	0.76413	0.501
2-1-1/M82	1.15501	N/A
2-1/M82	N/A	N/A
2-6/M82	1.07239	N/A
3-2/M82	N/A	N/A
4-1-1/M82	0.85858	1
4-1/M82	1.109	N/A
4-3-2/M82	0.8375	N/A
4-3/M82	N/A	N/A
5-3/M82	1.05569	1
6-2/M82	N/A	N/A
6-3/M82	0.71752	N/A
7-1/M82	1.09745	N/A
7-2/M82	1.00691	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18928	0.277
IL2-6/WTpooled	0.8757	0.383
IL7-5/WTpooled	1.14453	0.495
IL7-3/WTpooled	0.96181	0.418
IL12-4/WTpooled	1.1196	0.516
IL1-4/WTpooled	1.02417	1
WT/WTpooled	0.92323	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	1.11048	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93923	1
DC3000/delta hrp 6h	1.01108	1
DC3000/delta hrp 12h	1.09574	1
DC3000/delta hrp 24h	1.05266	0.595

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	0.99562	1
Exp 36h	1.05658	1
Exp 60h	1.09595	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05729	1
Var 0h	1.05358	0.98
Var 12h I row2-row1	1.1145	0.654
Var 12h NI row2-row1	1.33889	0.649
Var 36h I row2-row1	1.18445	1
Var 36h NI row2-row1	1.14334	1
Var 60h I row2-row1	0.85965	0.285
Var 60h NI row2-row1	0.85863	0.932
Time course 0hI-0hNI	0.94086	0.675
Time course 12hI-12hNI	0.9842	0.914
Time course 36hI-36hNI	1.01405	0.783
Time course 60hI-60hNI	1.32155	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)	1.08424	0.297
transgenic ySAMdc/azygous control (breaker)	0.78587	0.251
transgenic ySAMdc/azygous control (red)	1.00941	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09017	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07058	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.18537	0.307
Manapal/WT (break)	1.06934	1
Manapal/WT (red)	N/A	N/A