Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.15.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03755	0.893
27DAP/17DAP	0.99941	1
39DAP/27DAP	0.85552	0.458
41DAP/39DAP	1.32826	0.483
42DAP/41DAP	0.95293	1
43DAP/42DAP	0.91764	0.751
47DAP/43DAP	1.15963	0.448
52DAP/47DAP	1.28022	0.597
57DAP/52DAP	0.86735	0.613

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43643	0.008
17DAP/reference	1.39334	0.014
27DAP/reference	1.25285	0.146
39DAP/reference	1.0908	0.453
41DAP/reference	1.81296	0.013
42DAP/reference	1.41629	0.001
43DAP/reference	1.17673	0.34
47DAP/reference	1.21166	0.02
52DAP/reference	1.41048	0.033
57DAP/reference	1.06059	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19529	0.05
27DAP/17DAP	0.97865	0.782
39DAP/27DAP	1.06583	0.56
41DAP/39DAP	0.97428	0.973
42DAP/41DAP	0.96995	0.752
43DAP/42DAP	0.98424	0.875
47DAP/43DAP	1.01649	0.906
52DAP/47DAP	1.04187	0.862
57DAP/52DAP	0.9773	0.737
57DAP/7DAP	1.01481	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80158	0.146
17DAP/reference	0.78052	0.012
27DAP/reference	0.80203	0.013
39DAP/reference	0.86387	0.011
41DAP/reference	0.84154	0.043
42DAP/reference	0.74346	0.01
43DAP/reference	0.77708	0.011
47DAP/reference	0.94893	0.671
52DAP/reference	0.76063	0.012
57DAP/reference	0.75696	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44205	0.117
17DAP/reference	1.62591	0.013
27DAP/reference	1.33451	0.041
39DAP/reference	1.33714	0.019
41DAP/reference	1.33779	0.02
42DAP/reference	1.41547	0.027
43DAP/reference	1.48904	0.05
47DAP/reference	1.36726	0.008
52DAP/reference	1.55253	0.007
57DAP/reference	1.75893	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95652	0.455
17DAP/reference	1.11675	0.572
27DAP/reference	0.83822	0.032
39DAP/reference	0.83108	0.083
41DAP/reference	0.90797	0.209
42DAP/reference	0.86757	0.287
43DAP/reference	1.03123	0.767
47DAP/reference	1.39292	0.06
52DAP/reference	0.82451	0.247
57DAP/reference	0.71117	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.47505	0.966
26DAP/20DAP	0.97964	1
34DAP/26DAP	1.10861	0.819
51DAP/34DAP	0.99834	0.946
52DAP/51DAP	1.03538	0.783
53DAP/52DAP	0.97496	0.891
55DAP/53DAP	1.06312	0.693
57DAP/55DAP	1.11361	0.854
62DAP/57DAP	1.20031	1
68DAP/62DAP	0.73116	0.505
68DAP/14DAP	0.75569	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98684	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.74032	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05559	1
1-1-2/M82	0.93482	1
12-2/M82	1.0119	1
12-4/M82	1.00545	1
1-3/M82	1.01136	1
2-1-1/M82	0.9759
2-1/M82	1.72592
2-6/M82	1.03087	0.695
3-2/M82	0.96553	1
4-1-1/M82	1.03013	1
4-1/M82	0.99486	1
4-3-2/M82	0.90034	1
4-3/M82	1.08197	1
5-3/M82	0.98247	1
6-2/M82	0.98765	1
6-3/M82	0.94671	1
7-1/M82	1.07888
7-2/M82	1.0103	1
9-3-2/M82	1.03325	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0567	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.03447	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.29113	0.367
IL1-4/WTpooled	0.7836	0.834
WT/WTpooled	1.41502	0.89

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	1.00052	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97281	1
DC3000/delta hrp 6h	1.67263	1
DC3000/delta hrp 12h	1.00636	1
DC3000/delta hrp 24h	1.01936	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.71275	0.077
DC3000 delta B/DC3000 delta AB	0.52965	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98666	1
Exp 36h	0.75536	0.699
Exp 60h	0.5267	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98625	1
Var 0h	1.15546	0.936
Var 12h I row2-row1	0.83918	0.344
Var 12h NI row2-row1	0.97007	0.82
Var 36h I row2-row1	0.96123	1
Var 36h NI row2-row1	1.19594	1
Var 60h I row2-row1	1.35336	0.562
Var 60h NI row2-row1	1.02325	1
Time course 0hI-0hNI	0.9211	0.381
Time course 12hI-12hNI	1.02673	0.756
Time course 36hI-36hNI	0.98077	0.58
Time course 60hI-60hNI	0.22152	0.006

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)	1.32451	0.325
transgenic ySAMdc/azygous control (breaker)	1.57274	0.172
transgenic ySAMdc/azygous control (red)	1.18209	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87429	0.067

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.20215	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.04175	0.093
Manapal/WT (break)	2.45685	0.123
Manapal/WT (red)	1.11369	0.413