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- W2951551837 abstract "Development of next-generation sequencing has revolutionized molecular biology by enhancing the ability to perform genome-wide studies. However, due to the need for bioinformatic expertise and the size of resulting datasets, use of these technologies is still beyond the capabilities of many laboratories. Herein, we present the Wardrobe Experiment Management System, which allows users to store, visualize and analyze epigenomic and transcriptomic next-generation sequencing data using a biologist-friendly, web-based graphical user interface without the need for programming expertize. Wardrobe can be installed on consumer-class hardware within an institutional local network. Analysis capabilities include predefined pipelines that allow the user to download data from either institutional core facilities or public databases, perform quality control, map reads and visualize data on a built-in mirror of the University of California, Santa Cruz (UCSC) genome browser. Reads per kilobase of transcript per million reads mapped (RPKMs) are calculated for RNA sequencing (RNA-Seq), and islands of enrichment are identified for chromatin immunoprecipitation sequencing (ChIP-Seq) and similar datasets. Advanced analysis capabilities include analyzing differential gene expression and binding and creating average tag density profiles and heatmaps. The Wardrobe package and documentation is available at https://biowardrobe.com. A limited functionality demo-version is available at http://demo.biowardrobe.com" @default.
- W2951551837 created "2019-06-27" @default.
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- W2951551837 date "2014-12-18" @default.
- W2951551837 modified "2023-09-25" @default.
- W2951551837 title "BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data" @default.
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- W2951551837 doi "https://doi.org/10.1101/012799" @default.
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