Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.15.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78498	0.347
27DAP/17DAP	1.59902	0.677
39DAP/27DAP	1.24247	0.845
41DAP/39DAP	0.98955	0.944
42DAP/41DAP	1.04478	1
43DAP/42DAP	1.01176	0.925
47DAP/43DAP	1.30115	0.756
52DAP/47DAP	1.13124	0.801
57DAP/52DAP	1.09996	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87046	0.078
17DAP/reference	0.89869	0.085
27DAP/reference	0.99153	0.741
39DAP/reference	0.92118	0.267
41DAP/reference	0.86744	0.01
42DAP/reference	0.88739	0.017
43DAP/reference	0.9533	0.429
47DAP/reference	0.99223	0.568
52DAP/reference	1.17436	0.062
57DAP/reference	1.1768	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91524	0.542
27DAP/17DAP	0.54474
39DAP/27DAP	0.94409	0.821
41DAP/39DAP	1.2241	0.152
42DAP/41DAP	0.66788	0.098
43DAP/42DAP	1.88071	0.23
47DAP/43DAP	1.00163	0.954
52DAP/47DAP	1.0477	0.975
57DAP/52DAP	1.97289	0.315
57DAP/7DAP	1.08533	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94469	0.361
17DAP/reference	1.20612	0.123
27DAP/reference	0.91252	0.146
39DAP/reference	0.9374	0.307
41DAP/reference	0.88916	0.184
42DAP/reference	1.13846	0.174
43DAP/reference	1.33014	0.212
47DAP/reference	1.02957	1
52DAP/reference	1.07178	0.352
57DAP/reference	1.03301	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9572	0.607
17DAP/reference	0.86798	0.095
27DAP/reference	0.88022	0.104
39DAP/reference	0.97628	0.469
41DAP/reference	0.92999	0.127
42DAP/reference	0.90588	0.039
43DAP/reference	1.0401	0.787
47DAP/reference	0.8795	0.019
52DAP/reference	0.89742	0.029
57DAP/reference	0.93466	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11612	0.493
17DAP/reference	0.91057	0.381
27DAP/reference	1.19679	0.34
39DAP/reference	1.05175	0.512
41DAP/reference	0.90242	0.331
42DAP/reference	0.9897	0.816
43DAP/reference	0.874	0.171
47DAP/reference	1.03467	0.501
52DAP/reference	1.17332	0.393
57DAP/reference	1.29542	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2141	0.362
26DAP/20DAP	0.79604	0.512
34DAP/26DAP	0.76494	0.816
51DAP/34DAP	0.9275	0.606
52DAP/51DAP	1.66176	0.323
53DAP/52DAP	1.00112	0.96
55DAP/53DAP	1.11713	0.842
57DAP/55DAP	0.9401	0.783
62DAP/57DAP	1.0291	1
68DAP/62DAP	1.72302	0.1
68DAP/14DAP	1.25155	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07185	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.19232
Ripe Pepper/Ripe Tomato	0.26419	1
Mature Eggplant/Ripe Tomato	0.27148	0.234

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	N/A	N/A
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	0.80972
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	N/A	N/A
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	0.83838	0.321
IL2-6/WTpooled	0.83189	0.473
IL7-5/WTpooled	1.12716	1
IL7-3/WTpooled	1.31255	0.362
IL12-4/WTpooled	1.17549	0.538
IL1-4/WTpooled	1.20148
WT/WTpooled	1.01357	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	1.09339

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97953	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03975	1
DC3000/delta hrp 24h	1.07345	0.595

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.05782	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.11488
Var 0h	1.19057	0.201
Var 12h I row2-row1	1.01284	0.324
Var 12h NI row2-row1	0.45819
Var 36h I row2-row1	1.15536	0.908
Var 36h NI row2-row1	0.58503	0.645
Var 60h I row2-row1	0.92769	0.952
Var 60h NI row2-row1	0.80556	0.69
Time course 0hI-0hNI	1.07703	0.833
Time course 12hI-12hNI	0.59499	0.581
Time course 36hI-36hNI	1.21435	0.881
Time course 60hI-60hNI	1.0144	1

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)	1.41757	0.289
transgenic ySAMdc/azygous control (breaker)	0.6221	0.142
transgenic ySAMdc/azygous control (red)	1.3457	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97481	0.256

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75941	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69788	1
Manapal/WT (break)	0.67746	1
Manapal/WT (red)	0.65639	0.181