ArticleDatabase : the journal of biological databases and curation2018
GEOMetaCuration: a web-based application for accurate manual curation of Gene Expression Omnibus metadata.
Article in Database : the journal of biological databases and curation, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Public Omics Explorer (POE): Enabling integrative semantic search across GEO omics datasets based on PubMed publications.Computational and structural biotechnology journal · 2025Article
- RummaGEO: Automatic mining of human and mouse gene sets from GEO.Patterns (New York, N.Y.) · 2024Article
- RummaGEO: Automatic Mining of Human and Mouse Gene Sets from GEO.bioRxiv : the preprint server for biology · 2024Article
- TidyGEO: preparing analysis-ready datasets from Gene Expression Omnibus.Journal of integrative bioinformatics · 2024Article
- Differential Expression Enrichment Tool (DEET): an interactive atlas of human differential gene expression.NAR genomics and bioinformatics · 2023Article
- Metadata retrieval from sequence databases with ffq.Bioinformatics (Oxford, England) · 2023Article
- GAUGE-Annotated Microbial Transcriptomic Data Facilitate Parallel Mining and High-Throughput Reanalysis To Form Data-Driven Hypotheses.mSystems · 2021Article
- Integrated analysis of a compendium of RNA-Seq datasets for splicing factors.Scientific data · 2020Article
- A content-based dataset recommendation system for researchers-a case study on Gene Expression Omnibus (GEO) repository.Database : the journal of biological databases and curation · 2020Article
- Restructured GEO: restructuring Gene Expression Omnibus metadata for genome dynamics analysis.Database : the journal of biological databases and curation · 2019Article
- A data mining paradigm for identifying key factors in biological processes using gene expression data.Scientific reports · 2018Article
- RBPMetaDB: a comprehensive annotation of mouse RNA-Seq datasets with perturbations of RNA-binding proteins.Database : the journal of biological databases and curation · 2018Article
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Authors and funding
3 authors.
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Abstract
Abstract: Metadata curation has become increasingly important for biological discovery and biomedical research because a large amount of heterogeneous biological data is currently freely available. To facilitate efficient metadata curation, we developed an easy-to-use web-based curation application, GEOMetaCuration, for curating the metadata of Gene Expression Omnibus datasets. It can eliminate mechanical operations that consume precious curation time and can help coordinate curation efforts among multiple curators. It improves the curation process by introducing various features that are critical to metadata curation, such as a back-end curation management system and a curator-friendly front-end. The application is based on a commonly used web development framework of Python/Django and is open-sourced under the GNU General Public License V3. GEOMetaCuration is expected to benefit the biocuration community and to contribute to computational generation of biological insights using large-scale biological data. An example use case can be found at the demo website: http://geometacuration.yubiolab.org. Database URL: https://bitbucket.com/yubiolab/GEOMetaCuration
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