Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86456	0.381
27DAP/17DAP	1.25753	0.723
39DAP/27DAP	0.82731	0.414
41DAP/39DAP	1.04065	0.964
42DAP/41DAP	0.88867	1
43DAP/42DAP	1.00806	0.937
47DAP/43DAP	1.33159	0.172
52DAP/47DAP	1.10955	0.842
57DAP/52DAP	1.09999	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00476	1
17DAP/reference	1.07849	0.148
27DAP/reference	0.97154	0.654
39DAP/reference	1.05118	0.581
41DAP/reference	0.97602	0.667
42DAP/reference	0.94749	0.176
43DAP/reference	1.07709	0.445
47DAP/reference	1.0105	1
52DAP/reference	1.04587	1
57DAP/reference	0.99692	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39523	0.04
27DAP/17DAP	1.03006	0.957
39DAP/27DAP	1.15687	0.565
41DAP/39DAP	0.93756	0.861
42DAP/41DAP	1.12282	0.795
43DAP/42DAP	0.95588	0.684
47DAP/43DAP	0.9868	0.919
52DAP/47DAP	0.96572	0.807
57DAP/52DAP	1.3893	0.158
57DAP/7DAP	1.54667	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00167	1
17DAP/reference	0.84098	0.072
27DAP/reference	0.78884	0.017
39DAP/reference	0.85128	0.095
41DAP/reference	0.78884	0.017
42DAP/reference	0.74379	0.012
43DAP/reference	0.76136	0.026
47DAP/reference	0.99677	1
52DAP/reference	0.82418	0.254
57DAP/reference	1.0297	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95962	0.592
17DAP/reference	0.78001	0.014
27DAP/reference	0.89805	0.173
39DAP/reference	0.86358	0.105
41DAP/reference	0.80605	0.059
42DAP/reference	0.80206	0.039
43DAP/reference	1.0214	0.787
47DAP/reference	0.9498	0.319
52DAP/reference	0.95133	0.28
57DAP/reference	0.8379	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84713	0.135
17DAP/reference	0.87685	0.143
27DAP/reference	0.82554	0.037
39DAP/reference	0.86362	0.083
41DAP/reference	0.75464	0.046
42DAP/reference	0.82483	0.108
43DAP/reference	0.79233	0.018
47DAP/reference	1.05424	0.934
52DAP/reference	0.94606	0.582
57DAP/reference	0.98818	0.661

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08175	0.966
26DAP/20DAP	1.28555	0.312
34DAP/26DAP	0.9793	0.972
51DAP/34DAP	1.01716	0.988
52DAP/51DAP	1.0326	1
53DAP/52DAP	1.13461	0.768
55DAP/53DAP	0.89099	0.282
57DAP/55DAP	1.41212	0.955
62DAP/57DAP	1.1619	0.767
68DAP/62DAP	0.95513	0.769
68DAP/14DAP	0.59791	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29371	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94092	0.71
Mature Green Tomato/Ripe Tomato	1.04319	0.881
Immature Eggplant/Mature Eggplant	1.21433	0.363
Ripe Pepper/Ripe Tomato	0.6099	0.224
Mature Eggplant/Ripe Tomato	0.79116	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90706	0.944
1-1-2/M82	1.01329	1
12-2/M82	0.98925	1
12-4/M82	0.94011	1
1-3/M82	1.25657	0.479
2-1-1/M82	1.00845	1
2-1/M82	1.17165	1
2-6/M82	1.08874	1
3-2/M82	0.75067
4-1-1/M82	0.81893
4-1/M82	0.93787	1
4-3-2/M82	1.00867
4-3/M82	1.01961	1
5-3/M82	1.2262	0.572
6-2/M82	1.16548	1
6-3/M82	1.02622	1
7-1/M82	0.91064	1
7-2/M82	1.02911	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83943	0.321
IL2-6/WTpooled	1.24687	0.395
IL7-5/WTpooled	1.2538	0.75
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.24546	0.553
IL1-4/WTpooled	1.00127	1
WT/WTpooled	1.16589	0.999

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	1.14064	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.25913	0.914
DC3000/delta hrp 6h	0.93402	0.95
DC3000/delta hrp 12h	1.00793	1
DC3000/delta hrp 24h	1.08448	0.821

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	1.49145	0.169

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16887	0.254
Exp 36h	0.78496	0.661
Exp 60h	1.16522	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02608	1
Var 0h	0.96287	1
Var 12h I row2-row1	0.88662	0.39
Var 12h NI row2-row1	1.11364	1
Var 36h I row2-row1	1.19193	0.41
Var 36h NI row2-row1	1.007	1
Var 60h I row2-row1	0.72416	0.582
Var 60h NI row2-row1	0.89354	0.69
Time course 0hI-0hNI	1.07554	0.833
Time course 12hI-12hNI	1.06329	0.774
Time course 36hI-36hNI	1.33307	0.009
Time course 60hI-60hNI	3.25482	0.008

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)	0.89957	0.428
transgenic ySAMdc/azygous control (breaker)	1.50727	0.172
transgenic ySAMdc/azygous control (red)	1.08166	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.41725	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81089	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7813	1
Manapal/WT (break)	0.95109	1
Manapal/WT (red)	1.04078	1