Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.8.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05089	0.904
27DAP/17DAP	0.81775	0.522
39DAP/27DAP	0.75288	0.537
41DAP/39DAP	1.18339	0.569
42DAP/41DAP	1.26117	0.843
43DAP/42DAP	1.18321	1
47DAP/43DAP	0.83557	0.487
52DAP/47DAP	1.00169	0.886
57DAP/52DAP	0.81372	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95626	0.465
17DAP/reference	1.04806	0.492
27DAP/reference	1.06255	0.529
39DAP/reference	1.21344	0.098
41DAP/reference	1.01645	1
42DAP/reference	0.99509	0.517
43DAP/reference	1.14294	0.163
47DAP/reference	1.19844	0.001
52DAP/reference	1.22229	0.079
57DAP/reference	1.1593	0.127

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11265	0.438
27DAP/17DAP	0.85058	0.164
39DAP/27DAP	1.00118	1
41DAP/39DAP	1.07146	0.849
42DAP/41DAP	1.02661	1
43DAP/42DAP	0.96106	0.641
47DAP/43DAP	0.98888	0.954
52DAP/47DAP	1.04539	0.856
57DAP/52DAP	0.99633	0.818
57DAP/7DAP	2.29197	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44017	0.061
17DAP/reference	1.1948	0.399
27DAP/reference	1.07881	0.371
39DAP/reference	1.7409	0.009
41DAP/reference	1.1485	0.416
42DAP/reference	1.23951	0.405
43DAP/reference	1.16409	0.273
47DAP/reference	1.47483	0.118
52DAP/reference	1.70569	0.015
57DAP/reference	1.5366	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15857	0.569
17DAP/reference	0.98187	0.626
27DAP/reference	0.99709	0.735
39DAP/reference	0.96754	0.442
41DAP/reference	0.70381	0.089
42DAP/reference	0.92997	0.15
43DAP/reference	1.19418	0.121
47DAP/reference	1.10839	0.282
52DAP/reference	0.93107	0.407
57DAP/reference	0.94412	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16203	0.338
17DAP/reference	0.98029	0.709
27DAP/reference	1.04527	0.575
39DAP/reference	1.00495	0.819
41DAP/reference	0.95615	0.56
42DAP/reference	1.15162	0.265
43DAP/reference	1.01351	1
47DAP/reference	1.91473	0.339
52DAP/reference	1.26142	0.436
57DAP/reference	1.18	0.332

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.66367	0.56
26DAP/20DAP	1.2497	0.22
34DAP/26DAP	1.25649	0.542
51DAP/34DAP	1.18293	0.637
52DAP/51DAP	0.68419	1
53DAP/52DAP	1.09977	0.307
55DAP/53DAP	1.00687	1
57DAP/55DAP	1.0388	0.872
62DAP/57DAP	0.94369	0.994
68DAP/62DAP	1.99126	0.31
68DAP/14DAP	2.29265	0.045

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.28637	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.0457	0.835
Immature Eggplant/Mature Eggplant	1.13975	0.222
Ripe Pepper/Ripe Tomato	0.45277	0.293
Mature Eggplant/Ripe Tomato	0.27033	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05014	1
1-1-2/M82	1.11511
12-2/M82	N/A	N/A
12-4/M82	0.80386	0.358
1-3/M82	N/A	N/A
2-1-1/M82	0.89207	0.92
2-1/M82	1.24532
2-6/M82	0.90554
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	1.0428	1
5-3/M82	1.06659	1
6-2/M82	N/A	N/A
6-3/M82	0.81626	0.982
7-1/M82	0.90244
7-2/M82	1.0191	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.56433
IL1-4/WTpooled	1.1395	1
WT/WTpooled	1.20857	0.999

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	1.21681	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.21154	0.921
DC3000/delta hrp 6h	0.87793	0.95
DC3000/delta hrp 12h	0.94582	1
DC3000/delta hrp 24h	0.8657	0.163

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	1.13527	0.377

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13739	1
Exp 36h	1.00137	1
Exp 60h	1.02094	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.87875	1
Var 0h	1.27826	0.421
Var 12h I row2-row1	1.0319	0.795
Var 12h NI row2-row1	1.02792	1
Var 36h I row2-row1	0.73253	1
Var 36h NI row2-row1	1.09625	0.482
Var 60h I row2-row1	0.93353	0.952
Var 60h NI row2-row1	0.9805	1
Time course 0hI-0hNI	0.98467	0.962
Time course 12hI-12hNI	0.98279	0.909
Time course 36hI-36hNI	1.01735	1
Time course 60hI-60hNI	0.86429	0.047

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)	0.91246	0.409
transgenic ySAMdc/azygous control (breaker)	0.95701	1
transgenic ySAMdc/azygous control (red)	0.97396	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.49391	0.037

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.79645	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.57367	0.083
Manapal/WT (break)	1.55153	0.183
Manapal/WT (red)	1.53673	0.126