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The Genome of the Yellow Mealworm, Tenebrio molitor: It's Bigger Than You Think.
Oppert B, Dossey AT, Chu FC, Šatović-Vukšić E, Plohl M, Smith TPL, Koren S, Olmstead ML, Leierer D, Ragan G, Johnston JS. Oppert B, et al. Among authors: koren s. Genes (Basel). 2023 Dec 14;14(12):2209. doi: 10.3390/genes14122209. Genes (Basel). 2023. PMID: 38137031 Free PMC article.
Phased nanopore assembly with Shasta and modular graph phasing with GFAse.
Lorig-Roach R, Meredith M, Monlong J, Jain M, Olsen HE, McNulty B, Porubsky D, Montague TG, Lucas JK, Condon C, Eizenga JM, Juul S, McKenzie SK, Simmonds SE, Park J, Asri M, Koren S, Eichler EE, Axel R, Martin B, Carnevali P, Miga KH, Paten B. Lorig-Roach R, et al. Among authors: koren s. Genome Res. 2024 Apr 25;34(3):454-468. doi: 10.1101/gr.278268.123. Genome Res. 2024. PMID: 38627094
The first complete T2T Assemblies of Cattle and Sheep Y-Chromosomes uncover remarkable divergence in structure and gene content.
Smith T, Olagunju T, Rosen B, Neibergs H, Becker G, Davenport K, Elsik C, Hadfield T, Koren S, Kuhn K, Rhie A, Shira K, Skibiel A, Stegemiller M, Thorne J, Villamediana P, Cockett N, Murdoch B. Smith T, et al. Among authors: koren s. Res Sq [Preprint]. 2024 Apr 3:rs.3.rs-4033388. doi: 10.21203/rs.3.rs-4033388/v1. Res Sq. 2024. PMID: 38712074 Free PMC article. Preprint.
The variation and evolution of complete human centromeres.
Logsdon GA, Rozanski AN, Ryabov F, Potapova T, Shepelev VA, Catacchio CR, Porubsky D, Mao Y, Yoo D, Rautiainen M, Koren S, Nurk S, Lucas JK, Hoekzema K, Munson KM, Gerton JL, Phillippy AM, Ventura M, Alexandrov IA, Eichler EE. Logsdon GA, et al. Among authors: koren s. Nature. 2024 May;629(8010):136-145. doi: 10.1038/s41586-024-07278-3. Epub 2024 Apr 3. Nature. 2024. PMID: 38570684 Free PMC article.
Phasing Diploid Genome Assembly Graphs with Single-Cell Strand Sequencing.
Henglin M, Ghareghani M, Harvey W, Porubsky D, Koren S, Eichler EE, Ebert P, Marschall T. Henglin M, et al. Among authors: koren s. bioRxiv [Preprint]. 2024 Feb 16:2024.02.15.580432. doi: 10.1101/2024.02.15.580432. bioRxiv. 2024. PMID: 38529499 Free PMC article. Preprint.
Gapless assembly of complete human and plant chromosomes using only nanopore sequencing.
Koren S, Bao Z, Guarracino A, Ou S, Goodwin S, Jenike KM, Lucas J, McNulty B, Park J, Rautiainen M, Rhie A, Roelofs D, Schneiders H, Vrijenhoek I, Nijbroek K, Ware D, Schatz MC, Garrison E, Huang S, McCombie WR, Miga KH, Wittenberg AHJ, Phillippy AM. Koren S, et al. bioRxiv [Preprint]. 2024 Mar 19:2024.03.15.585294. doi: 10.1101/2024.03.15.585294. bioRxiv. 2024. PMID: 38529488 Free PMC article. Preprint.
The genome of the colonial hydroid Hydractinia reveals that their stem cells use a toolkit of evolutionarily shared genes with all animals.
Schnitzler CE, Chang ES, Waletich J, Quiroga-Artigas G, Wong WY, Nguyen AD, Barreira SN, Doonan LB, Gonzalez P, Koren S, Gahan JM, Sanders SM, Bradshaw B, DuBuc TQ, Febrimarsa, de Jong D, Nawrocki EP, Larson A, Klasfeld S, Gornik SG, Moreland RT, Wolfsberg TG, Phillippy AM, Mullikin JC, Simakov O, Cartwright P, Nicotra M, Frank U, Baxevanis AD. Schnitzler CE, et al. Among authors: koren s. Genome Res. 2024 Apr 25;34(3):498-513. doi: 10.1101/gr.278382.123. Genome Res. 2024. PMID: 38508693 Free PMC article.
319 results