Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.16.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96501	0.752
27DAP/17DAP	1.17113	0.849
39DAP/27DAP	1.05812	0.995
41DAP/39DAP	1.20808	0.342
42DAP/41DAP	1.04346	0.999
43DAP/42DAP	1.13968	0.933
47DAP/43DAP	1.00678	0.953
52DAP/47DAP	0.9331	0.771
57DAP/52DAP	1.01539	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95405	0.246
17DAP/reference	1.06244	0.546
27DAP/reference	0.99914	0.885
39DAP/reference	0.9433	0.342
41DAP/reference	1.0028	0.814
42DAP/reference	0.9399	0.023
43DAP/reference	0.99376	0.861
47DAP/reference	0.94628	0.127
52DAP/reference	0.82888	0.135
57DAP/reference	1.02325	0.876

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83725	0.093
27DAP/17DAP	0.91755	0.748
39DAP/27DAP	1.20326	0.296
41DAP/39DAP	1.13925	0.861
42DAP/41DAP	1.26427	0.776
43DAP/42DAP	0.85575	0.235
47DAP/43DAP	1.14213	0.848
52DAP/47DAP	1.12101	0.819
57DAP/52DAP	1.02327	0.875
57DAP/7DAP	0.91343	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.5053	0.058
17DAP/reference	1.83982	0.032
27DAP/reference	2.29912	0.006
39DAP/reference	1.47551	0.006
41DAP/reference	1.55065	0.062
42DAP/reference	1.8798	0.006
43DAP/reference	2.28148	0.009
47DAP/reference	0.89602	0.03
52DAP/reference	2.09663
57DAP/reference	2.36296	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87869	0.119
17DAP/reference	0.85263	0.005
27DAP/reference	0.76523	0.021
39DAP/reference	0.80219	0.042
41DAP/reference	0.83098	0.067
42DAP/reference	1.00797	0.655
43DAP/reference	0.90983	0.32
47DAP/reference	1.035	0.282
52DAP/reference	0.926	0.171
57DAP/reference	0.94529	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.69681	0.052
17DAP/reference	1.59611	0.376
27DAP/reference	3.90015	0.017
39DAP/reference	3.44357	0.009
41DAP/reference	2.35669	0.012
42DAP/reference	1.57485	0.416
43DAP/reference	2.02322	0.134
47DAP/reference	0.96965	0.465
52DAP/reference	2.05514	0.082
57DAP/reference	1.19468	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02676	0.966
26DAP/20DAP	1.07849	0.713
34DAP/26DAP	1.11844	1
51DAP/34DAP	1.1198	0.925
52DAP/51DAP	1.22496	0.396
53DAP/52DAP	1.26005	0.502
55DAP/53DAP	1.47068	0.422
57DAP/55DAP	1.28577	0.745
62DAP/57DAP	1.1921	0.678
68DAP/62DAP	1.31156	0.272
68DAP/14DAP	1.33958	0.558

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19858	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.2152	0.062
Mature Green Tomato/Ripe Tomato	0.76054	0.287
Immature Eggplant/Mature Eggplant	0.91504	0.448
Ripe Pepper/Ripe Tomato	3.76973	0.258
Mature Eggplant/Ripe Tomato	0.98222	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04899	0.877
1-1-2/M82	0.96846	0.958
12-2/M82	1.02019	1
12-4/M82	0.93531	1
1-3/M82	0.9475	0.501
2-1-1/M82	1.03482	1
2-1/M82	0.91951	1
2-6/M82	1.0471	0.594
3-2/M82	1.04198
4-1-1/M82	0.99503	1
4-1/M82	1.37541	1
4-3-2/M82	N/A	N/A
4-3/M82	1.06048	1
5-3/M82	1.03831	1
6-2/M82	1.03437	1
6-3/M82	0.9919	1
7-1/M82	N/A	N/A
7-2/M82	0.98661	1
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	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.36333

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03648	0.914
DC3000/delta hrp 6h	0.92913	0.95
DC3000/delta hrp 12h	1.22561	1
DC3000/delta hrp 24h	1.02252	0.779

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	1.7884	0.146

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96715	1
Exp 36h	1.08636	1
Exp 60h	1.05143	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94836	1
Var 0h	10.4285	0.936
Var 12h I row2-row1	0.9317	0.705
Var 12h NI row2-row1	1.01771	1
Var 36h I row2-row1	1.35732	1
Var 36h NI row2-row1	1.30043	1
Var 60h I row2-row1	0.92025	0.952
Var 60h NI row2-row1	0.99726	1
Time course 0hI-0hNI	1.68038	0.852
Time course 12hI-12hNI	0.90919	0.522
Time course 36hI-36hNI	0.82841	0.055
Time course 60hI-60hNI	0.70695	0.047

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)	0.95712	0.485
transgenic ySAMdc/azygous control (breaker)	0.7607	0.142
transgenic ySAMdc/azygous control (red)	1.07993	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97856	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08932	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.53101	0.086
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.1582	1