Circadian Genomic (DIURNAL + PPDB promoter motif) Full

Circadian Data collected over two days (44 hours) at four hour intervals in various growth conditions. We calculated the Phase of each data by non-linear best fit to a sine wave with a 24 hour period, and similarly calculated the Amplitude. Visually checking the 1000 largest amplitude genes showed a good fit in all cases, though a few genes clearly deviated from sinusoidal behavior. All had a major period of 24 hours. For each gene locus, we added the LDSS motifs as calculated by PPDB. Gene Loci without expression data or motif data were removed from this database.

References (for PPDB):
http://www.ncbi.nlm.nih.gov/pubmed/17947329
http://www.ncbi.nlm.nih.gov/pubmed/17346352
References (for DIURNAL)
http://www.ncbi.nlm.nih.gov/pubmed/18419293

Descriptions for each data table:

DiurnalHours_PPDB_COL_LDHH	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Dark (12h) / Hot (24h).
DiurnalHours_PPDB_COL_SD	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition of short day light, that is, Light (8h) Dark (16h).
DiurnalHours_PPDB_DD_DDHC	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Dark (12h) Dark (12h) / Hot (12h) / Cold (12h), and subjected to Dark (24h).
DiurnalHours_PPDB_LDHC	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Dark (12h) / Hot (12h) / Cold (12h).
DiurnalHours_PPDB_LDHH_SM	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Dark (12h) / Hot (24h), by using the Smith method.
DiurnalHours_PPDB_LDHH_ST	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Dark (12h) / Hot (24h), by using the Stitt method.
DiurnalHours_PPDB_LER_SD	This collection of Gene Expression Properties are associated with the Arabidopsis Ler (Landsberg-ereta) strain, grown under the circadian condition of short day light, that is, Light (8h) Dark (16h).
DiurnalHours_PPDB_LIGHT5_HIF138_13	This collection of Gene Expression Properties are associated with the Arabidopsis hif138-13 (HETEROGENOUS INBRED FAMILY 138-13) strain, grown under the circadian condition Light (12h) Dark (12h) / Hot (24h).
DiurnalHours_PPDB_LIGHT5_HIF138_8	This collection of Gene Expression Properties are associated with the Arabidopsis hif138-8 (HETEROGENOUS INBRED FAMILY 138-8) strain, grown under the circadian condition Light (12h) Dark (12h) / Hot (24h).
DiurnalHours_PPDB_LIGHT5_znknOX	This collection of Gene Expression Properties are associated with the Arabidopsis tsp-ox (hif138-8) (TANDEM ZINCKNUCKLE PROTEIN-ox) strain, grown under the circadian condition Light (12h) Dark (12h) / Hot (24h).
DiurnalHours_PPDB_LL12_LDHH	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Light (12h) / Hot (24h), and subjected to Light (24h) by the Kay method.
DiurnalHours_PPDB_LL23_LDHH	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Light (12h) / Hot (24h), and subjected to Light (24h) by the Miller method.
DiurnalHours_PPDB_LLHC	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Light (12h) / Hot (12h) / Cold (12h).
DiurnalHours_PPDB_LL_LDHC	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Dark (12h) / Hot (12h) / Cold (12h), and subjected to Light (24h).
DiurnalHours_PPDB_LL_LLHC	This collection of Gene Expression Properties are associated with the Arabidopsis Columbia strain 0, grown under the circadian condition Light (12h) Light (12h) / Hot (12h) / Cold (12h), and subjected to Light (24h).
DiurnalHours_PPDB_lhyox_SD	This collection of Gene Expression Properties are associated with the Arabidopsis lhy (lhy-ox) (LATE ELONGATED HYPOCOTYL) strain, grown under the circadian condition of short day light, that is, Light (8h) Dark (16h).
DiurnalHours_PPDB_longday	This collection of Gene Expression Properties are associated with the Arabidopsis Ler strain, grown under the circadian condition of long day light, that is, Light (16h) Dark (8h) by using the Kay method.
DiurnalHours_PPDB_lux_2_LDHH	This collection of Gene Expression Properties are associated with the Arabidopsis lux-2 (LUX ARRHYTHMO-2) strain, grown under the circadian condition Light (12h) Dark (12h) / Hot (24h).
DiurnalHours_PPDB_phyB9_SD	This collection of Gene Expression Properties are associated with the Arabidopsis phyB9 (PHYTOCHROME B-9) strain, grown under the circadian condition of short day light, that is, Light (8h) Dark (16h).
DiurnalHours_PPDB_shortday	This collection of Gene Expression Properties are associated with the Arabidopsis Ler strain, grown under the circadian condition of short day light, that is, Light (8h) Dark (16h) by using the Kay method.

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DiurnalHours_PPDB_COL_LDHH			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
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DiurnalHours_PPDB_COL_SD			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.2MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.6MB
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DiurnalHours_PPDB_DD_DDHC			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LDHC			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.2MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.6MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LDHH_SM			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LDHH_ST			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LER_SD			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.2MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.6MB
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DiurnalHours_PPDB_LIGHT5_HIF138_13			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.4MB
Table Data (Excel)	2013.1.8	16.1MB
RDF (Turtle)	2013.1.8	45.8MB
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DiurnalHours_PPDB_LIGHT5_HIF138_8			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.4MB
Table Data (Excel)	2013.1.8	16.1MB
RDF (Turtle)	2013.1.8	45.8MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LIGHT5_znknOX			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.4MB
Table Data (Excel)	2013.1.8	16.1MB
RDF (Turtle)	2013.1.8	45.8MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LL12_LDHH			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.4MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.8MB
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DiurnalHours_PPDB_LL23_LDHH			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.8MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LLHC			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.2MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.6MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LL_LDHC			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_LL_LLHC			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_lhyox_SD			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_longday			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_lux_2_LDHH			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_phyB9_SD			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示
DiurnalHours_PPDB_shortday			Action Show Table Data Contents Show API List Show Map Validate RDF Reuse Table Data
Table Data (Text)	2013.1.8	10.3MB
Table Data (Excel)	2013.1.8	16.7MB
RDF (Turtle)	2013.1.8	45.7MB
		その他の形式のAPIリストを表示

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Contributor Send Message	GenoCon
Collaborators	Koro_Nishikata Robert_Cox
Website	http://ppdb.agr.gifu-u.ac.jp/ppdb/cgi-... http://diurnal.mocklerlab.org/diurnal_...
Reference	http://www.ncbi.nlm.nih.gov/pubmed/179... http://www.ncbi.nlm.nih.gov/pubmed/173... http://www.ncbi.nlm.nih.gov/pubmed/184...
Total downloads	3314
Created date	Oct 10, 2012
Last update date	Jan 15, 2013