Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.8.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.58802	0.523
27DAP/17DAP	1.37227	0.656
39DAP/27DAP	0.93983	0.663
41DAP/39DAP	1.02844	0.949
42DAP/41DAP	1.06178	1
43DAP/42DAP	1.24681	0.756
47DAP/43DAP	0.91529	0.696
52DAP/47DAP	1.01785	0.934
57DAP/52DAP	0.8403	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80149	0.068
17DAP/reference	0.88787	0.12
27DAP/reference	1.0501	0.934
39DAP/reference	1.02346	0.786
41DAP/reference	0.87228	0.065
42DAP/reference	0.87061	0.059
43DAP/reference	0.92148	0.316
47DAP/reference	0.88626	0.065
52DAP/reference	0.93131	0.382
57DAP/reference	1.12187	0.321

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34748	0.445
27DAP/17DAP	0.85984	0.724
39DAP/27DAP	0.78081	0.3
41DAP/39DAP	1.04308	1
42DAP/41DAP	0.9889	0.737
43DAP/42DAP	0.98164	0.729
47DAP/43DAP	1.08552	0.941
52DAP/47DAP	0.80542	0.452
57DAP/52DAP	0.99706	0.804
57DAP/7DAP	1.69287

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92224	0.445
17DAP/reference	1.03199	0.599
27DAP/reference	1.16353	0.16
39DAP/reference	0.98068	0.552
41DAP/reference	1.04847	0.741
42DAP/reference	1.07078	1
43DAP/reference	1.01489	0.764
47DAP/reference	0.97206	0.671
52DAP/reference	0.8877	0.254
57DAP/reference	0.96779	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87301	0.152
17DAP/reference	0.92163	0.287
27DAP/reference	0.9124	0.229
39DAP/reference	1.08366	0.848
41DAP/reference	1.04112	1
42DAP/reference	0.94186	0.355
43DAP/reference	1.04019	1
47DAP/reference	0.87227	0.017
52DAP/reference	1.08692	0.322
57DAP/reference	0.91732	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41362	0.329
17DAP/reference	0.87858	0.136
27DAP/reference	0.75405	0.243
39DAP/reference	1.40371	0.353
41DAP/reference	0.86071	0.459
42DAP/reference	0.807	0.361
43DAP/reference	0.82382	0.125
47DAP/reference	0.91358	0.183
52DAP/reference	0.99618	0.888
57DAP/reference	1.27707	0.204

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12506	0.407
26DAP/20DAP	0.85066	1
34DAP/26DAP	1.14284	0.542
51DAP/34DAP	1.96773	0.597
52DAP/51DAP	0.90214	1
53DAP/52DAP	1.84487	0.398
55DAP/53DAP	1.1844	0.834
57DAP/55DAP	0.90297	0.67
62DAP/57DAP	0.94819	0.871
68DAP/62DAP	1.0772	0.945
68DAP/14DAP	1.05201	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24035	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.44693	0.079
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.82722

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.57747
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.00621	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88522	0.321
IL2-6/WTpooled	1.00486	1
IL7-5/WTpooled	0.67543	1
IL7-3/WTpooled	0.94506	1
IL12-4/WTpooled	0.73533	0.478
IL1-4/WTpooled	0.9347	0.834
WT/WTpooled	0.92598	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	1.07966	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.33734	0.846
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.92032	1
DC3000/delta hrp 24h	1.75833	0.079

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.11853
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	0.66932	1
Exp 36h	N/A	N/A
Exp 60h	1.06884	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01236	1
Var 0h	0.96059	1
Var 12h I row2-row1	1.21494	0.506
Var 12h NI row2-row1	1.15404	0.649
Var 36h I row2-row1	1.37267	0.601
Var 36h NI row2-row1	0.62741	0.61
Var 60h I row2-row1	0.7778	0.439
Var 60h NI row2-row1	0.67357	0.69
Time course 0hI-0hNI	0.95201	0.751
Time course 12hI-12hNI	1.23591	0.308
Time course 36hI-36hNI	1.39349	0.08
Time course 60hI-60hNI	2.01608	0.008

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)	1.04334	0.305
transgenic ySAMdc/azygous control (breaker)	0.75675	0.251
transgenic ySAMdc/azygous control (red)	1.16761	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03426	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75204	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75395	0.172
Manapal/WT (break)	1.18467	1
Manapal/WT (red)	0.95477	0.607