Searching journal content for articles similar to Antipov et al..

Displaying results 1-10 of 6320

For checked items

view abstracts
download to citation manager

Select this article
Research: Haplotype-resolved telomere-to-telomere genome of Aphelenchus avenae implicates P5CS in nematode desiccation stress response
- Yali Zhang,
- Yayi Zhou,
- Yangyang Chen,
- Xueyu Wang,
- Boyan Hu,
- Shahid Siddique,
- Romnick A. Latina,
- Veronica I. Casey,
- Dexin Bo,
- Yucheng Liao,
- Min Zhang,
- Ming Sun,
- Fengjuan Zhang,
- and Dadong Dai
Genome Res. March 23, 2026 ; Published in Advance March 23, 2026, doi:10.1101/gr.281016.125
...Haplotype-resolved telomere-to-telomere of Aphelenchus avenae implicates P5CS in nematode desiccation stress response Yali Zhang,1,2,3,4,7 Yayi Zhou,2,3,7 Yangyang Chen,2,3 Xueyu Wang,2,3 Boyan Hu,2,3 Shahid Siddique,4 Romnick A. Latina,4,5 Veronica I. Casey,4 Dexin Bo,2,3 Yucheng Liao,2,3 Min...
OPEN ACCESS ARTICLE
Select this article
Method: Telomere-to-telomere assembly by preserving contained reads
- Sudhanva Shyam Kamath,
- Mehak Bindra,
- Debnath Pal,
- and Chirag Jain
Genome Res. November 2024 34: 1908-1918; Published in Advance October 15, 2024, doi:10.1101/gr.279311.124
...Bruijn graph-based assemblers and, as such, do not share the limitations of contained read deletion caused in the string graph-based assemblers like hifiasm.We expected improvements in the data sets comprising ONT reads (D2–D4) because these data sets have wide read-length distributions (Supplemental Fig...
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. March 25, 2026 ; Published in Advance March 25, 2026, doi:10.1101/gr.281175.125
...AGACGGGGTTTCACCGTGTTAGCCAGGACGGTCTTGATCTCCTGACCTCGTGATCCACCCGCCTCGGCCTCCCAAAGTG Figure 2. A complex sSMC involving Chromosomes X, 7, and 5. (A) Schematic of the chromosomes involved and the resulting structure of the derivative Chromosome 7 identified in RD_P328. (B) Integrative Genomics Viewer images of short-read sequencing (srGS) and long-read sequencing (lrGS) data...
OPEN ACCESS ARTICLE
Select this article
Method: Long-read reconstruction of many diverse haplotypes with devider
- Jim Shaw,
- Christina Boucher,
- Yun William Yu,
- Noelle Noyes,
- and Heng Li
Genome Res. December 2025 35: 2637-2649; Published in Advance September 23, 2025, doi:10.1101/gr.280510.125
...techniques. Here, we present devider, an algorithm for haplotyping small sequences, such as viruses or genes, from long-read sequencing. devider uses a positional de Bruijn graph with sequence-to-graph alignment on an alphabet of informative alleles to provide a fast assembly-inspired approach compatible...
Select this article
Research: Strong bias in long-read sequencing prevents assembly of Drosophila melanogaster Y-linked genes
- A. Bernardo Carvalho,
- Bernard Y. Kim,
- and Fabiana Uno
Genome Res. January 2026 36: 71-82; Published in Advance October 1, 2025, doi:10.1101/gr.280604.125
...Bio) and Oxford Nanopore Technologies (ONT) are revolutionizing genomics: They are making chromosome-level assemblies routine, and full diploid, telomere-to-telomere (T2T) assemblies are becoming the standard for human assemblies. LRS employs single-molecule sequencing, avoiding many biases, errors...
Select this article
Mini-Review: Toward telomere-to-telomere cat genomes for precision medicine and conservation biology
- William J. Murphy and
- Andrew J. Harris
Genome Res. May 2024 34: 655-664; Published in Advance June 7, 2024, doi:10.1101/gr.278546.123
...; Lescroart et al. 2023). Heatmaps of contig (left) and scaffold (right) N50 metrics are shown from the highest-quality reference s from each respective species. Genomes nearing telomere-to-telomere (T2T) status are represented as assemblies with high contig and scaffold N50's (i.e., domestic cat), whereas...
Select this article
Mini-Review: A Hitchhiker's Guide to long-read genomic analysis
- Medhat Mahmoud,
- Daniel P. Agustinho,
- and Fritz J. Sedlazeck
Genome Res. April 2025 35: 545-558; doi:10.1101/gr.279975.124
...has been instrumental in recent breakthroughs in understanding complex genomic regions and epigenetic regulation. The Telomere-to-Telomere (T2T) consortium (Nurk et al. 2022) demonstrated the power of these technologies by resolving previously intractable regions of the human . In particular, long...
Select this article
Perspective: Unraveling the hidden complexity of cancer through long-read sequencing
- Qiuhui Li,
- Ayse G. Keskus,
- Justin Wagner,
- Michal B. Izydorczyk,
- Winston Timp,
- Fritz J. Sedlazeck,
- Alison P. Klein,
- Justin M. Zook,
- Mikhail Kolmogorov,
- and Michael C. Schatz
Genome Res. April 2025 35: 599-620; Published in Advance March 20, 2025, doi:10.1101/gr.280041.124
...discuss how the telomere-to-telomere and the emerging human pan could enhance the resolution of cancer analysis, potentially revolutionizing early detection and disease monitoring in patients. Finally, we outline strategies for transitioning long-read sequencing from research applications to routine...
OPEN ACCESS ARTICLE
Select this article
Research: Accurate genotyping of three major respiratory bacterial pathogens with ONT R10.4.1 long-read sequencing
- Nora Zidane,
- Carla Rodrigues,
- Valérie Bouchez,
- Martin Rethoret-Pasty,
- Virginie Passet,
- Sylvain Brisse,
- and Chiara Crestani
Genome Res. August 2025 35: 1758-1766; Published in Advance June 2, 2025, doi:10.1101/gr.279829.124
...: phase 2 data release and analysis of R9.0 chemistry. F1000Res 6: 760. doi:10.12688/f1000research.11354.1 ↵Johnson J, Soehnlen M, Blankenship HM. 2023. Long read assemblers struggle with small plasmids. Microb Genom 9: mgen001024. doi:10.1099/mgen.0.001024 ↵Jolley KA, Maiden MCJ. 2010. BIGSdb: scalable...
Select this article
Method: Localizing unmapped sequences with families to validate the Telomere-to-Telomere assembly and identify new hotspots for genetic diversity
- Brianna Chrisman,
- Chloe He,
- Jae-Yoon Jung,
- Nate Stockham,
- Kelley Paskov,
- Peter Washington,
- Juli Petereit,
- and Dennis P. Wall
Genome Res. October 2023 33: 1734-1746; Published in Advance October 25, 2023, doi:10.1101/gr.277175.122
...the next official human reference . The T2T-CHM13 assembly relies on high-fidelity long-read sequencing (HiFi sequencing) and on novel graph-based algorithms for stitching reads together (Nurk et al. 2022). Our localizations rely on short-read sequencing and a novel maximum likelihood algorithm that uses...
OPEN ACCESS ARTICLE

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Antipov et al..

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: