Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.1.18.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07773	0.932
27DAP/17DAP	1.24445	0.822
39DAP/27DAP	0.9125	0.67
41DAP/39DAP	0.85236	0.43
42DAP/41DAP	0.86774	1
43DAP/42DAP	1.01322	0.937
47DAP/43DAP	1.03828	1
52DAP/47DAP	1.26548	0.769
57DAP/52DAP	0.60549	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80041	0.06
17DAP/reference	0.99515	0.904
27DAP/reference	1.02174	0.709
39DAP/reference	1.09163	0.318
41DAP/reference	0.99774	1
42DAP/reference	0.9231	0.01
43DAP/reference	1.04536	0.678
47DAP/reference	0.92333	0.127
52DAP/reference	0.98352	0.515
57DAP/reference	1.00473	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.29404	0.569
27DAP/17DAP	1.11269	0.848
39DAP/27DAP	1.23355	0.512
41DAP/39DAP	0.92178	0.662
42DAP/41DAP	1.00459	0.894
43DAP/42DAP	0.77841	0.049
47DAP/43DAP	1.10016	0.456
52DAP/47DAP	1.09009	0.835
57DAP/52DAP	1.03953	0.851
57DAP/7DAP	0.80199	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07791	0.676
17DAP/reference	1.27908	0.01
27DAP/reference	1.24569	0.01
39DAP/reference	1.2534	0.028
41DAP/reference	1.38474	0.035
42DAP/reference	1.43466	0.076
43DAP/reference	1.618	0.013
47DAP/reference	1.3077	0.214
52DAP/reference	1.54654	0.007
57DAP/reference	1.64582	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90759	0.353
17DAP/reference	0.94989	0.326
27DAP/reference	0.93209	0.167
39DAP/reference	0.99057	0.586
41DAP/reference	0.8255	0.173
42DAP/reference	0.96791	0.433
43DAP/reference	1.20659	0.526
47DAP/reference	0.98123	0.459
52DAP/reference	1.1168	0.259
57DAP/reference	0.9795	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57896	0.057
17DAP/reference	1.06596	0.657
27DAP/reference	1.44745	0.033
39DAP/reference	1.16482	0.157
41DAP/reference	1.32227	0.045
42DAP/reference	1.45936	0.089
43DAP/reference	0.89258	0.468
47DAP/reference	0.87286	0.139
52DAP/reference	1.42238	0.247
57DAP/reference	1.06717	0.57

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00317	1
26DAP/20DAP	1.01454	1
34DAP/26DAP	1.44428	0.819
51DAP/34DAP	1.16929	0.962
52DAP/51DAP	1.03758	1
53DAP/52DAP	1.11266	0.944
55DAP/53DAP	1.13094	0.737
57DAP/55DAP	1.05491	0.997
62DAP/57DAP	0.93562	0.871
68DAP/62DAP	0.98201	0.81
68DAP/14DAP	1.49546	0.384

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01005	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.5556	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.34319	N/A
Ripe Pepper/Ripe Tomato	0.77436	0.293
Mature Eggplant/Ripe Tomato	0.67008	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.63247	0.944
1-1-2/M82	0.96405	1
12-2/M82	1.03191	1
12-4/M82	0.83727	0.298
1-3/M82	0.99773	1
2-1-1/M82	1.05551	1
2-1/M82	1.41577	0.345
2-6/M82	1.00223	1
3-2/M82	0.99946	N/A
4-1-1/M82	1.02309	1
4-1/M82	1.2608	N/A
4-3-2/M82	0.91806	N/A
4-3/M82	1.04955	1
5-3/M82	1.03727	1
6-2/M82	1.37557	0.188
6-3/M82	1.07305	1
7-1/M82	0.92631	N/A
7-2/M82	0.92263	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.0849	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15125	0.875
DC3000/delta hrp 6h	1.14124	1
DC3000/delta hrp 12h	1.0205	1
DC3000/delta hrp 24h	1.12025	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94169	N/A
DC3000 delta B/DC3000 delta AB	0.98706	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21899	1
Exp 36h	1.56231	0.693
Exp 60h	1.50211	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96438	1
Var 0h	1.0899	0.98
Var 12h I row2-row1	1.44354	0.379
Var 12h NI row2-row1	0.94835	0.82
Var 36h I row2-row1	1.1404	0.601
Var 36h NI row2-row1	1.04086	1
Var 60h I row2-row1	0.76702	0.285
Var 60h NI row2-row1	1.82646	0.904
Time course 0hI-0hNI	1.06091	0.63
Time course 12hI-12hNI	1.0678	0.672
Time course 36hI-36hNI	1.66927	0.009
Time course 60hI-60hNI	2.19729	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)	1.0643	0.261
transgenic ySAMdc/azygous control (breaker)	0.876	0.251
transgenic ySAMdc/azygous control (red)	0.86874	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01894	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.57228	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83561	1
Manapal/WT (break)	0.78442	0.333
Manapal/WT (red)	0.63426	0.181