Evidence map›Paper›PMID 42853677›Full record

ArticleSTAR protocols2026

Protocol for genome-wide differential methylation using long-read DNA sequencing in the cortex of a mouse model of Alzheimer's disease.

Ümran Yaman, Emil Gustavsson, Jasmaine Lee, Hermione Ugolini, Hannah Macpherson, Paige Mumford, Frances Wiseman, John Hardy, Dervis A Salih

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in STAR protocols, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

9 authors.

Ümran YamanUK Dementia Research Institute at UCL, Gower Street, London WC1E 6BT, UK; Department of Neuromuscular Disease, UCL Queen Square Institute of Neurology, London WC1N 3BG, UK; Department of Cognitive Neuroscience, Institute of Neurological Sciences, İstanbul-Cerrahpaşa University, İstanbul 34098, Türkiye; Department of Neurodegenerative Disease, Queen Square Institute of Neurology, University College London, London WC1N 3BG, UK.
Emil GustavssonUK Dementia Research Institute at University of Cambridge, Cambridge CB2 0AH, UK; Department of Clinical Neurosciences, School of Clinical Medicine, University of Cambridge, Cambridge CB2 0QQ, UK; Department of Genetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London WC1N 1EH, UK.
Jasmaine LeeDepartment of Neurodegenerative Disease, Queen Square Institute of Neurology, University College London, London WC1N 3BG, UK.
Hermione UgoliniDepartment of Neurodegenerative Disease, Queen Square Institute of Neurology, University College London, London WC1N 3BG, UK.
Hannah MacphersonDepartment of Neurodegenerative Disease, Queen Square Institute of Neurology, University College London, London WC1N 3BG, UK; Department of Genetics and Genomic Medicine, Great Ormond Street Institute of Child Health, University College London, London WC1N 1EH, UK; NIHR Great Ormond Street Hospital Biomedical Research Centre, University College London, London WC1N 1EH, UK.
Paige MumfordUK Dementia Research Institute at UCL, Gower Street, London WC1E 6BT, UK.
Frances WisemanUK Dementia Research Institute at UCL, Gower Street, London WC1E 6BT, UK.
John HardyUK Dementia Research Institute at UCL, Gower Street, London WC1E 6BT, UK; Department of Neurodegenerative Disease, Queen Square Institute of Neurology, University College London, London WC1N 3BG, UK.
Dervis A SalihUK Dementia Research Institute at UCL, Gower Street, London WC1E 6BT, UK; Department of Neurodegenerative Disease, Queen Square Institute of Neurology, University College London, London WC1N 3BG, UK. Electronic address: dervis.salih@ucl.ac.uk.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Third-generation sequencing enables direct detection of genome-wide 5-methylcytosine without bisulfite conversion. Here, we present a protocol for generating long-read DNA sequencing from mouse cortex and performing genome-wide differential methylation analysis. We describe steps for high-molecular-weight DNA extraction, data generation, and downstream analysis. We demonstrate the workflow in the App

Indexed as

BioinformaticsGenomicsImmunologyNeuroscienceNMGN Focused CollectionSequence analysis

Identifiers

PMID42853677
PMCPMC13675703

What OpenQuestion holds

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Registered trials

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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.