Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.1.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14091	0.681
27DAP/17DAP	1.21508	0.804
39DAP/27DAP	1.21071	0.658
41DAP/39DAP	1.03568	0.949
42DAP/41DAP	1.15674	0.702
43DAP/42DAP	1.03786	1
47DAP/43DAP	1.08273	0.793
52DAP/47DAP	0.76213	0.421
57DAP/52DAP	0.9752	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72663	0.025
17DAP/reference	0.77349	0.018
27DAP/reference	0.94513	0.497
39DAP/reference	0.8503	0.047
41DAP/reference	0.70372	0.008
42DAP/reference	0.96409	0.242
43DAP/reference	0.99715	0.861
47DAP/reference	1.01651	1
52DAP/reference	1.06818	0.32
57DAP/reference	1.15153	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.50955	0.278
27DAP/17DAP	0.89887	0.724
39DAP/27DAP	0.83089	0.156
41DAP/39DAP	1.0283	1
42DAP/41DAP	1.13667	0.694
43DAP/42DAP	1.05154	0.627
47DAP/43DAP	1.13722	0.857
52DAP/47DAP	1.42446	0.31
57DAP/52DAP	0.96505	0.651
57DAP/7DAP	0.87609	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12146	0.338
17DAP/reference	1.4215	0.015
27DAP/reference	1.49565	0.007
39DAP/reference	1.20016	1
41DAP/reference	1.21612	0.104
42DAP/reference	1.55269	0.024
43DAP/reference	1.43531	0.043
47DAP/reference	1.22224	0.285
52DAP/reference	1.25047	0.028
57DAP/reference	1.17253	0.147

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9096	0.353
17DAP/reference	0.80646	0.019
27DAP/reference	0.97509	0.554
39DAP/reference	1.03942	1
41DAP/reference	1.14825	0.353
42DAP/reference	0.96157	0.433
43DAP/reference	0.84228	0.166
47DAP/reference	0.84791	0.038
52DAP/reference	0.92738	0.22
57DAP/reference	0.81921	0.073

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02589	1
17DAP/reference	0.96769	0.601
27DAP/reference	1.21006	0.12
39DAP/reference	1.04063	0.711
41DAP/reference	1.1998	0.018
42DAP/reference	1.2897	0.033
43DAP/reference	1.24819	0.092
47DAP/reference	0.98995	0.61
52DAP/reference	1.42046	0.198
57DAP/reference	1.53521	0.057

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98154	1
26DAP/20DAP	1.21023	0.818
34DAP/26DAP	1.36509	0.19
51DAP/34DAP	1.79204	0.303
52DAP/51DAP	1.6206	0.218
53DAP/52DAP	0.77367	0.489
55DAP/53DAP	1.15914	0.991
57DAP/55DAP	0.70635	0.053
62DAP/57DAP	1.10606	0.767
68DAP/62DAP	2.32796	0.032
68DAP/14DAP	2.65963	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.56617	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.53268	0.417
Mature Green Tomato/Ripe Tomato	1.05387	0.523
Immature Eggplant/Mature Eggplant	0.93346	0.651
Ripe Pepper/Ripe Tomato	0.94142	1
Mature Eggplant/Ripe Tomato	1.61719	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.7229
1-1-2/M82	1.16582	0.977
12-2/M82	1.176
12-4/M82	0.90756	1
1-3/M82	1.09408
2-1-1/M82	0.952
2-1/M82	N/A	N/A
2-6/M82	0.83934	1
3-2/M82	N/A	N/A
4-1-1/M82	0.76585
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.10356	1
5-3/M82	0.92192	0.49
6-2/M82	0.86969
6-3/M82	0.75934	1
7-1/M82	N/A	N/A
7-2/M82	0.92964
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0501	1
IL2-6/WTpooled	1.18459	0.659
IL7-5/WTpooled	1.48949	0.587
IL7-3/WTpooled	1.14446	1
IL12-4/WTpooled	0.88961	0.581
IL1-4/WTpooled	1.18173	0.421
WT/WTpooled	0.85164	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	1.29299	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95878	1
DC3000/delta hrp 6h	0.90653	0.95
DC3000/delta hrp 12h	1.1618	1
DC3000/delta hrp 24h	1.17534	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	1.20334	0.449

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11938	1
Exp 36h	1.51347	0.693
Exp 60h	1.24888	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9623	1
Var 0h	1.02433	1
Var 12h I row2-row1	0.76973	0.418
Var 12h NI row2-row1	1.22204	1
Var 36h I row2-row1	1.16398	0.742
Var 36h NI row2-row1	0.97009	0.791
Var 60h I row2-row1	0.80717	0.832
Var 60h NI row2-row1	0.97616	1
Time course 0hI-0hNI	0.94103	0.649
Time course 12hI-12hNI	0.97043	0.836
Time course 36hI-36hNI	1.09324	0.453
Time course 60hI-60hNI	1.6715	0.009

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)	1.0284	0.23
transgenic ySAMdc/azygous control (breaker)	0.93357	0.49
transgenic ySAMdc/azygous control (red)	1.07484	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00333	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82921	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81282	1
Manapal/WT (break)	1.12073	1
Manapal/WT (red)	1.07528	1