Limits...
NeuroTransDB: highly curated and structured transcriptomic metadata for neurodegenerative diseases.

Bagewadi S, Adhikari S, Dhrangadhariya A, Irin AK, Ebeling C, Namasivayam AA, Page M, Hofmann-Apitius M, Senger P - Database (Oxford) (2015)

Bottom Line: Much of the information to complete, or refine meta-annotations are distributed in the associated publications.Curated metadata for Alzheimer's disease gene expression studies are available for download.Database URL: www.scai.fraunhofer.de/NeuroTransDB.html.

View Article: PubMed Central - PubMed

Affiliation: Department of Bioinformatics, Fraunhofer Institute for Algorithms and Scientific Computing (SCAI), Schloss Birlinghoven, 53754 Sankt Augustin, Germany, Rheinische Friedrich-Wilhelms-Universitaet Bonn, Bonn-Aachen International Center for Information Technology, 53113, Bonn, Germany, shweta.bagewadi@scai.fraunhofer.de.

No MeSH data available.


Related in: MedlinePlus

Semi-automated workflow for metadata curation. Automatically extracted metadata fields are rechecked by the curators. To capture the missing fields, curators browse through GEO, ArrayExpress (AE) or GEO2R experiment’s description pages. For cases where the information is still incomplete, associated fulltext publications and their associated supplementary material are read. All the extracted metadata annotations are stored in NeuroTransDB. Intermediately, if feasible, automated extraction leverages on curator’s experience for improvement. This process is carried out half yearly.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4608514&req=5

bav099-F4: Semi-automated workflow for metadata curation. Automatically extracted metadata fields are rechecked by the curators. To capture the missing fields, curators browse through GEO, ArrayExpress (AE) or GEO2R experiment’s description pages. For cases where the information is still incomplete, associated fulltext publications and their associated supplementary material are read. All the extracted metadata annotations are stored in NeuroTransDB. Intermediately, if feasible, automated extraction leverages on curator’s experience for improvement. This process is carried out half yearly.

Mentions: To capture all the relevant meta-annotations, we designed a semiautomated curation workflow, illustrated in Figure 4. Firstly, we automatically retrieved all the available meta-annotations from GEO and ArrayExpress (cf. Figure 2). Annotations were captured in an Excel template as shown in Supplementary Figure S2 (A) and confirmed by our trained curators to rectify any inaccuracies.Figure 4.


NeuroTransDB: highly curated and structured transcriptomic metadata for neurodegenerative diseases.

Bagewadi S, Adhikari S, Dhrangadhariya A, Irin AK, Ebeling C, Namasivayam AA, Page M, Hofmann-Apitius M, Senger P - Database (Oxford) (2015)

Semi-automated workflow for metadata curation. Automatically extracted metadata fields are rechecked by the curators. To capture the missing fields, curators browse through GEO, ArrayExpress (AE) or GEO2R experiment’s description pages. For cases where the information is still incomplete, associated fulltext publications and their associated supplementary material are read. All the extracted metadata annotations are stored in NeuroTransDB. Intermediately, if feasible, automated extraction leverages on curator’s experience for improvement. This process is carried out half yearly.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4608514&req=5

bav099-F4: Semi-automated workflow for metadata curation. Automatically extracted metadata fields are rechecked by the curators. To capture the missing fields, curators browse through GEO, ArrayExpress (AE) or GEO2R experiment’s description pages. For cases where the information is still incomplete, associated fulltext publications and their associated supplementary material are read. All the extracted metadata annotations are stored in NeuroTransDB. Intermediately, if feasible, automated extraction leverages on curator’s experience for improvement. This process is carried out half yearly.
Mentions: To capture all the relevant meta-annotations, we designed a semiautomated curation workflow, illustrated in Figure 4. Firstly, we automatically retrieved all the available meta-annotations from GEO and ArrayExpress (cf. Figure 2). Annotations were captured in an Excel template as shown in Supplementary Figure S2 (A) and confirmed by our trained curators to rectify any inaccuracies.Figure 4.

Bottom Line: Much of the information to complete, or refine meta-annotations are distributed in the associated publications.Curated metadata for Alzheimer's disease gene expression studies are available for download.Database URL: www.scai.fraunhofer.de/NeuroTransDB.html.

View Article: PubMed Central - PubMed

Affiliation: Department of Bioinformatics, Fraunhofer Institute for Algorithms and Scientific Computing (SCAI), Schloss Birlinghoven, 53754 Sankt Augustin, Germany, Rheinische Friedrich-Wilhelms-Universitaet Bonn, Bonn-Aachen International Center for Information Technology, 53113, Bonn, Germany, shweta.bagewadi@scai.fraunhofer.de.

No MeSH data available.


Related in: MedlinePlus