Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99429	0.847
27DAP/17DAP	0.98096	0.992
39DAP/27DAP	0.91198	0.641
41DAP/39DAP	1.13309	0.938
42DAP/41DAP	0.80517	1
43DAP/42DAP	1.28206	0.756
47DAP/43DAP	0.96487	0.835
52DAP/47DAP	0.96469	0.74
57DAP/52DAP	1.61072	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30455	0.007
17DAP/reference	1.43386	0.012
27DAP/reference	1.2984	0.075
39DAP/reference	1.36954	0.012
41DAP/reference	1.81104	0.014
42DAP/reference	1.24571	0.119
43DAP/reference	1.72561
47DAP/reference	1.06058	1
52DAP/reference	1.01081	0.791
57DAP/reference	0.71123

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0828	0.762
27DAP/17DAP	1.15565	0.73
39DAP/27DAP	1.06499	0.685
41DAP/39DAP	1.23635	0.484
42DAP/41DAP	0.7186	0.045
43DAP/42DAP	1.18462	0.162
47DAP/43DAP	1.15007	0.88
52DAP/47DAP	1.1145	0.868
57DAP/52DAP	1.06511	0.846
57DAP/7DAP	1.01436	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.06672	0.024
17DAP/reference	1.8799	0.007
27DAP/reference	1.54966	0.007
39DAP/reference	1.85556	0.006
41DAP/reference	2.54952	0.013
42DAP/reference	2.46458	0.007
43DAP/reference	2.2697	0.008
47DAP/reference	1.58165	0.145
52DAP/reference	1.74164	0.012
57DAP/reference	1.94726	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30424	0.039
17DAP/reference	1.14923	0.508
27DAP/reference	1.2488	0.249
39DAP/reference	1.11487	0.346
41DAP/reference	1.21929	0.032
42DAP/reference	1.30053	0.009
43DAP/reference	1.20178	0.793
47DAP/reference	1.25534	0.013
52DAP/reference	1.24581	0.019
57DAP/reference	1.38936	0.229

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49321	0.019
17DAP/reference	1.18678	0.398
27DAP/reference	2.05177	0.015
39DAP/reference	1.48062	0.008
41DAP/reference	1.44901	0.014
42DAP/reference	1.70866	0.021
43DAP/reference	1.60099	0.031
47DAP/reference	1.03679	1
52DAP/reference	1.7627	0.044
57DAP/reference	0.93854	0.387

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9196	1
26DAP/20DAP	0.76973	0.512
34DAP/26DAP	1.669	0.819
51DAP/34DAP	0.89702	0.727
52DAP/51DAP	1.38804	0.176
53DAP/52DAP	0.90384	0.767
55DAP/53DAP	1.14282	0.614
57DAP/55DAP	1.21589	0.865
62DAP/57DAP	1.00985	0.994
68DAP/62DAP	0.79123	0.429
68DAP/14DAP	0.91193	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.69015	0.076

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.3733
Mature Eggplant/Ripe Tomato	1.05044	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.98813	1
12-2/M82	0.88075
12-4/M82	0.7292
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	2.00897
4-3/M82	N/A	N/A
5-3/M82	1.02403	1
6-2/M82	1.82376
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.49417
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73323	0.247
IL2-6/WTpooled	1.6435	0.419
IL7-5/WTpooled	1.47372	0.792
IL7-3/WTpooled	0.50836	0.294
IL12-4/WTpooled	0.89854	1
IL1-4/WTpooled	0.94157	1
WT/WTpooled	1.00318	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	1.01536	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.21729	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05382	1
DC3000/delta hrp 24h	1.28443	0.264

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	0.85382	0.337

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00271	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.10775
Var 0h	0.81035	1
Var 12h I row2-row1	0.97175	0.705
Var 12h NI row2-row1	0.90122	0.713
Var 36h I row2-row1	0.76297	1
Var 36h NI row2-row1	1.02613	1
Var 60h I row2-row1	1.09048	0.543
Var 60h NI row2-row1	0.82914	0.977
Time course 0hI-0hNI	0.97786	0.927
Time course 12hI-12hNI	0.96347	0.725
Time course 36hI-36hNI	0.85326	0.024
Time course 60hI-60hNI	0.56161	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)	1.24505	0.541
transgenic ySAMdc/azygous control (breaker)	1.23953	0.248
transgenic ySAMdc/azygous control (red)	0.97751	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89045	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06379	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.74277	0.183