Evidence map›Paper›PMID 41251146›Full record

ArticleNucleic acids research2026

The UCSC Genome Browser database: 2026 update.

Jonathan Casper, Matthew L Speir, Brian J Raney, Gerardo Perez, Luis R Nassar, Christopher M Lee, Angie S Hinrichs, Jairo Navarro Gonzalez, Clay Fischer, Mark Diekhans and 12 more

Abstract read
In one paragraph

Article in Nucleic acids research, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 113 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
113citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

113 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. LncRNAEpigenetics · 2026
    Article
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53 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

22 authors.

Jonathan CasperGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0009-0009-5722-1916
Matthew L SpeirGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0002-2035-1129
Brian J RaneyGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0002-9708-1390
Gerardo PerezGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0009-0004-7658-2219
Luis R NassarGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0002-6706-2586
Christopher M LeeGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0001-6574-3567
Angie S HinrichsGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0002-1697-1130
Jairo Navarro GonzalezGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0003-4022-4829
Clay FischerGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.
Mark DiekhansGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0002-0430-0989
Hiram ClawsonGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0002-0480-0545
Anna Benet-PagesInstitute of Neurogenomics, Helmholtz Zentrum Munchen GmbH-German Research Center for Environmental Health, 85764 Neuherberg, Germany.
Galt P BarberGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.
Charles J VaskeGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0001-8151-6612
Marijke J van BarenGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0002-1218-4527
Karen WangGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.
Yesenia Joanna Puga RodriguezGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.
Jaidan Ashlyn Jenkins-KieferGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0009-0009-4558-4904
Megna ChalamalaGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0009-0002-2145-1436
David HausslerGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0003-1533-4575
William James KentGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.
Maximilian HaeusslerGenomics Institute, University of California Santa Cruz, Santa Cruz, CA 95064, United States.ORCID 0000-0001-8721-8253

Funding

The UCSC Genome BrowserU24HG002371 · NHGRI · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI Maximilian Haeussler · 2022 to 2026
$17.6M
An in integrated platform for multiomic analyses of pathogen and host data using scalable public infrastructureU24AI183870 · NIAID · PENNSYLVANIA STATE UNIVERSITY, THE · PI Kelsey M Beavers, Maximilian Haeussler · 2024 to 2026
$10.2M
Data Resource and Administrative Coordination Center for the Scalable and Systematic Neurobiology of Psychiatric and Neurodevelopmental Disorder Risk Genes ConsortiumU24MH132628 · NIMH · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI DAVID H HAUSSLER, Tomasz Nowakowski · 2023 to 2026
$7.9M
California Institute of Regenerative Medicine DISC0-14514National Institute of Allergy and Infectious Diseases U24AI183870National Science Foundation 2419522NHGRI NIH HHS U24 HG002371NIAID NIH HHS U24 AI183870NIH HHS U24HG002371NIMH NIH HHS RF1MH13266NIMH NIH HHS U24 MH132628
6 · The paper itself

Abstract

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 consequences of mutation from MaveDB; QuickLift, a tool to copy annotation data seen on one assembly for display on another related assembly; and HubSpace, an initiative to simplify the process of creating and using track hubs by providing each user account with dedicated storage on UCSC's infrastructure.

Indexed as

Databases, GeneticGenomeGenomicsWeb BrowserHumansMolecular Sequence AnnotationMutationSoftwareUser-Computer Interface

Identifiers

PMID41251146
PMCPMC12807699

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.