Publications by authors named "Benjamin D Rosen"

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Long read and preliminary pangenome analyses reveal breed-specific structural variations and novel sequences in Holstein and Jersey cattle.
Yahui Gao, Liu Yang, Kristen Kuhn, Wenli Li, Geoffrey Zanton, Benjamin D Rosen

J Adv Res· January 2026

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Genomic Analysis of Hair Sheep From West/Central Africa Reveals Unique Genetic Diversity and Ancestral Links to Breed Formation in the Caribbean.
Pamela Wiener, Juliane Friedrich, Melissa M Marr, Gustave Simo, Vincent N Tanya, Benjamin D Rosen

Mol Ecol· December 2025

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Finishing a complete giraffe genome from telomere to telomere with Verkko-Fillet.
Juhyun Kim, Benjamin D Rosen, Sarah E Fumagalli, Kristen L Kuhn, Amy Long

bioRxiv· December 2025

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Genome assemblies of Indian cattle reveal hotspots of rearrangements and immune-related genetic diversity.
Sarwar Azam, Abhisek Sahu, Mohammad Kadivella, Aamir Waseem Khan, Mahesh Neupane, Benjamin D Rosen

NAR Genom Bioinform· December 2025

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Immunogenomics Approaches to Studying Antibody Repertoires and Vaccine Responses in Ruminants.
Yana Safonova, Andrew Collins, Brenda M Murdoch, Benjamin D Rosen, Timothy P L Smith

Annu Rev Anim Biosci· November 2025

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Insights into natural neocentromere evolution from a cattle T2T X chromosome.
Paulene S Pineda, Callum MacPhillamy, Yan Ren, Tong Chen, Luan Zhong, Benjamin D Rosen

Nat Commun· November 2025

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Inferring Domestic Goat Demographic History Through Ancient Genome Imputation.
Jolijn A M Erven, Alice Etourneau, Marjan Mashkour, Mahesh Neupane, Phillipe Bardou, Benjamin D Rosen

Genome Biol Evol· October 2025

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The genetic diversity of Indonesian cattle has been shaped by multiple introductions and adaptive introgression.
Xi Wang, Casia Nursyifa, Sabhrina Gita Aninta, Genís Garcia-Erill, Laura D Bertola, Benjamin D Rosen

Nat Commun· September 2025

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The Farm Animal Genotype-Tissue Expression (FarmGTEx) Project.
Lingzhao Fang, Jinyan Teng, Qing Lin, Zhonghao Bai, Shuli Liu, Benjamin D Rosen

Nat Genet· April 2025

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Constructing a draft Indian cattle pangenome using short-read sequencing.
Sarwar Azam, Abhisek Sahu, Naveen Kumar Pandey, Mahesh Neupane, Curtis P Van Tassell, Benjamin D Rosen

Commun Biol· April 2025

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Advancing the Indian cattle pangenome: characterizing non-reference sequences in Bos indicus.
Sarwar Azam, Abhisek Sahu, Naveen Kumar Pandey, Mahesh Neupane, Curtis P Van Tassell, Benjamin D Rosen

J Anim Sci Biotechnol· February 2025

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Telomere-to-telomere assemblies of cattle and sheep Y-chromosomes uncover divergent structure and gene content.
Temitayo A Olagunju, Benjamin D Rosen, Holly L Neibergs, Gabrielle M Becker, Kimberly M Davenport

Nat Commun· September 2024

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The Ruminant Telomere-to-Telomere (RT2T) Consortium.
Theodore S Kalbfleisch, Stephanie D McKay, Brenda M Murdoch, David L Adelson, Diego Almansa-Villa, Benjamin D Rosen

Nat Genet· August 2024

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Systemic interindividual DNA methylation variants in cattle share major hallmarks with those in humans.
Wen-Jou Chang, Maria S Baker, Eleonora Laritsky, Chathura J Gunasekara, Uditha Maduranga, Benjamin D Rosen

Genome Biol· July 2024

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Participatory investigation of goat farmers' breeding practices, trait preference, and selection criteria in Burkina Faso.
Akounda Badjibassa, Dominique Ouédraogo, Pamela Anna Burger, Benjamin D Rosen, Curtis P Van Tassell

Trop Anim Health Prod· January 2024

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Disentangling river and swamp buffalo genetic diversity: initial insights from the 1000 Buffalo Genomes Project.
Paulene S Pineda, Ester B Flores, Lilian P Villamor, Connie Joyce M Parac, Mehar S Khatkar, Benjamin D Rosen

Gigascience· January 2024

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Using the community-based breeding program (CBBP) model as a collaborative platform to develop the African Goat Improvement Network-Image collection protocol (AGIN-ICP) with mobile technology for data collection and management of livestock phenotypes.
M Jennifer Woodward-Greene, Jason M Kinser, Heather J Huson, Tad S Sonstegard, Johann Soelkner, Benjamin D Rosen

Front Genet· September 2023

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The African Goat Improvement Network: a scientific group empowering smallholder farmers.
Curtis P Van Tassell, Benjamin D Rosen, M Jennifer Woodward-Greene, Jeffrey T Silverstein, Heather J Huson

Front Genet· August 2023

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A Chinese indicine pangenome reveals a wealth of novel structural variants introgressed from other species.
Xuelei Dai, Peipei Bian, Dexiang Hu, Funong Luo, Yongzhen Huang, Benjamin D Rosen

Genome Res· August 2023

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The Bovine Pangenome Consortium: democratizing production and accessibility of genome assemblies for global cattle breeds and other bovine species.
Timothy P L Smith, Derek M Bickhart, Didier Boichard, Amanda J Chamberlain, Appolinaire Djikeng, Benjamin D Rosen

Genome Biol· June 2023

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Morphometric Characterization of Local Goat Breeds in Two Agroecological Zones of Burkina Faso, West Africa.
Badjibassa Akounda, Dominique Ouédraogo, Albert Soudré, Pamela A Burger, Benjamin D Rosen

Animals (Basel)· June 2023

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polishCLR: A Nextflow Workflow for Polishing PacBio CLR Genome Assemblies.
Jennifer Chang, Amanda R Stahlke, Sivanandan Chudalayandi, Benjamin D Rosen, Anna K Childers

Genome Biol Evol· March 2023

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The Australasian dingo archetype: de novo chromosome-length genome assembly, DNA methylome, and cranial morphology.
J William O Ballard, Matt A Field, Richard J Edwards, Laura A B Wilson, Loukas G Koungoulos, Benjamin D Rosen

Gigascience· March 2023

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A sheep pangenome reveals the spectrum of structural variations and their effects on tail phenotypes.
Ran Li, Mian Gong, Xinmiao Zhang, Fei Wang, Zhenyu Liu, Benjamin D Rosen

Genome Res· March 2023

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The Australasian dingo archetype: chromosome-length genome assembly, DNA methylome, and cranial morphology.
J William O Ballard, Matt A Field, Richard J Edwards, Laura A B Wilson, Loukas G Koungoulos, Benjamin D Rosen

bioRxiv· January 2023

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