Brian J. Raney

A global view of human centromere variation and evolution

Shenghan Gao, Keisuke K. Oshima, Shu-Cheng Chuang, Mark Loftus et autres

ABSTRACT Centromeres are essential for accurate chromosome segregation during cell division, yet their highly repetitive sequence has historically hindered their complete assembly and characterization. Consequently, the full spectrum of centromere diversity across individuals, populations, and evolutionary contexts remains largely unexplored. Here, we …

us, it, cn, de, gb, nl, ca, il, ae (code pays fourni par la source)

HPRC2: A human pangenome reference with near-complete coverage of common genetic variation

Julian Lucas, Prajna Hebbar, Wen‐Wei Liao, Juan F Macias-Velasco et autres

A pangenome reference overcomes the inherent limitation of any individual reference genome by integrating the variation present in a population. We present the Human Pangenome Reference Consortium's (HPRC) Release 2 (HPRC2), an openly available, second phase pangenome that is an approximately fivefold …

us, it, de, ca, fr, il, ae, gb, qa (code pays fourni par la source)

The UCSC Genome Browser database: 2026 update

Jonathan D. Casper, Matthew L Speir, Brian J. Raney, Gerardo Perez et autres

Now in its 25th year of operation, the UCSC Genome Browser (https://genome.ucsc.edu) provides a central location for researchers around the world to display and compare annotations on assembled genomes. Highlighted updates include a positional heatmap display, used to show data on functional …

us, de (code pays fourni par la source)

The UCSC Genome Browser database: 2025 update

Gerardo Perez, Galt P Barber, Anna Benet‐Pagès, Jonathan D. Casper et autres

The UCSC Genome Browser (https://genome.ucsc.edu) is a widely utilized web-based tool for visualization and analysis of genomic data, encompassing over 4000 assemblies from diverse organisms. Since its release in 2001, it has become an essential resource for genomics and bioinformatics research. Annotation …

us, de (code pays fourni par la source)

The UCSC Genome Browser database: 2024 update

Brian J. Raney, Galt P Barber, Anna Benet‐Pagès, Jonathan D. Casper et autres

The UCSC Genome Browser (https://genome.ucsc.edu) is a web-based genomic visualization and analysis tool that serves data to over 7,000 distinct users per day worldwide. It provides annotation data on thousands of genome assemblies, ranging from human to SARS-CoV2. This year, we have …

us, de, ch (code pays fourni par la source)

GenArk: towards a million UCSC genome browsers

Hiram Clawson, Brian T. Lee, Brian J. Raney, Galt P Barber et autres

Interactive graphical genome browsers are essential tools in genomics, but they do not contain all the recent genome assemblies. We create Genome Archive (GenArk) collection of UCSC Genome Browsers from NCBI assemblies. Built on our established track hub system, this enables fast …

us, de (code pays fourni par la source)

The UCSC Genome Browser database: 2023 update

Luis R Nassar, Galt P Barber, Anna Benet‐Pagès, Jonathan D. Casper et autres

The UCSC Genome Browser (https://genome.ucsc.edu) is an omics data consolidator, graphical viewer, and general bioinformatics resource that continues to serve the community as it enters its 23rd year. This year has seen an emphasis in clinical data, with new tracks and an …

us, de (code pays fourni par la source)

The dynseq browser track shows context-specific features at nucleotide resolution

Surag Nair, Arjun Barrett, Daofeng Li, Brian J. Raney et autres

us (code pays fourni par la source)

Author Correction: Comparative and demographic analysis of orang-utan genomes

Devin P. Locke, LaDeana W. Hillier, Wesley C. Warren, Kim C. Worley et autres

In this Article, we reported genome sequencing data from five Sumatran and five Bornean orang-utans. In re-analysing these data, Banes et al. 1 found that eight of the ten samples were mislabelled, and we wish to correct the original publication according to …

us, gb, es, pt, it, sk, dk (code pays fourni par la source)

The dynseq genome browser track enables visualization of context-specific, dynamic DNA sequence features at single nucleotide resolution

Surag Nair, Arjun Barrett, Daofeng Li, Brian J. Raney et autres

Abstract We introduce the dynseq genome browser track, which displays DNA nucleotide characters scaled by user-specified, base-resolution scores provided in the BigWig file format. The dynseq track enables visualization of context-specific, informative genomic sequence features. We demonstrate its utility in three popular …

us (code pays fourni par la source)

Variant interpretation: UCSC Genome Browser Recommended Track Sets

Anna Benet‐Pagès, Kate R. Rosenbloom, Luis R Nassar, Christopher M. Lee et autres

The UCSC Genome Browser has been an important tool for genomics and clinical genetics since the sequence of the human genome was first released in 2000. As it has grown in scope to display more types of data it has also grown …

us, de (code pays fourni par la source)

The UCSC Genome Browser database: 2022 update

Brian T. Lee, Galt P Barber, Anna Benet‐Pagès, Jonathan D. Casper et autres

The UCSC Genome Browser, https://genome.ucsc.edu, is a graphical viewer for exploring genome annotations. The website provides integrated tools for visualizing, comparing, analyzing, and sharing both publicly available and user-generated genomic datasets. Data highlights this year include a collection of easily accessible public …

us, de (code pays fourni par la source)