Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.13.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05236	0.912
27DAP/17DAP	1.04786	0.889
39DAP/27DAP	0.87875	0.573
41DAP/39DAP	1.22526	0.696
42DAP/41DAP	1.17448	0.868
43DAP/42DAP	0.9216	0.7
47DAP/43DAP	0.90159	0.667
52DAP/47DAP	1.49953	0.268
57DAP/52DAP	0.95567	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88335	0.028
17DAP/reference	0.97006	0.368
27DAP/reference	0.95267	0.109
39DAP/reference	1.04108	0.465
41DAP/reference	1.03286	0.287
42DAP/reference	0.95585	0.202
43DAP/reference	0.99279	0.84
47DAP/reference	0.87925	0.018
52DAP/reference	0.78226	0.03
57DAP/reference	0.94706	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02534	0.87
27DAP/17DAP	0.95817	0.782
39DAP/27DAP	1.08745	0.534
41DAP/39DAP	1.01322	1
42DAP/41DAP	1.02085	1
43DAP/42DAP	1.00565	1
47DAP/43DAP	0.99905	0.989
52DAP/47DAP	1.03083	0.933
57DAP/52DAP	0.99251	0.841
57DAP/7DAP	1.20469	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93589	0.1
17DAP/reference	0.94905	0.072
27DAP/reference	0.88128	0.011
39DAP/reference	0.90567	0.021
41DAP/reference	0.90108	0.023
42DAP/reference	0.88464	0.016
43DAP/reference	0.90554	0.056
47DAP/reference	0.93283	0.383
52DAP/reference	0.88305	0.013
57DAP/reference	0.8163	0.052

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03319	0.724
17DAP/reference	0.90407	0.038
27DAP/reference	0.84366	0.097
39DAP/reference	0.84333	0.089
41DAP/reference	0.90252	0.11
42DAP/reference	0.86411	0.121
43DAP/reference	1.0161	1
47DAP/reference	0.99229	0.66
52DAP/reference	0.92412	0.156
57DAP/reference	1.00514	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90289	0.04
17DAP/reference	0.99299	0.792
27DAP/reference	0.93147	0.062
39DAP/reference	0.84714	0.008
41DAP/reference	0.85638	0.037
42DAP/reference	0.8806	0.108
43DAP/reference	0.82635	0.081
47DAP/reference	1.0204	0.792
52DAP/reference	0.89058	0.216
57DAP/reference	0.74256	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02288	1
26DAP/20DAP	1.00773	1
34DAP/26DAP	1.04942	1
51DAP/34DAP	0.91835	0.571
52DAP/51DAP	1.00113	1
53DAP/52DAP	1.08775	0.517
55DAP/53DAP	1.06469	0.614
57DAP/55DAP	0.9894	0.88
62DAP/57DAP	1.07462	0.678
68DAP/62DAP	1.00474	0.914
68DAP/14DAP	1.1029	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0411	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21813	0.075
Mature Green Tomato/Ripe Tomato	0.85816	0.411
Immature Eggplant/Mature Eggplant	0.71505	0.069
Ripe Pepper/Ripe Tomato	0.76762	0.293
Mature Eggplant/Ripe Tomato	0.90507	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93693	0.944
1-1-2/M82	0.95318	0.958
12-2/M82	0.99354	1
12-4/M82	1.0124	1
1-3/M82	0.90353	0.501
2-1-1/M82	1.26934
2-1/M82	0.85304
2-6/M82	1.05954	0.452
3-2/M82	0.91319	1
4-1-1/M82	1.11434	1
4-1/M82	0.96349	1
4-3-2/M82	1.12355	1
4-3/M82	1.22695	0.268
5-3/M82	1.03417	1
6-2/M82	1.12201
6-3/M82	0.94637	1
7-1/M82	0.72036
7-2/M82	1.32457	0.282
9-3-2/M82	0.99137	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.70196	0.321
IL2-6/WTpooled	1.2064	0.395
IL7-5/WTpooled	0.38574	1
IL7-3/WTpooled	0.82464	0.418
IL12-4/WTpooled	0.97214	1
IL1-4/WTpooled	1.06004	0.426
WT/WTpooled	1.05627	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	0.98975	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96009	1
DC3000/delta hrp 6h	0.83839	0.95
DC3000/delta hrp 12h	1.0264	1
DC3000/delta hrp 24h	1.05659	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12433	0.087
DC3000 delta B/DC3000 delta AB	1.01909	0.694

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83804	1
Exp 36h	1.09258	1
Exp 60h	0.84771	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98199	1
Var 0h	1.02531	1
Var 12h I row2-row1	1.73217	0.406
Var 12h NI row2-row1	1.07258	1
Var 36h I row2-row1	1.07692	1
Var 36h NI row2-row1	0.95997	0.791
Var 60h I row2-row1	1.09947	0.562
Var 60h NI row2-row1	1.09668	0.904
Time course 0hI-0hNI	1.09047	0.603
Time course 12hI-12hNI	1.06232	0.654
Time course 36hI-36hNI	1.03818	0.166
Time course 60hI-60hNI	1.31704	0.01

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)	1.04984	0.408
transgenic ySAMdc/azygous control (breaker)	1.65151	0.166
transgenic ySAMdc/azygous control (red)	1.14686	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03983	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87486	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8426	1
Manapal/WT (break)	0.92159	1
Manapal/WT (red)	1.15151	0.222