Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.6.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36588	0.281
27DAP/17DAP	0.82842	0.579
39DAP/27DAP	1.44492	0.21
41DAP/39DAP	0.98626	0.89
42DAP/41DAP	1.35008	0.737
43DAP/42DAP	1.05514	1
47DAP/43DAP	0.77116	0.326
52DAP/47DAP	1.24601	0.608
57DAP/52DAP	1.03235	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93624	0.308
17DAP/reference	1.19737	0.017
27DAP/reference	1.0454	0.539
39DAP/reference	1.07439	0.294
41DAP/reference	1.12879	0.022
42DAP/reference	0.89046	0.017
43DAP/reference	1.01435	0.787
47DAP/reference	0.95583	0.224
52DAP/reference	0.8765	0.135
57DAP/reference	0.91862	0.131

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49004	0.224
27DAP/17DAP	0.90517	0.614
39DAP/27DAP	1.01507	1
41DAP/39DAP	1.29213	0.362
42DAP/41DAP	0.91307	0.541
43DAP/42DAP	1.3627	0.03
47DAP/43DAP	1.05383	0.88
52DAP/47DAP	1.10748	0.779
57DAP/52DAP	1.20596	0.832
57DAP/7DAP	1.74437	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00445	1
17DAP/reference	0.86464	0.144
27DAP/reference	0.73379	0.01
39DAP/reference	1.411	0.013
41DAP/reference	1.17201	0.141
42DAP/reference	1.1578	0.059
43DAP/reference	1.42077	0.026
47DAP/reference	1.07782	0.685
52DAP/reference	1.6987	0.007
57DAP/reference	2.02821	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99484	0.884
17DAP/reference	0.88688	0.12
27DAP/reference	0.84815	0.123
39DAP/reference	0.87216	0.147
41DAP/reference	0.82378	0.045
42DAP/reference	0.90206	0.046
43DAP/reference	0.88859	0.166
47DAP/reference	0.90224	0.03
52DAP/reference	1.05285	0.208
57DAP/reference	1.05122	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99541	0.75
17DAP/reference	0.9053	0.389
27DAP/reference	0.71361	0.027
39DAP/reference	0.85853	0.046
41DAP/reference	0.83063	0.032
42DAP/reference	0.80748	0.134
43DAP/reference	0.77849	0.098
47DAP/reference	0.95041	0.421
52DAP/reference	1.01541	0.908
57DAP/reference	0.62312	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92566	1
26DAP/20DAP	1.10621
34DAP/26DAP	0.66327	0.803
51DAP/34DAP	1.32957	0.05
52DAP/51DAP	0.82685	1
53DAP/52DAP	1.07886	0.858
55DAP/53DAP	0.89384	0.544
57DAP/55DAP	0.81563	0.468
62DAP/57DAP	1.30158
68DAP/62DAP	0.73352	0.087
68DAP/14DAP	0.74655	0.078

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35777	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.85005	0.029
Immature Eggplant/Mature Eggplant	1.15545
Ripe Pepper/Ripe Tomato	0.77021
Mature Eggplant/Ripe Tomato	0.42425

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07781
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.92347	1
1-3/M82	0.94145
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.77388	0.501
3-2/M82	1.25304
4-1-1/M82	N/A	N/A
4-1/M82	1.18456
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.79984	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.25564
7-2/M82	0.78325
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94624	1
IL2-6/WTpooled	1.06202	0.659
IL7-5/WTpooled	0.9498	1
IL7-3/WTpooled	0.99537	1
IL12-4/WTpooled	0.84427	0.71
IL1-4/WTpooled	1.07468	1
WT/WTpooled	0.88375	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	1.22571	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01016	1
DC3000/delta hrp 6h	0.67557	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.01175	1

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	0.78204	1
Exp 36h	1.31997	0.693
Exp 60h	1.16627	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.16012	1
Var 0h	1.00177	1
Var 12h I row2-row1	1.05972	0.58
Var 12h NI row2-row1	1.5184	0.649
Var 36h I row2-row1	0.92148	1
Var 36h NI row2-row1	0.85916	0.272
Var 60h I row2-row1	0.931	0.952
Var 60h NI row2-row1	1.07783	0.904
Time course 0hI-0hNI	0.96852	0.873
Time course 12hI-12hNI	1.01053	0.888
Time course 36hI-36hNI	1.08728	0.128
Time course 60hI-60hNI	2.41407	0.01

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)	0.95345	0.454
transgenic ySAMdc/azygous control (breaker)	0.75995	0.139
transgenic ySAMdc/azygous control (red)	0.96868	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00217	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8141	1
Manapal/WT (break)	0.89213	1
Manapal/WT (red)	N/A	N/A