Evidence map›Paper›PMID 39149908›Full record

ArticleNucleic acids research2024

MADDD-seq, a novel massively parallel sequencing tool for simultaneous detection of DNA damage and mutations.

Marc Vermulst, Samantha L Paskvan, Claire S Chung, Kathryn Franke, Nigel Clegg, Sam Minot, Jennifer Madeoy, Annalyssa S Long, Jean-Francois Gout, Jason H Bielas

Abstract read
In one paragraph

Article in Nucleic acids research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Article
  2. Article
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

10 authors.

Marc VermulstUniversity of Southern California, Leonard Davis School of Gerontology, Los Angeles, CA, USA.ORCID 0000-0003-4909-5496
Samantha L PaskvanTranslational Research Program, Public Health Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
Claire S ChungUniversity of Southern California, Leonard Davis School of Gerontology, Los Angeles, CA, USA.
Kathryn FrankeTranslational Research Program, Public Health Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
Nigel CleggTranslational Research Program, Public Health Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
Sam MinotData Core, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
Jennifer MadeoyTranslational Research Program, Public Health Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
Annalyssa S LongTranslational Research Program, Public Health Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
Jean-Francois GoutDepartment of Biological Sciences, Mississippi State University, Mississippi State, MS, USA.
Jason H BielasTranslational Research Program, Public Health Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.

Funding

Temporal control of mitochondrial mutagenesisR01AG075130 · NIA · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Marc Vermulst · 2022 to 2026
$2.6M
PREcision Disease preventIon via somatiC muTagenesis enumeratION (PREDICTION)U01ES029516 · NIEHS · FRED HUTCHINSON CANCER RESEARCH CENTER · PI HOLLAND, ERIC C., LI, CHRISTOPHER I · 2018 to 2022
$2.4M
DNA-damage-induced transcription errors provide a constant stream of amyloid and prion-like proteins in human cellsR01AG083065 · NIA · UNIVERSITY OF SOUTHERN CALIFORNIA · PI Marc Vermulst · 2024 to 2026
$2.1M
Delineating the mechanisms and clinical utility of mtDNA mutagenesis in cancerR01CA204894 · NCI · FRED HUTCHINSON CANCER RESEARCH CENTER · PI HOCKENBERY, DAVID M. · 2017 to 2021
$2.0M
Ultrasensitive measure of human mutagenesis: Connecting the exposome to diseaseR01ES026222 · NIEHS · FRED HUTCHINSON CANCER RESEARCH CENTER · PI HOLLAND, ERIC C. · 2016 to 2020
$2.0M
Understanding the role of transcription errors in aging and diseaseR01AG054641 · NIA · UNIVERSITY OF SOUTHERN CALIFORNIA · PI VERMULST, MARC · 2017 to 2021
$1.7M
NCI NIH HHS R01 CA204894NCI NIH HHS R01CA204894NIA NIH HHS R01 AG054641NIA NIH HHS R01AG054641NIA NIH HHS R01 AG075130NIA NIH HHS R01 AG083065NIEHS NIH HHS R01 ES026222NIEHS NIH HHS R01ES026222NIEHS NIH HHS U01 ES029516University of Southern California
6 · The paper itself

Abstract

Our genome is exposed to a wide variety of DNA-damaging agents. If left unrepaired, this damage can be converted into mutations that promote carcinogenesis or the development of genetically inherited diseases. As a result, researchers and clinicians require tools that can detect DNA damage and mutations with exceptional sensitivity. In this study, we describe a massively parallel sequencing tool termed Mutation And DNA Damage Detection-seq (MADDD-seq) that is capable of detecting O6-methyl guanine lesions and mutations simultaneously, with a single assay. To illustrate the dual capabilities of MADDD-seq, we treated WT and DNA repair deficient yeast cells with the DNA-damaging agent MNNG and tracked DNA lesions and mutations over a 24-h time period. This approach allowed us to identify thousands of DNA adducts and mutations in a single sequencing run and gain deep insight into the kinetics of DNA repair and mutagenesis.

Indexed as

DNA DamageDNA RepairHigh-Throughput Nucleotide SequencingMutationSaccharomyces cerevisiaeDNA AdductsMutagenesisSequence Analysis, DNADNA Adducts

Identifiers

PMID39149908
PMCPMC11381349

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.