Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.15.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09156	0.77
27DAP/17DAP	1.10779	0.88
39DAP/27DAP	0.67562	0.335
41DAP/39DAP	1.49531	0.268
42DAP/41DAP	1.02722	1
43DAP/42DAP	0.99195	0.931
47DAP/43DAP	1.0596	0.909
52DAP/47DAP	1.04803	0.991
57DAP/52DAP	0.97643	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89887	0.044
17DAP/reference	1.01744	0.717
27DAP/reference	1.07765	0.314
39DAP/reference	1.02192	0.722
41DAP/reference	0.96205	0.542
42DAP/reference	0.86918	0.022
43DAP/reference	0.93752	0.2
47DAP/reference	0.92994	0.098
52DAP/reference	0.83103	0.118
57DAP/reference	0.99447	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90125	0.415
27DAP/17DAP	1.4486	0.822
39DAP/27DAP	1.16607	0.526
41DAP/39DAP	1.03223	0.997
42DAP/41DAP	1.04106	0.893
43DAP/42DAP	1.35346	0.478
47DAP/43DAP	1.04475	1
52DAP/47DAP	0.93078	0.77
57DAP/52DAP	0.96996	0.742
57DAP/7DAP	0.83468	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18031	0.246
17DAP/reference	1.45816	0.01
27DAP/reference	1.50047	0.007
39DAP/reference	1.42464	0.02
41DAP/reference	1.22775	0.034
42DAP/reference	1.45403	0.016
43DAP/reference	1.72874	0.008
47DAP/reference	1.27804	0.525
52DAP/reference	1.5427	0.007
57DAP/reference	1.59692	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94105	0.475
17DAP/reference	0.81381	0.159
27DAP/reference	0.82988	0.081
39DAP/reference	0.80423	0.055
41DAP/reference	0.82212	0.067
42DAP/reference	0.87473	0.169
43DAP/reference	0.87444	0.212
47DAP/reference	0.96652	0.434
52DAP/reference	0.98207	0.5
57DAP/reference	0.86632	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45328	0.025
17DAP/reference	1.13408	0.572
27DAP/reference	1.54145	0.025
39DAP/reference	1.5446	0.01
41DAP/reference	1.46275	0.018
42DAP/reference	1.28586	0.209
43DAP/reference	1.39247	0.403
47DAP/reference	0.94681	0.278
52DAP/reference	1.27832	0.33
57DAP/reference	1.03766	0.509

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94776	1
26DAP/20DAP	1.16305	0.558
34DAP/26DAP	0.76762	0.394
51DAP/34DAP	0.98892	0.911
52DAP/51DAP	1.11835	0.676
53DAP/52DAP	0.94385	0.684
55DAP/53DAP	1.0708	0.755
57DAP/55DAP	0.85495	0.545
62DAP/57DAP	1.15156	0.833
68DAP/62DAP	0.7952	0.345
68DAP/14DAP	0.68735	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79105	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.8644	0.058
Mature Green Tomato/Ripe Tomato	0.90893	0.522
Immature Eggplant/Mature Eggplant	0.55062	0.057
Ripe Pepper/Ripe Tomato	0.70086
Mature Eggplant/Ripe Tomato	1.62436	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03924	1
1-1-2/M82	0.89307	1
12-2/M82	1.0339
12-4/M82	0.92782	1
1-3/M82	0.95262	0.501
2-1-1/M82	1.09755
2-1/M82	1.07885	1
2-6/M82	1.12929	0.594
3-2/M82	N/A	N/A
4-1-1/M82	0.99615	1
4-1/M82	1.05474
4-3-2/M82	0.93154	1
4-3/M82	1.30941	1
5-3/M82	0.98516	1
6-2/M82	0.99737	1
6-3/M82	0.95206	1
7-1/M82	0.94332	1
7-2/M82	1.03778	1
9-3-2/M82	0.73362	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95477	1
IL2-6/WTpooled	1.33844	0.456
IL7-5/WTpooled	1.95442	0.792
IL7-3/WTpooled	0.7136	0.31
IL12-4/WTpooled	1.09824	0.503
IL1-4/WTpooled	1.08034	1
WT/WTpooled	0.90563	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	0.64958	0.201

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88196	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.2614	1
DC3000/delta hrp 24h	1.12155	0.422

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	1.23591	0.714

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.06285	1
Exp 60h	1.16903	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98083	1
Var 0h	0.93906	0.933
Var 12h I row2-row1	0.9737	0.948
Var 12h NI row2-row1	0.88552	0.488
Var 36h I row2-row1	0.9123	0.805
Var 36h NI row2-row1	0.97555	0.791
Var 60h I row2-row1	1.7231	0.562
Var 60h NI row2-row1	1.15492	0.904
Time course 0hI-0hNI	0.98596	0.967
Time course 12hI-12hNI	0.93353	0.259
Time course 36hI-36hNI	0.80093	0.031
Time course 60hI-60hNI	0.68325	0.015

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)	0.92681	0.428
transgenic ySAMdc/azygous control (breaker)	0.90036	0.173
transgenic ySAMdc/azygous control (red)	0.82859	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99975	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9485	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92429	1
Manapal/WT (break)	1.01233	1
Manapal/WT (red)	1.19582	0.133