We have greatly expanded the data sets available on the most recent human assembly, hg38/GRCh38, to include updated gene prediction sets from GENCODE, more phenotype- and disease-associated variants from ClinVar and ClinGen, more genomic regulatory data, and a new multiple genome alignment. Some release highlights of this year include new and updated genome browsers for various assemblies, including bonobo and zebrafish new gene annotation sets improvements to track and assembly hub support and a new interactive tool, the "Data Integrator", for intersecting data from multiple tracks.
#Ucsc genome browser software#
The UCSC Genome Browser has been under continuous development since its inception with new data sets and software features added frequently. 2017:45(D1)įor the past 15 years, the UCSC Genome Browser () has served the international research community by offering an integrated platform for viewing and analyzing information from a large database of genome assemblies and their associated annotations. Published by Oxford University Press on behalf of Nucleic Acids Research. This year's highlights include newly designed home and gateway pages a new 'multi-region' track display configuration for exon-only, gene-only and custom regions visualization new genome browsers for three species (brown kiwi, crab-eating macaque and Malayan flying lemur) eight updated genome assemblies extended support for new data types such as CRAM, RNA-seq expression data and long-range chromatin interaction pairs and the unveiling of a new supported mirror site in Japan. The browser's publicly accessible databases are the backbone of a rich, integrated bioinformatics tool suite that includes a graphical interface for data queries and downloads, alignment programs, command-line utilities and more. Since its 2001 debut, the University of California, Santa Cruz (UCSC) Genome Browser () team has provided continuous support to the international genomics and biomedical communities through a web-based, open source platform designed for the fast, scalable display of sequence alignments and annotations landscaped against a vast collection of quality reference genome assemblies. Within weeks of learning about the outbreak of coronavirus, UCSC released a genome browser, with detailed annotation tracks, for the SARS-CoV-2 RNA reference assembly.
New data tracks added for human and mouse genomes include the ENCODE registry of candidate cis-regulatory elements, promoters from the Eukaryotic Promoter Database, and NCBI RefSeq Select and Matched Annotation from NCBI and EMBL-EBI (MANE). Striving to keep data up-to-date, new updates to gene annotations include GENCODE Genes, NCBI RefSeq Genes, and Ensembl Genes. New features released this past year include a Hi-C heatmap display, a phased family trio display for VCF files, and various track visualization improvements. As the field of genomics grows and more data become available, new modes of display are required to accommodate new technologies. For more than two decades, the UCSC Genome Browser database () has provided high-quality genomics data visualization and genome annotations to the research community.
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