Searching journal content for articles similar to Metzker 15 (12): 1767.

Displaying results 1-10 of 1286

For checked items

view abstracts
download to citation manager

Select this article
Mini-Review: Evolution of genome-wide methylation profiling technologies
- Carolina Montano and
- Winston Timp
Genome Res. April 2025 35: 572-582; doi:10.1101/gr.278407.123
...uniform and less biased GC coverage, and even the ability to differentiate between 5mC and 5-hydroxymethylcytosine (5hmC) in some cases.Single moleculeDirect DNA sequencing using long-read sequencing (LRS) platforms like Oxford Nanopore Technologies (ONT) and Pacific Biosciences (PacBio) offers new...
OPEN ACCESS ARTICLE
Select this article
Method: Spatial domain detection using contrastive self-supervised learning for spatial multi-omics technologies
- Jianing Yao,
- Jinglun Yu,
- Brian Caffo,
- Stephanie C. Page,
- Keri Martinowich,
- and Stephanie C. Hicks
Genome Res. July 2025 35: 1621-1632; Published in Advance May 20, 2025, doi:10.1101/gr.279380.124
...in Healthcare, Johns Hopkins University, Baltimore, Maryland 21218, USA Corresponding author: shicks19@jhu.eduAbstractRecent advances in spatially resolved single-omic and multi-omics technologies have led to the emergence of computational tools to detect and predict spatial domains. Additionally, histological...
OPEN ACCESS ARTICLE
Select this article
Method: Analysis of coding gene expression from small RNA sequencing
- Aygun Azadova,
- Anthonia Ekperuoh,
- Greg N. Brooke,
- and Antonio Marco
Genome Res. March 2026 36: 611-618; Published in Advance February 10, 2026, doi:10.1101/gr.281364.125
...a sample, reverse-transcribing it into stable cDNA, and finally sequencing using (mostly) Illumina technology (Bentley et al. 2008). RNA-seq has multiple technical variations, either to identify specific types of transcripts or to characterize other RNA products. For instance, small RNA sequencing (s...
Select this article
Research: Centromeric instability and chromoanasynthesis observed in nine supernumerary marker chromosomes resolved with long-read genome sequencing
- Kristine Bilgrav Saether,
- Angelo Salazar Mantero,
- Marlene Ek,
- Maria Pettersson,
- Elisabeth Syk Lundberg,
- Christopher M. Grochowski,
- Claudia M.B. Carvalho,
- Jesper Eisfeldt,
- and Anna Lindstrand
Genome Res. April 2026 36: 661-670; Published in Advance March 25, 2026, doi:10.1101/gr.281175.125
...-to-telomere (T2T-CHM13) assembly provides enhanced sequence completeness across satellite and other repetitive regions commonly involved in structural variant (SV) formation (Nurk et al. 2022; Bilgrav Saether et al. 2024).This study aims to evaluate the capability of emerging genomic technologies, specifically...
OPEN ACCESS ARTICLE
Select this article
Research: Assessing the readiness of Oxford Nanopore sequencing for clinical genomics applications
- Judith Arres,
- Santosh Elavalli,
- Shalini Behl,
- Daniel Matias Sanchez,
- Ayesha Al Ali,
- Abdelrahman Ahmed Yehia Abdelaziz Saad,
- Azza Attia,
- Cyla Minas,
- Sharika Pariyachery,
- Shariq Ahmed,
- Fatmah Aldhuhoori,
- Nitu Thulasidharan,
- Gurunath Katagi,
- Omar Soliman,
- Shilp Purohit,
- Vinay Kusuma,
- Raony Cardenas,
- Thyago Cardoso,
- Luis F. Paulin,
- Philippe Sanio,
- Joseph Mafofo,
- Haiguo Wu,
- Val Zvereff,
- Albarah El-Khani,
- Fahed Al Marzooqi,
- Tiago R. Magalhães,
- Fritz J. Sedlazeck,
- and Javier Quilez
Genome Res. March 2026 36: 460-471; Published in Advance February 11, 2026, doi:10.1101/gr.280134.124
...: jquilez@m42.aeAbstractLong-read sequencing (LRS) technologies, namely, Oxford Nanopore Technologies (ONT) and Pacific Biosciences (PacBio), have emerged as promising solutions to overcome the limitations of short-read sequencing (SRS). Nevertheless, the still higher sequencing error rates compared...
Select this article
