Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.638	0.014
27DAP/17DAP	0.98027	0.994
39DAP/27DAP	0.88298	0.608
41DAP/39DAP	1.05112	0.212
42DAP/41DAP	1.1372	1
43DAP/42DAP	1.01828	1
47DAP/43DAP	1.02514	0.972
52DAP/47DAP	1.39861	0.509
57DAP/52DAP	0.99922	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1373	0.384
17DAP/reference	1.04857	0.138
27DAP/reference	1.01512	0.831
39DAP/reference	1.00523	0.828
41DAP/reference	0.9788	0.667
42DAP/reference	0.90943	0.007
43DAP/reference	0.9673	0.631
47DAP/reference	1.01106	1
52DAP/reference	0.91685	0.319
57DAP/reference	0.87377	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81429	0.103
27DAP/17DAP	1.06882	0.775
39DAP/27DAP	1.10088	0.519
41DAP/39DAP	0.89722	0.645
42DAP/41DAP	1.08509	0.334
43DAP/42DAP	1.03996	0.664
47DAP/43DAP	1.02749	0.92
52DAP/47DAP	1.0482	0.823
57DAP/52DAP	0.92287	0.501
57DAP/7DAP	1.25043	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.97388	0.03
17DAP/reference	1.55261	0.009
27DAP/reference	1.22613	0.197
39DAP/reference	1.43024	0.008
41DAP/reference	1.36029	0.035
42DAP/reference	1.42012	0.018
43DAP/reference	1.54556	0.013
47DAP/reference	1.2026	0.421
52DAP/reference	1.48848	0.011
57DAP/reference	1.40781	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06176	0.443
17DAP/reference	0.95466	0.223
27DAP/reference	0.9095	0.188
39DAP/reference	0.89726	0.202
41DAP/reference	0.93298	0.164
42DAP/reference	0.8858	0.039
43DAP/reference	0.93595	0.224
47DAP/reference	0.95095	0.113
52DAP/reference	0.9641	0.203
57DAP/reference	0.98423	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24693	0.172
17DAP/reference	1.04158	0.932
27DAP/reference	1.16009	0.156
39DAP/reference	1.14807	0.13
41DAP/reference	1.15126	0.657
42DAP/reference	0.82777	0.22
43DAP/reference	1.13526	0.895
47DAP/reference	0.91111	0.168
52DAP/reference	1.15465	0.457
57DAP/reference	0.72592	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96422	1
26DAP/20DAP	0.87015	0.512
34DAP/26DAP	1.06321	1
51DAP/34DAP	1.12995	0.637
52DAP/51DAP	0.90975	1
53DAP/52DAP	1.00098	1
55DAP/53DAP	0.98006	0.807
57DAP/55DAP	1.20895	0.07
62DAP/57DAP	1.03191	0.868
68DAP/62DAP	1.03866	0.878
68DAP/14DAP	0.98393	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70037	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.80656	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.16607	0.293
Mature Eggplant/Ripe Tomato	0.0658	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9624	0.944
1-1-2/M82	0.91267	1
12-2/M82	1.02276	1
12-4/M82	0.92865	1
1-3/M82	0.82249	0.378
2-1-1/M82	1.08254	0.764
2-1/M82	1.35928	1
2-6/M82	1.09997	0.695
3-2/M82	0.90634	1
4-1-1/M82	0.95756	1
4-1/M82	0.88137	1
4-3-2/M82	1.08134	1
4-3/M82	1.04207	1
5-3/M82	0.87469	0.447
6-2/M82	1.05953
6-3/M82	0.9707	1
7-1/M82	0.976	1
7-2/M82	1.02516	1
9-3-2/M82	0.90285	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95067
IL2-6/WTpooled	1.03725	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.99432	1
IL12-4/WTpooled	1.04299	1
IL1-4/WTpooled	0.9683
WT/WTpooled	0.97744	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	1.05107	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96168	0.868
DC3000/delta hrp 6h	1.08174	1
DC3000/delta hrp 12h	0.98237	1
DC3000/delta hrp 24h	1.02954	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61717	0.025
DC3000 delta B/DC3000 delta AB	0.74133	0.024

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95294	1
Exp 36h	1.40443	0.409
Exp 60h	1.27233	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97622	1
Var 0h	1.03662	1
Var 12h I row2-row1	0.9342	0.856
Var 12h NI row2-row1	0.94654	0.82
Var 36h I row2-row1	1.10385	1
Var 36h NI row2-row1	1.10889	1
Var 60h I row2-row1	0.99103	1
Var 60h NI row2-row1	1.08977	0.904
Time course 0hI-0hNI	0.96967	0.852
Time course 12hI-12hNI	0.9536	0.592
Time course 36hI-36hNI	0.86919	0.099
Time course 60hI-60hNI	0.40938	0.006

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)	0.98826	0.862
transgenic ySAMdc/azygous control (breaker)	1.3196	0.248
transgenic ySAMdc/azygous control (red)	1.01099	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95947	0.128

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17906	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31065	0.093
Manapal/WT (break)	1.05418	1
Manapal/WT (red)	0.8266	0.187