ArticleBioinformatics (Oxford, England)2015
RNASeqMetaDB: a database and web server for navigating metadata of publicly available mouse RNA-Seq datasets.
Article in Bioinformatics (Oxford, England), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
8 citing papers in PubMed.
- PEPhub: a database, web interface, and API for editing, sharing, and validating biological sample metadata.bioRxiv : the preprint server for biology · 2024Article
- PEPhub: a database, web interface, and API for editing, sharing, and validating biological sample metadata.GigaScience · 2024Article
- Integrated analysis of a compendium of RNA-Seq datasets for splicing factors.Scientific data · 2020Article
- 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
- GEOMetaCuration: a web-based application for accurate manual curation of Gene Expression Omnibus metadata.Database : the journal of biological databases and curation · 2018Article
- MetaSRA: normalized human sample-specific metadata for the Sequence Read Archive.Bioinformatics (Oxford, England) · 2017Article
- SFMetaDB: a comprehensive annotation of mouse RNA splicing factor RNA-Seq datasets.Database : the journal of biological databases and curation · 2017Article
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
unlabelledGene targeting is a protocol for introducing a mutation to a specific gene in an organism. Because of the importance of in vivo assessment of gene function and modeling of human diseases, this technique has been widely adopted to generate a large number of mutant mouse models. Due to the recent breakthroughs in high-throughput sequencing technologies, RNA-Seq experiments have been performed on many of these mouse models, leading to hundreds of publicly available datasets. To facilitate the reuse of these datasets, we collected the associated metadata and organized them in a database called RNASeqMetaDB. The metadata were manually curated to ensure annotation consistency. We developed a web server to allow easy database navigation and data querying. Users can search the database using multiple parameters like genes, diseases, tissue types, keywords and associated publications in order to find datasets that match their interests. Summary statistics of the metadata are also presented on the web server showing interesting global patterns of RNA-Seq studies. AVAILABILITY AND IMPLEMENTATION: Freely available on the web at http://rnaseqmetadb.ece.tamu.edu.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.