Contact

Link and Publish your data

to the Linked Open Data Community

Linkdata Work Information

Developmental Genomic (AtGenExpress + PPDB promoter motif) Full

Developmental Microarray Expression Data (AtGenExpress) of plant developmental tissues, combined with LDSS sequence analysis of regulatory (8mer) motif calculations (PPDB). We took the median of triplicate measurements from AtGenExpress, then sorted the developmental series into plant organs (Flower, Leaf, Root, Stem, Fruit & Seeds), with one category for seedlings (8 days old or less) and another for whole plants (older than 8 days). For each motif, we calculated the position relative to the TSS as determined experimentally (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 AtGenExpress)
http://www.ncbi.nlm.nih.gov/pubmed/15806101


Descriptions for each data table:
AtGenExpress_PPDB_Flowering This collection of Gene Expression Properties are associated with flowering tissues.
AtGenExpress_PPDB_Fruit_Seeds
This collection of Gene Expression Properties are associated with fruit and seed tissues.
AtGenExpress_PPDB_Leaf
This collection of Gene Expression Properties are associated with leaf tissues.
AtGenExpress_PPDB_Root
This collection of Gene Expression Properties are associated with root tissues.
AtGenExpress_PPDB_Seedling
This collection of Gene Expression Properties are associated with seedling tissues.
AtGenExpress_PPDB_Stem
This collection of Gene Expression Properties are associated with stem tissues.
AtGenExpress_PPDB_Whole_Plant
This collection of Gene Expression Properties are associated with whole plant body parts.
Octamer_elements A list of the 8mer sequence motifs from PPDB. This table lists each 8mer along with the appropriate median position from the TSS, calculated from all 8mers.
61

value

useful
0
Loading...

downloadDownload

File Name
AtGenExpress_PPDB_Flowering
Table Data (Text)
2013.1.8
11.2MB
Table Data (Excel)
2013.1.8
19.6MB
RDF (Turtle)
2013.1.8
60.0MB
AtGenExpress_PPDB_Fruit_Seeds
Table Data (Text)
2013.1.8
7.2MB
Table Data (Excel)
2013.1.8
11.9MB
RDF (Turtle)
2013.1.8
32.5MB
AtGenExpress_PPDB_Leaf
Table Data (Text)
2013.1.8
8.6MB
Table Data (Excel)
2013.1.8
14.5MB
RDF (Turtle)
2013.1.8
42.1MB
AtGenExpress_PPDB_Root
Table Data (Text)
2013.1.8
6.8MB
Table Data (Excel)
2013.1.8
11.2MB
RDF (Turtle)
2013.1.8
30.4MB
AtGenExpress_PPDB_Seedling
Table Data (Text)
2013.1.8
7.9MB
Table Data (Excel)
2013.1.8
13.2MB
RDF (Turtle)
2013.1.8
37.4MB
AtGenExpress_PPDB_Stem
Table Data (Text)
2013.1.8
6.3MB
Table Data (Excel)
2013.1.8
10.1MB
RDF (Turtle)
2013.1.8
26.8MB
AtGenExpress_PPDB_Whole_Plant
Table Data (Text)
2013.1.8
6.3MB
Table Data (Excel)
2013.1.8
10.1MB
RDF (Turtle)
2013.1.8
26.8MB
Octamer_elements
Table Data (Text)
2012.10.10
18.9KB
Table Data (Excel)
2012.10.10
53.0KB
RDF (Turtle)
2012.10.10
119.6KB

↓Click on image to enlarge View LOD cloud (Entire RDF work)

News Feed