Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.17.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01266	0.997
27DAP/17DAP	1.34134	0.703
39DAP/27DAP	1.72016	0.35
41DAP/39DAP	1.25316	0.676
42DAP/41DAP	1.09277	1
43DAP/42DAP	1.15987	0.88
47DAP/43DAP	1.3384	0.474
52DAP/47DAP	2.08807	0.245
57DAP/52DAP	1.19075	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00332	1
17DAP/reference	1.06423	0.22
27DAP/reference	1.03038	0.925
39DAP/reference	0.96896	0.651
41DAP/reference	1.08685	0.393
42DAP/reference	1.00006	0.665
43DAP/reference	1.00879	0.982
47DAP/reference	1.07343	0.037
52DAP/reference	0.90998	0.393
57DAP/reference	0.95492	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10029	0.536
27DAP/17DAP	1.00412	1
39DAP/27DAP	0.9997	1
41DAP/39DAP	1.06573	0.868
42DAP/41DAP	1.02227	1
43DAP/42DAP	0.93142	0.293
47DAP/43DAP	0.98547	0.933
52DAP/47DAP	1.03875	0.862
57DAP/52DAP	1.00861	0.926
57DAP/7DAP	1.35139	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83083	0.049
17DAP/reference	0.80615	0.014
27DAP/reference	0.86821	0.012
39DAP/reference	0.80692	0.014
41DAP/reference	0.81706	0.019
42DAP/reference	0.80873	0.017
43DAP/reference	0.72387	0.009
47DAP/reference	0.82457	0.079
52DAP/reference	0.66858	0.012
57DAP/reference	0.76447	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02628	0.776
17DAP/reference	1.12512	0.216
27DAP/reference	1.03034	0.86
39DAP/reference	0.99011	0.586
41DAP/reference	0.96708	0.422
42DAP/reference	0.91104	0.108
43DAP/reference	1.18995	0.192
47DAP/reference	0.93286	0.159
52DAP/reference	0.93242	0.101
57DAP/reference	1.16726	0.075

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71581	0.026
17DAP/reference	0.94482	0.462
27DAP/reference	0.83755	0.031
39DAP/reference	0.75326	0.008
41DAP/reference	0.88438	0.209
42DAP/reference	0.93469	0.445
43DAP/reference	0.83123	0.04
47DAP/reference	0.92732	0.161
52DAP/reference	0.72824	0.096
57DAP/reference	0.85349	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93267	1
26DAP/20DAP	1.00102	1
34DAP/26DAP	0.97243	0.945
51DAP/34DAP	0.9584	0.681
52DAP/51DAP	0.96274	1
53DAP/52DAP	1.13279	0.343
55DAP/53DAP	1.11314	0.399
57DAP/55DAP	0.88481	0.398
62DAP/57DAP	1.0177	1
68DAP/62DAP	1.00783	0.914
68DAP/14DAP	1.64112	0.094

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96716	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70442	0.192
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.06755	0.05
Ripe Pepper/Ripe Tomato	1.66963	1
Mature Eggplant/Ripe Tomato	7.72673	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07729	1
1-1-2/M82	0.89204	1
12-2/M82	1.16029	1
12-4/M82	1.13791	1
1-3/M82	0.69868	0.501
2-1-1/M82	1.35873
2-1/M82	N/A	N/A
2-6/M82	1.32654	0.594
3-2/M82	0.94219
4-1-1/M82	1.02374	1
4-1/M82	0.96016
4-3-2/M82	0.92238
4-3/M82	0.86535	1
5-3/M82	0.92573	1
6-2/M82	0.95186	1
6-3/M82	1.01528	1
7-1/M82	1.09589	1
7-2/M82	1.00548	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98707	1
IL2-6/WTpooled	1.21047	0.441
IL7-5/WTpooled	1.19046	0.792
IL7-3/WTpooled	0.99217	1
IL12-4/WTpooled	1.02231	1
IL1-4/WTpooled	1.04366	1
WT/WTpooled	0.99987	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	1.98558	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07772	0.921
DC3000/delta hrp 6h	1.07069	1
DC3000/delta hrp 12h	1.02094	1
DC3000/delta hrp 24h	0.9607	0.607

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91443	0.088
DC3000 delta B/DC3000 delta AB	1.03289	0.609

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15683	1
Exp 36h	0.95483	0.879
Exp 60h	0.80968	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98717	1
Var 0h	1.01126	1
Var 12h I row2-row1	1.46442	0.406
Var 12h NI row2-row1	1.14285	1
Var 36h I row2-row1	0.80026	0.805
Var 36h NI row2-row1	0.94752	0.791
Var 60h I row2-row1	1.75391	1
Var 60h NI row2-row1	1.14922	0.904
Time course 0hI-0hNI	1.07919	0.852
Time course 12hI-12hNI	1.13676	0.639
Time course 36hI-36hNI	0.89628	0.148
Time course 60hI-60hNI	1.17896	0.017

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)	0.96498	0.529
transgenic ySAMdc/azygous control (breaker)	0.75197	0.15
transgenic ySAMdc/azygous control (red)	0.95399	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.65743	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.43704	0.14
Manapal/WT (break)	0.99103	1
Manapal/WT (red)	0.82546	0.181