Method: Nanopore-based consensus sequencing enables accurate multimodal tumor cell-free DNA profiling
- Li-Ting Chen,
- Myrthe Jager,
- Dàmi Rebergen,
- Geertruid J. Brink,
- Tom van den Ende,
- Willem Vanderlinden,
- Pauline Kolbeck,
- Marc Pagès-Gallego,
- Ymke van der Pol,
- Nicolle Besselink,
- Norbert Moldovan,
- Nizar Hami,
- Wigard P. Kloosterman,
- Hanneke van Laarhoven,
- Florent Mouliere,
- Ronald Zweemer,
- Jan Lipfert,
- Sarah Derks,
- Alessio Marcozzi,
- and Jeroen de Ridder
Genome Res. April 2025 35: 886-899; Published in Advance January 13, 2025, doi:10.1101/gr.279144.124
...of sequencing platforms are used for -wide cfDNA sequencing, including Illumina sequencing, Oxford Nanopore Technologies (nanopore) sequencing, and PacBio sequencing (Cristiano et al. 2019; Choy et al. 2022; Lau et al. 2023), with Illumina sequencing being the predominant platform owing to its low-cost per base...
OPEN ACCESS ARTICLE
Select this article
Method: High-fidelity bidirectional translation between single-cell transcriptomes and DNA methylomes with scBOND
- Kehan Lang,
- Chenyang Jia,
- Siyu Li,
- Yi Guo,
- Dingjun Hu,
- and Shengquan Chen
Genome Res. April 2026 36: 769-784; Published in Advance March 26, 2026, doi:10.1101/gr.281350.125
...technologies, single-cell RNA sequencing (scRNA-seq) has emerged as a fundamental technique for characterizing the functional state of individual cells. Complementary to scRNA-seq, single-cell DNA methylation (scDNAm) sequencing provides -wide maps of epigenetic modifications at single-cell resolution...
OPEN ACCESS ARTICLE
Select this article
Method: EnDeep4mC predicts DNA N⁴-methylcytosine sites using a dual-adaptive feature encoding framework in deep ensembles
- Shuyu Zhang,
- Quan Zou,
- Mengting Niu,
- Zhibin Lv,
- Antony Stalin,
- and Ximei Luo
Genome Res. March 2026 36: 589-599; Published in Advance February 17, 2026, doi:10.1101/gr.280977.125
...epis using modern sequencing technologies. Nat Rev Genet 20: 157–172. doi:10.1038/s41576-018-0081-3 ↵Bonet J, Chen MD, Dabad M, Heath S, Gonzalez-Perez A, Lopez-Bigas N, Lagergren J. 2022. DeepMP: a deep learning tool to detect DNA base modifications on nanopore sequencing data. Bioinformatics 38: 1235...
OPEN ACCESS ARTICLE
Select this article
Method: PoreMeth2 for decoding the evolution of methylome alterations with nanopore sequencing
- Gianluca Mattei,
- Marta Baragli,
- Barbara Gega,
- Alessandra Mingrino,
- Martina Chieca,
- Tommaso Ducci,
- Gianmaria Frigè,
- Luca Mazzarella,
- Romina D'Aurizio,
- Francesco De Logu,
- Romina Nassini,
- Pier Giuseppe Pelicci,
- and Alberto Magi
Genome Res. November 2025 35: 2501-2512; Published in Advance October 20, 2025, doi:10.1101/gr.280259.124
...to regions with high CpG density (more than two to three CpG per 100 bp) (Sun et al. 2015).However, the past decade has seen the emergence of long-read sequencing (LRS) technologies, based on nanopore sequencing (Clarke et al. 2009) and on single-molecule real-time (SMRT) sequencing (Rhoads and Au 2015...
Select this article
Method: Ultra-long sequencing for contiguous haplotype resolution of the human immunoglobulin heavy-chain locus
- Mari B. Gornitzka,
- Egil Røsjø,
- Uddalok Jana,
- Easton E. Ford,
- Alan Tourancheau,
- William D. Lees,
- Zachary Vanwinkle,
- Melissa L. Smith,
- Corey T. Watson,
- and Andreas Lossius
Genome Res. October 2025 35: 2240-2251; Published in Advance August 21, 2025, doi:10.1101/gr.280400.125
...separation of the two haplotypes was not warranted.DiscussionIn this study, we present a method that utilizes ONT ultra-long sequencing and adaptive sampling to generate phased, accurate, and complete IGH assemblies without the need for complementary support by other technologies. By employing DNA extraction...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Metzker 15 (12): 1767.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: