Searching journal content for articles similar to Bista et al. 34 (10): 1553.

Displaying results 1-10 of 6309

For checked items

view abstracts
download to citation manager

Select this article
Method: De novo antibody identification in human blood from full-length single B cell transcriptomics and matching haplotype-resolved germline assemblies
- John Beaulaurier,
- Lynn Ly,
- J. Andrew Duty,
- Carly Tyer,
- Christian Stevens,
- Chuan-Tien Hung,
- Akash Sookdeo,
- Alex W. Drong,
- Shreyas Kowdle,
- Axel Guzman-Solis,
- Domenico Tortorella,
- Daniel J. Turner,
- Sissel Juul,
- Scott Hickey,
- and Benhur Lee
Genome Res. April 2025 35: 929-941; Published in Advance March 21, 2025, doi:10.1101/gr.279392.124
...the IG kappa (IGK) locus on Chromosome 2 or the IG lambda (IGL) locus on Chromosome 22. The IG loci have complex genomic organization, high sequence diversity and undergo extensive rearrangement in B cells during antigen-mediated activation and maturation. Consequently, assembly of these loci benefits...
OPEN ACCESS ARTICLE
Select this article
Method: Geometric deep learning framework for de novo genome assembly
- Lovro Vrček,
- Xavier Bresson,
- Thomas Laurent,
- Martin Schmitz,
- Kenji Kawaguchi,
- and Mile Šikić
Genome Res. April 2025 35: 839-849; Published in Advance October 29, 2024, doi:10.1101/gr.279307.124
...haploid s.De novo assembly provides essential insights into organism's biology and evolution by reconstructing its from short DNA fragments (or reads), without the access to the original genomic sequence. The assembly process is based on intricate methods on strings and graphs which were first introduced...
Select this article
Research: Dynamic barriers modulate cohesin positioning and genome folding at fixed occupancy
- Hadi Rahmaninejad,
- Yao Xiao,
- Maxime M.C. Tortora,
- and Geoffrey Fudenberg
Genome Res. August 2025 35: 1745-1757; Published in Advance July 8, 2025, doi:10.1101/gr.280108.124
...model argues that CTCF barrier bound times effectively approach those of cohesin extruder lifetimes. Together, we demonstrate how models that are informed by biophysically measured protein dynamics broaden our understanding of folding.Genome-wide chromosome conformation capture (Hi-C) reveals multiple...
OPEN ACCESS ARTICLE
Select this article
Research: Stable genome structures in living fossil fishes
- Cheng Wang,
- Chase D. Brownstein,
- Wenjun Chen,
- Zufa Ding,
- Dan Yu,
- Yu Deng,
- Chenguang Feng,
- Thomas J. Near,
- Shunping He,
- and Liandong Yang
Genome Res. February 2026 36: 318-329; Published in Advance January 13, 2026, doi:10.1101/gr.280800.125
...this study, we present two new chromosomal-level assemblies for the alligator gar (Atractosteus spatula) and longnose gar (Lepisosteus osseus) to investigate the dynamics of genomic structural and sequence evolution in living fossils. Our objectives are to (1) characterize the chromosome evolution...
Select this article
Research: Loss of multilevel 3D genome organization during breast cancer progression
- Roberto Rossini,
- Saleh Oshaghi,
- Maxim Nekrasov,
- Aurélie Bellanger,
- Renae Domaschenz,
- Yasmin Dijkwel,
- Mohamed Abdelhalim,
- Rahul Agrawal,
- Marit Ledsaak,
- Philippe Collas,
- Ragnhild Eskeland,
- David Tremethick,
- and Jonas Paulsen
Genome Res. January 2026 36: 20-37; Published in Advance October 9, 2025, doi:10.1101/gr.280791.125
...is accompanied by the formation of de novo enhancer contacts and activation of MYC, illustrating how structural genomic variants can alter the 3D during oncogenesis. In summary, our findings provide evidence for the loss of organization at multiple scales during breast cancer progression, revealing novel...
Select this article
Research: Modest increase in the de novo single-nucleotide mutation rate in house mice born by assisted reproduction
- Laura Blanco-Berdugo,
- Alexis Garretson,
- and Beth L. Dumont
Genome Res. January 2026 36: 50-60; Published in Advance November 13, 2025, doi:10.1101/gr.281180.125
...found no evidence for an increased point mutation rate in animals born via in vitro fertilization (IVF) (Caperton et al. 2007), a retrospective comparative analysis in humans uncovered a significantly higher de novo point mutation rate in IVF-born children (Wang et al. 2021). However, the underlying...
Select this article
Method: Full-resolution HLA and KIR gene annotations for human genome assemblies
- Ying Zhou,
- Li Song,
- and Heng Li
Genome Res. November 2024 34: 1931-1941; Published in Advance June 5, 2024, doi:10.1101/gr.278985.124
...and killer cell immunoglobulin-like receptor (KIR) genes play a central role in immune responses. They are clustered in two genomic regions, respectively. The HLA genes are located in the major histocompatibility complex (MHC) region on the short arm of Chromosome 6. The MHC region spans ∼5 Mb. Coding genes...
Select this article
Method: Predicted protein 3D structures provide essential insights into the genetic architecture underlying phenotypic diversity in maize
- Shuai Wang,
- Merritt Khaipho-Burch,
- Lynn C. Johnson,
- Zachary R. Miller,
- Peter J. Bradbury,
- Doug Speed,
- William J. Allen,
- M. Cinta Romay,
- Jiquan Xue,
- Edward S. Buckler,
- Guillaume P. Ramstein,
- and Baoxing Song
Genome Res. January 2026 36: 214-225; Published in Advance October 31, 2025, doi:10.1101/gr.280514.125
...de novo assembled using long sequencing reads, and their protein sequences have been annotated (Hufford et al. 2021). The NAM population has been characterized by more than 100 different phenotypes in different environments more than tens of millions of plants, ranging from agronomic characteristics...
Select this article
Research: Mitotic chromosomes harbor cell type– and species-specific structural features within a universal loop array conformation
- Marlies E. Oomen,
- A. Nicole Fox,
- Inma Gonzalez,
- Amandine Molliex,
- Thaleia Papadopoulou,
- Pablo Navarro,
- and Job Dekker
Genome Res. August 2025 35: 1733-1744; Published in Advance June 6, 2025, doi:10.1101/gr.280648.125
...condensin-mediated loop extrusion and mitotic chromosome formation. Interestingly, these analyses revealed species-specific differences in mitotic chromatin loop sizes in relation to differences in genomic arm length. We find that mitotic chromosome folding principles are insensitive to species- and cell...
OPEN ACCESS ARTICLE
Select this article
Resource: Chromosome-level subgenome-aware de novo assembly provides insight into Saccharomyces bayanus genome divergence after hybridization
- Cory Gardner,
- Junhao Chen,
- Christina Hadfield,
- Zhaolian Lu,
- David Debruin,
- Yu Zhan,
- Maureen J. Donlin,
- Tae-Hyuk Ahn,
- and Zhenguo Lin
Genome Res. November 2024 34: 2133-2146; Published in Advance September 17, 2024, doi:10.1101/gr.279364.124
...Chromosome-level sub-aware de novo assembly provides insight into Saccharomyces bayanus divergence after hybridization Cory Gardner1,2,5, Junhao Chen3,5, Christina Hadfield2, Zhaolian Lu3, David Debruin2, Yu Zhan3, Maureen J. Donlin2,4, Tae-Hyuk Ahn1,2 and Zhenguo Lin2,3 1Department of Computer...

For checked items

view abstracts
download to citation manager

Searching journal content for articles similar to Bista et al. 34 (10): 1553.

Search Results

Modify Results

This search

Preprint Server

Current Issue

In This Issue

Citation format:
Results / page:
Results order: