University of California-Berkeley · Biomedical EngineeringHolmes Lab
Ian H Holmes · Berkeley, California
Research Focus
Professor Ian H. Holmes leads a research lab at UC Berkeley focusing on developing user-friendly bioinformatics tools for genomic analysis. The lab works on enhancing the GMOD suite, specifically JBrowse, to make genome annotations and analysis more accessible to biologists. Their innovative approaches include machine learning features to assist users in navigating complex genomic datasets and user-friendly design improvements.
bioinformaticsgenome annotationJBrowsemachine learninggenomic visualizationneural networksevolutionary biologyuser interface designdata accessibility
Research Aims
5AIM 01Improve JBrowse's user interface to enhance usability for biologists.
AIM 02Integrate machine learning capabilities to assist in genomic data analysis.
AIM 03Facilitate the navigation of genomic datasets using evolutionary conservation principles.
AIM 04Conduct user testing and design sprints to improve tool performance.
AIM 05Expand outreach through workshops and training materials to increase GMOD usage.
Skills the Lab Values
JavaScriptmachine learningweb developmentgenome data visualizationbioinformatics toolsusability testingdata analysisworkshop facilitationperformance benchmarking
Output against the department
Publications256top 38% of dept.227th of 595
this lab
most publishedleast published
Citations21ktop 15% of dept.91st of 595
this lab
most citedleast cited
Career totals from OpenAlex, compared against labs that share a department. A department spans everything from one paper to tens of thousands, so bar heights are on a log scale — otherwise the largest lab would flatten every other bar to a line.