Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9843	0.713
27DAP/17DAP	1.17456	0.864
39DAP/27DAP	0.78349	0.458
41DAP/39DAP	1.344	0.511
42DAP/41DAP	0.91216	1
43DAP/42DAP	1.08276	1
47DAP/43DAP	1.0827	0.913
52DAP/47DAP	1.19925	0.819
57DAP/52DAP	1.03339	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85889	0.085
17DAP/reference	0.94707	0.419
27DAP/reference	0.94942	0.484
39DAP/reference	1.03205	0.747
41DAP/reference	0.91531	0.434
42DAP/reference	0.94839	0.259
43DAP/reference	0.98202	0.728
47DAP/reference	0.98563	0.503
52DAP/reference	0.77084	0.058
57DAP/reference	0.84123	0.036

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23816	0.334
27DAP/17DAP	0.99167	0.919
39DAP/27DAP	1.11792	0.453
41DAP/39DAP	0.83826	0.495
42DAP/41DAP	1.15163	1
43DAP/42DAP	1.01101	1
47DAP/43DAP	1.04018	0.948
52DAP/47DAP	0.98769	0.935
57DAP/52DAP	1.04253	1
57DAP/7DAP	1.00239

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20285	0.119
17DAP/reference	1.02918	0.627
27DAP/reference	0.92453	0.013
39DAP/reference	0.93061	0.017
41DAP/reference	1.03681	0.614
42DAP/reference	1.00116	0.828
43DAP/reference	0.95238	0.21
47DAP/reference	0.93187	0.057
52DAP/reference	1.05375	0.636
57DAP/reference	1.01467	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88681	0.129
17DAP/reference	0.83763	0.083
27DAP/reference	0.87195	0.22
39DAP/reference	0.85337	0.243
41DAP/reference	0.94472	0.315
42DAP/reference	0.97275	0.482
43DAP/reference	0.97297	0.581
47DAP/reference	1.13548	0.256
52DAP/reference	0.9978	0.666
57DAP/reference	0.94346	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91437	0.147
17DAP/reference	0.94557	0.477
27DAP/reference	0.9871	0.566
39DAP/reference	0.99333	0.693
41DAP/reference	0.9776	0.371
42DAP/reference	0.86855	0.032
43DAP/reference	0.88503	0.319
47DAP/reference	1.09708	0.044
52DAP/reference	0.84066	0.163
57DAP/reference	0.85349	0.104

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02017	1
26DAP/20DAP	1.10522	0.689
34DAP/26DAP	0.91158	0.857
51DAP/34DAP	1.88991	0.098
52DAP/51DAP	0.67495	1
53DAP/52DAP	1.39224	0.608
55DAP/53DAP	1.28749
57DAP/55DAP	1.15907	0.287
62DAP/57DAP	0.94681	0.871
68DAP/62DAP	1.13619	0.788
68DAP/14DAP	2.79834	0.211

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.958	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.24899	0.068
Mature Green Tomato/Ripe Tomato	0.88047	0.377
Immature Eggplant/Mature Eggplant	1.75362	0.05
Ripe Pepper/Ripe Tomato	6.57781	0.258
Mature Eggplant/Ripe Tomato	1.69918

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87959	0.944
1-1-2/M82	1.04916	0.977
12-2/M82	0.99917	1
12-4/M82	0.89359	1
1-3/M82	0.66474
2-1-1/M82	0.7709
2-1/M82	N/A	N/A
2-6/M82	0.93323	1
3-2/M82	1.21096	0.84
4-1-1/M82	1.17774	1
4-1/M82	0.98168	1
4-3-2/M82	1.0961
4-3/M82	0.99756	1
5-3/M82	0.94257	1
6-2/M82	0.94891
6-3/M82	1.03617	1
7-1/M82	1.25006
7-2/M82	0.95873	1
9-3-2/M82	0.91684	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.326	0.277
IL2-6/WTpooled	0.69876	0.473
IL7-5/WTpooled	0.89952
IL7-3/WTpooled	1.41954	1
IL12-4/WTpooled	1.30492	0.532
IL1-4/WTpooled	0.81059	0.415
WT/WTpooled	1.10787	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	1.1423	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96821	1
DC3000/delta hrp 6h	1.71104	0.978
DC3000/delta hrp 12h	0.7853	1
DC3000/delta hrp 24h	1.01462	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	1.13126	1
Exp 36h	1.06586	0.693
Exp 60h	1.12958	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97968	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.9135	0.705
Var 12h NI row2-row1	1.06038	1
Var 36h I row2-row1	1.04853	1
Var 36h NI row2-row1	0.95226
Var 60h I row2-row1	0.76095	0.285
Var 60h NI row2-row1	0.87351	0.63
Time course 0hI-0hNI	1.08614	0.323
Time course 12hI-12hNI	1.04577	0.788
Time course 36hI-36hNI	1.12737	0.401
Time course 60hI-60hNI	2.8586	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)	0.89722	0.362
transgenic ySAMdc/azygous control (breaker)	1.00436	1
transgenic ySAMdc/azygous control (red)	1.00558	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97613	0.323

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94786	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90399	1
Manapal/WT (break)	0.82836	0.333
Manapal/WT (red)	0.88468	0.424