Publications by authors named "Gretta Kellogg"
Article Synopsis
- Reproducibility poses significant challenges in (epi)genomic research due to complex experiments and the high-speed generation of sequencing data.
- The Platform for Epi-Genomic Research (PEGR) is introduced as a web-based tool for managing and quality controlling experiments from start to finish.
- PEGR enhances rigor and reproducibility for both biochemists and bioinformaticians, thanks to its compatibility with various assays and integration with the Galaxy platform.
Article Synopsis
- - STENCIL is a web templating engine designed to help researchers aggregate, visualize, and share experimental data effectively, making it easier to evaluate experiment success and reproducibility.
- - The platform offers customizable templates that can produce high-quality, downloadable visualizations while maintaining connections to original data, including support for a wide range of data types in life sciences.
- - STENCIL can integrate with the bioinformatics platform Galaxy, allowing users to access and share data programmatically, and has already been utilized in analyzing over 2,400 genomic datasets.
The genome-wide architecture of chromatin-associated proteins that maintains chromosome integrity and gene regulation is not well defined. Here we use chromatin immunoprecipitation, exonuclease digestion and DNA sequencing (ChIP-exo/seq) to define this architecture in Saccharomyces cerevisiae. We identify 21 meta-assemblages consisting of roughly 400 different proteins that are related to DNA replication, centromeres, subtelomeres, transposons and transcription by RNA polymerase (Pol) I, II and III.
View Article and Find Full Text PDFThere has been a rapid development in genome sequencing, including high-throughput next generation sequencing (NGS) technologies, automation in biological experiments, new bioinformatics tools and utilization of high-performance computing and cloud computing. ChIP-based NGS technologies, e.g.
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