Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.3.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78551	0.144
27DAP/17DAP	1.17903	0.839
39DAP/27DAP	0.99859	0.798
41DAP/39DAP	1.06649	0.88
42DAP/41DAP	1.3814	0.722
43DAP/42DAP	1.2116	0.867
47DAP/43DAP	1.20548	0.569
52DAP/47DAP	0.78726	0.489
57DAP/52DAP	1.07113	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07646	0.544
17DAP/reference	0.95509	0.474
27DAP/reference	1.12541	0.925
39DAP/reference	0.88628	0.315
41DAP/reference	0.77179	0.114
42DAP/reference	1.05156	1
43DAP/reference	1.18826
47DAP/reference	1.08673	0.161
52DAP/reference	0.98675	0.654
57DAP/reference	3.69491

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91757	0.238
27DAP/17DAP	0.91789	0.748
39DAP/27DAP	0.85831	0.388
41DAP/39DAP	1.04738	0.883
42DAP/41DAP	0.90959	0.478
43DAP/42DAP	1.18113	0.273
47DAP/43DAP	1.10276	0.318
52DAP/47DAP	1.16385	0.639
57DAP/52DAP	1.18276	0.407
57DAP/7DAP	1.80443	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13059	0.241
17DAP/reference	0.84782	0.124
27DAP/reference	0.82091	0.023
39DAP/reference	0.89064	0.073
41DAP/reference	0.8266	0.16
42DAP/reference	0.9823	0.554
43DAP/reference	0.95998	0.321
47DAP/reference	1.1312	0.292
52DAP/reference	0.87998	0.137
57DAP/reference	1.0213	0.775

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00046	0.907
17DAP/reference	1.25192	0.151
27DAP/reference	1.18328	0.195
39DAP/reference	1.03659	0.848
41DAP/reference	1.08072	0.846
42DAP/reference	1.18059	0.136
43DAP/reference	1.09392	0.641
47DAP/reference	1.2615	0.019
52DAP/reference	0.94367	0.28
57DAP/reference	0.99595	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09392	0.545
17DAP/reference	0.99015	0.751
27DAP/reference	0.91477	0.357
39DAP/reference	1.04475	0.987
41DAP/reference	0.89177	0.293
42DAP/reference	1.07006	0.877
43DAP/reference	0.99751	0.796
47DAP/reference	1.06182	0.61
52DAP/reference	1.69632	0.102
57DAP/reference	1.09336	0.223

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01361	1
26DAP/20DAP	1.02618	1
34DAP/26DAP	0.96358	0.961
51DAP/34DAP	1.90436	0.055
52DAP/51DAP	1.11164	0.596
53DAP/52DAP	1.06991	0.738
55DAP/53DAP	0.69664	0.293
57DAP/55DAP	1.59027	0.104
62DAP/57DAP	0.71987	0.088
68DAP/62DAP	1.10089	1
68DAP/14DAP	1.50191	0.211

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.46624	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.5186	0.103
Mature Green Tomato/Ripe Tomato	0.9125	0.487
Immature Eggplant/Mature Eggplant	1.0014	1
Ripe Pepper/Ripe Tomato	2.23822	0.258
Mature Eggplant/Ripe Tomato	1.73891	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23603	0.877
1-1-2/M82	1.05834
12-2/M82	1.0781	1
12-4/M82	0.73804	0.358
1-3/M82	N/A	N/A
2-1-1/M82	1.01403
2-1/M82	N/A	N/A
2-6/M82	1.54	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.06159	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.5327	1
5-3/M82	0.69192	0.395
6-2/M82	1.10296
6-3/M82	N/A	N/A
7-1/M82	0.931
7-2/M82	1.34418	0.385
9-3-2/M82	1.39892

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.39842	0.277
IL2-6/WTpooled	0.2855	0.348
IL7-5/WTpooled	0.89238	1
IL7-3/WTpooled	0.72328	0.31
IL12-4/WTpooled	1.20844	0.891
IL1-4/WTpooled	0.61182	0.415
WT/WTpooled	1.09063	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	1.0541	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97477	1
DC3000/delta hrp 6h	0.99068	0.95
DC3000/delta hrp 12h	1.02307	1
DC3000/delta hrp 24h	0.77264	0.072

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.70645	0.031
DC3000 delta B/DC3000 delta AB	0.82934	0.117

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.925	1
Exp 36h	1.28914	0.371
Exp 60h	1.23632	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01379	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.77634	0.39
Var 12h NI row2-row1	0.95809	0.906
Var 36h I row2-row1	0.81825	1
Var 36h NI row2-row1	1.06651	1
Var 60h I row2-row1	0.74462
Var 60h NI row2-row1	0.91801	0.977
Time course 0hI-0hNI	0.99648	1
Time course 12hI-12hNI	0.92721	0.47
Time course 36hI-36hNI	0.78733	0.023
Time course 60hI-60hNI	0.20892	0.005

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)	1.01936	0.863
transgenic ySAMdc/azygous control (breaker)	1.12332	1
transgenic ySAMdc/azygous control (red)	1.12379	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99066	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.47512	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32077	0.096
Manapal/WT (break)	1.62286	0.13
Manapal/WT (red)	1.52169	0.133