Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.4.8.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05332	0.847
27DAP/17DAP	0.85543	0.658
39DAP/27DAP	0.85587	0.537
41DAP/39DAP	0.97139	0.911
42DAP/41DAP	1.1711	0.868
43DAP/42DAP	1.06159	1
47DAP/43DAP	1.46857	0.234
52DAP/47DAP	1.08253	0.989
57DAP/52DAP	1.05872	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99923	0.756
17DAP/reference	1.12341	0.138
27DAP/reference	0.96412	0.457
39DAP/reference	1.00335	1
41DAP/reference	1.10197	0.05
42DAP/reference	0.95199	0.188
43DAP/reference	1.01962	0.899
47DAP/reference	0.99386	0.602
52DAP/reference	0.90215	0.131
57DAP/reference	0.89927	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19839	0.213
27DAP/17DAP	0.96606	0.878
39DAP/27DAP	1.06087	0.526
41DAP/39DAP	0.99745	1
42DAP/41DAP	0.9447	0.538
43DAP/42DAP	0.92638	0.351
47DAP/43DAP	1.03118	0.934
52DAP/47DAP	1.05655	0.804
57DAP/52DAP	1.31662	0.143
57DAP/7DAP	1.21138	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05102	0.676
17DAP/reference	0.98499	0.518
27DAP/reference	1.08084	0.551
39DAP/reference	1.00698	0.64
41DAP/reference	1.11496	0.507
42DAP/reference	1.2361	0.405
43DAP/reference	1.06455	0.802
47DAP/reference	1.06318	0.685
52DAP/reference	1.15508	0.171
57DAP/reference	1.12692	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11195	0.164
17DAP/reference	0.99262	0.711
27DAP/reference	0.92811	0.257
39DAP/reference	1.00254	1
41DAP/reference	0.84112	0.091
42DAP/reference	0.78662	0.011
43DAP/reference	1.0954	0.453
47DAP/reference	0.97247	0.446
52DAP/reference	0.91967	0.302
57DAP/reference	1.02038	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02131	1
17DAP/reference	1.06382	0.602
27DAP/reference	1.14792	0.467
39DAP/reference	1.27471	0.067
41DAP/reference	1.14315	0.621
42DAP/reference	0.93833	0.445
43DAP/reference	0.89892	0.281
47DAP/reference	1.0294	0.704
52DAP/reference	0.97021	0.65
57DAP/reference	0.84	0.09

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99089	1
26DAP/20DAP	1.60311	0.156
34DAP/26DAP	0.83495	0.462
51DAP/34DAP	1.04386	0.829
52DAP/51DAP	0.7822	0.151
53DAP/52DAP	0.98181	0.902
55DAP/53DAP	1.13427	0.325
57DAP/55DAP	0.97591	0.823
62DAP/57DAP	1.13738	0.8
68DAP/62DAP	0.93137	0.747
68DAP/14DAP	1.06371	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19109	0.047

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73485	0.295
Mature Green Tomato/Ripe Tomato	0.97517	0.715
Immature Eggplant/Mature Eggplant	1.14419	0.554
Ripe Pepper/Ripe Tomato	0.60807	0.293
Mature Eggplant/Ripe Tomato	1.22285	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09246	N/A
1-1-2/M82	0.94441	N/A
12-2/M82	N/A	N/A
12-4/M82	0.77772	0.272
1-3/M82	0.72574	N/A
2-1-1/M82	0.83437	N/A
2-1/M82	N/A	N/A
2-6/M82	0.94315	1
3-2/M82	0.9276	N/A
4-1-1/M82	0.95781	N/A
4-1/M82	1.57156	N/A
4-3-2/M82	0.64937	N/A
4-3/M82	1.6134	N/A
5-3/M82	0.93917	1
6-2/M82	1.22825	N/A
6-3/M82	0.98943	1
7-1/M82	N/A	N/A
7-2/M82	1.14623	N/A
9-3-2/M82	0.89408	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12439	0.277
IL2-6/WTpooled	1.36197	0.659
IL7-5/WTpooled	0.85634	1
IL7-3/WTpooled	0.86203	0.293
IL12-4/WTpooled	1.18645	0.891
IL1-4/WTpooled	0.75604	0.415
WT/WTpooled	1.01107	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	0.87524	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0022	1
DC3000/delta hrp 6h	1.04322	1
DC3000/delta hrp 12h	1.04282	1
DC3000/delta hrp 24h	1.32703	0.182

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.33048	0.042
DC3000 delta B/DC3000 delta AB	1.31973	0.118

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02835	1
Exp 36h	1.28828	1
Exp 60h	1.06108	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03697	1
Var 0h	0.40935	0.196
Var 12h I row2-row1	1.02356	1
Var 12h NI row2-row1	1.13736	0.34
Var 36h I row2-row1	1.19873	0.309
Var 36h NI row2-row1	0.95559	0.706
Var 60h I row2-row1	0.77534	0.374
Var 60h NI row2-row1	0.94464	1
Time course 0hI-0hNI	1.02359	1
Time course 12hI-12hNI	1.04136	0.756
Time course 36hI-36hNI	1.03053	0.975
Time course 60hI-60hNI	1.15286	0.096

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)	0.99442	0.862
transgenic ySAMdc/azygous control (breaker)	0.88995	0.173
transgenic ySAMdc/azygous control (red)	0.91942	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00034	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65567	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86166	0.172
Manapal/WT (break)	0.83285	0.333
Manapal/WT (red)	0.7786	0.242