Author

Newton Otieno Otecko

Kunming Institute of ZoologyORCID 0000-0002-9149-4776Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 4 Assay:whole-genome sequencing· 3 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Assay:bulk RNA-seq· 1 Organism:human· 1 Research Focus:variant calling· 1 Organism:virus· 1

Frequent Co-Authors

Christophe FraseriD· 2 shared David BonsalliD· 2 shared George MacIntyre-Cockett· 2 shared Katrina LythgoeiD· 2 shared Luca Ferretti AiD· 2 shared Lucie Abeler‐DörneriD· 2 shared Matthew D. HalliD· 2 shared Tanya GolubchikiD· 2 shared

Activity by Year

2018-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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2 shared papersGenomics

Christophe FraserORCID

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Author profile →

4 papers

Recent·Most cited

Directional predictions of HIV transmission with optimised genomics in cohorts of serodiscordant couples

Lele Zhao, Matthew D. Hall, Chris Wymant, Lucie Abeler‐Dörner, Newton Otieno Otecko, George MacIntyre-Cockett, Sandra E Chaudron, Laura Thomson, Tanya Golubchik, Jairam R. Lingappa, Luca Ferretti A, Katrina Lythgoe, Christophe Fraser, Joshua T. Herbeck, David Bonsall

The paper evaluates two tools for HIV transmission direction prediction using short and long-read sequencing data from serodiscordant couples, showing long reads improve phylogenetic resolution and transmission prediction accuracy.

bioRxiv · Oct 19, 2023 · PreprintGenomics

Within-host genomics of SARS-CoV-2

Katrina Lythgoe, Matthew D. Hall, Luca Ferretti A, Mariateresa de Cesare, George MacIntyre-Cockett, Amy Trebes, Monique Ingrid Andersson, Newton Otieno Otecko, Emma L. Wise, Nathan A. Moore, Jessica Lynch, Stephen P. Kidd, Nicholas Cortes, Matilde Mori, Rebecca J. Williams, , Tanya Golubchik

This study analyzes within-host SARS-CoV-2 diversity and transmission patterns using 1390 UK clinical samples, finding low within-host diversity and a narrow transmission bottleneck.

Science · Mar 9, 2021Peer-reviewedGenomics

Integrating Genomic and Transcriptomic Data to Reveal Genetic Mechanisms Underlying Piao Chicken Rumpless Trait

Yun-Mei Wang, Saber Khederzadeh, Shirong Li, Newton Otieno Otecko, David M. Irwin, Mukesh Kumar Thakur, Xiao-Die Ren, Mingshan Wang, Dong‐Dong Wu, Ya‐Ping Zhang

This study identifies genetic mechanisms underlying the rumpless trait in Piao chickens through transcriptomic and genomic analyses, revealing candidate genes and selection pressures.

Genomics Proteomics & Bioinformatics · Feb 23, 2021Peer-reviewedGenetics

Genomic analysis of dingoes identifies genomic regions under reversible selection during domestication and feralization

Shaojie Zhang, Guodong Wang, Pengcheng Ma, Liang-liang Zhang, Tingting Yin, Liu Yan-hu, Newton Otieno Otecko, Meng Wang, Ya-ping Ma, Lu Wang, Bingyu Mao, Peter Savolainen, Ya‐Ping Zhang

This study analyzes dingo genomes to identify genomic regions under selection during domestication and feralization, finding reversible selection in genes related to neurodevelopment, metabolism, and reproduction.

bioRxiv · Nov 16, 2018 · PreprintGenomics