Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.3.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05845	0.798
27DAP/17DAP	1.05004	0.881
39DAP/27DAP	0.86342	0.449
41DAP/39DAP	0.89186	0.54
42DAP/41DAP	1.00826	1
43DAP/42DAP	0.93356	0.867
47DAP/43DAP	1.18868	0.463
52DAP/47DAP	1.27518	0.873
57DAP/52DAP	0.88748	0.702

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98698	0.661
17DAP/reference	0.95588	0.63
27DAP/reference	0.83853	0.339
39DAP/reference	0.91337
41DAP/reference	0.89789	0.341
42DAP/reference	0.94125	0.134
43DAP/reference	0.79105
47DAP/reference	0.88156	0.258
52DAP/reference	1.08873
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04014	0.736
27DAP/17DAP	0.92991	0.508
39DAP/27DAP	1.0583	0.548
41DAP/39DAP	1.13459	0.497
42DAP/41DAP	1.02776	0.916
43DAP/42DAP	0.99737	1
47DAP/43DAP	1.00935	0.957
52DAP/47DAP	1.00594	0.986
57DAP/52DAP	1.02633	0.856
57DAP/7DAP	1.09206	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98192	0.445
17DAP/reference	0.92442	0.011
27DAP/reference	0.9112	0.016
39DAP/reference	0.92879	0.013
41DAP/reference	0.83471	0.025
42DAP/reference	0.89613	0.151
43DAP/reference	0.92017	0.069
47DAP/reference	0.93895	0.383
52DAP/reference	0.92503	0.09
57DAP/reference	0.93559	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10344	0.098
17DAP/reference	0.97195	0.474
27DAP/reference	1.05307	0.639
39DAP/reference	1.02666	0.67
41DAP/reference	0.90774	0.16
42DAP/reference	0.91431	0.261
43DAP/reference	1.00037	0.875
47DAP/reference	0.84657	0.025
52DAP/reference	0.9573	0.239
57DAP/reference	1.03638	0.807

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90024	0.034
17DAP/reference	0.98102	0.499
27DAP/reference	0.96825	0.286
39DAP/reference	0.97137	0.179
41DAP/reference	0.93817	0.107
42DAP/reference	0.9918	0.816
43DAP/reference	0.97591	0.468
47DAP/reference	0.95285	0.348
52DAP/reference	0.91355	0.223
57DAP/reference	0.8758	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90069	0.773
26DAP/20DAP	0.95314	1
34DAP/26DAP	1.03659	1
51DAP/34DAP	0.92896	0.472
52DAP/51DAP	0.9992	1
53DAP/52DAP	1.01189	0.901
55DAP/53DAP	1.0338	0.982
57DAP/55DAP	1.03054	1
62DAP/57DAP	1.12362	0.935
68DAP/62DAP	0.95033	0.81
68DAP/14DAP	1.05917	0.739

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06803	0.7

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.63015	0.058
Mature Green Tomato/Ripe Tomato	1.15174	0.478
Immature Eggplant/Mature Eggplant	0.84558	0.075
Ripe Pepper/Ripe Tomato	0.33687	0.224
Mature Eggplant/Ripe Tomato	0.77065	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13309	0.877
1-1-2/M82	0.9207	1
12-2/M82	1.09987	1
12-4/M82	0.93468	1
1-3/M82	1.11898	1
2-1-1/M82	1.03592	1
2-1/M82	0.94784	1
2-6/M82	1.1072	0.695
3-2/M82	0.98649	1
4-1-1/M82	1.0262	1
4-1/M82	1.04578	1
4-3-2/M82	1.21549	1
4-3/M82	1.06933	1
5-3/M82	0.9565	1
6-2/M82	1.15944	1
6-3/M82	0.95445	1
7-1/M82	1.00195	1
7-2/M82	1.08867	1
9-3-2/M82	1.26712	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13963	0.493
IL2-6/WTpooled	1.02981	0.659
IL7-5/WTpooled	0.96174
IL7-3/WTpooled	1.16891	1
IL12-4/WTpooled	1.14354	0.785
IL1-4/WTpooled	0.92129	0.562
WT/WTpooled	0.94005	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	0.92256	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96713	1
DC3000/delta hrp 6h	0.89242	0.95
DC3000/delta hrp 12h	0.98098	1
DC3000/delta hrp 24h	1.17398	0.336

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0883	0.313
DC3000 delta B/DC3000 delta AB	1.046	0.544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.60336	1
Exp 36h	0.82716	0.539
Exp 60h	0.9019	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99421	1
Var 0h	1.13022	0.782
Var 12h I row2-row1	1.55982	0.473
Var 12h NI row2-row1	1.08771	1
Var 36h I row2-row1	1.03409	1
Var 36h NI row2-row1	0.62228	0.584
Var 60h I row2-row1	1.52416	1
Var 60h NI row2-row1	1.09172	0.904
Time course 0hI-0hNI	1.02021	0.867
Time course 12hI-12hNI	1.03153	0.818
Time course 36hI-36hNI	1.01164	0.881
Time course 60hI-60hNI	1.16481	0.029

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)	0.91678	0.286
transgenic ySAMdc/azygous control (breaker)	1.59384	0.172
transgenic ySAMdc/azygous control (red)	1.13813	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04384	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13468	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87439	1
Manapal/WT (break)	1.02565	1
Manapal/WT (red)	2.37916	0.133