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Page 1
Aligning optical maps to de Bruijn graphs.
Mukherjee K, Alipanahi B, Kahveci T, Salmela L, Boucher C. Mukherjee K, et al. Among authors: alipanahi b. Bioinformatics. 2019 Sep 15;35(18):3250-3256. doi: 10.1093/bioinformatics/btz069. Bioinformatics. 2019. PMID: 30698651
Building large updatable colored de Bruijn graphs via merging.
Muggli MD, Alipanahi B, Boucher C. Muggli MD, et al. Among authors: alipanahi b. Bioinformatics. 2019 Jul 15;35(14):i51-i60. doi: 10.1093/bioinformatics/btz350. Bioinformatics. 2019. PMID: 31510647 Free PMC article.
Metagenome SNP calling via read-colored de Bruijn graphs.
Alipanahi B, Muggli MD, Jundi M, Noyes NR, Boucher C. Alipanahi B, et al. Bioinformatics. 2021 Apr 1;36(22-23):5275-5281. doi: 10.1093/bioinformatics/btaa081. Bioinformatics. 2021. PMID: 32049324 Free PMC article.
Succinct dynamic de Bruijn graphs.
Alipanahi B, Kuhnle A, Puglisi SJ, Salmela L, Boucher C. Alipanahi B, et al. Bioinformatics. 2021 Aug 4;37(14):1946-1952. doi: 10.1093/bioinformatics/btaa546. Bioinformatics. 2021. PMID: 32462192 Free PMC article.
Buffering updates enables efficient dynamic de Bruijn graphs.
Alanko J, Alipanahi B, Settle J, Boucher C, Gagie T. Alanko J, et al. Among authors: alipanahi b. Comput Struct Biotechnol J. 2021 Jul 6;19:4067-4078. doi: 10.1016/j.csbj.2021.06.047. eCollection 2021. Comput Struct Biotechnol J. 2021. PMID: 34377371 Free PMC article.
Deep generative AI models analyzing circulating orphan non-coding RNAs enable detection of early-stage lung cancer.
Karimzadeh M, Momen-Roknabadi A, Cavazos TB, Fang Y, Chen NC, Multhaup M, Yen J, Ku J, Wang J, Zhao X, Murzynowski P, Wang K, Hanna R, Huang A, Corti D, Nguyen D, Lam T, Kilinc S, Arensdorf P, Chau KH, Hartwig A, Fish L, Li H, Behsaz B, Elemento O, Zou J, Hormozdiari F, Alipanahi B, Goodarzi H. Karimzadeh M, et al. Among authors: alipanahi b. Nat Commun. 2024 Nov 21;15(1):10090. doi: 10.1038/s41467-024-53851-9. Nat Commun. 2024. PMID: 39572521 Free PMC article.
Cancer treatment monitoring using cell-free DNA fragmentomes.
van 't Erve I, Alipanahi B, Lumbard K, Skidmore ZL, Rinaldi L, Millberg LK, Carey J, Chesnick B, Cristiano S, Portwood C, Wu T, Peters E, Bolhuis K, Punt CJA, Tom J, Bach PB, Dracopoli NC, Meijer GA, Scharpf RB, Velculescu VE, Fijneman RJA, Leal A. van 't Erve I, et al. Among authors: alipanahi b. Nat Commun. 2024 Oct 21;15(1):8801. doi: 10.1038/s41467-024-53017-7. Nat Commun. 2024. PMID: 39433569 Free PMC article.
Author Correction: Genome-wide association and epidemiological analyses reveal common genetic origins between uterine leiomyomata and endometriosis.
Gallagher CS, Mäkinen N, Harris HR, Rahmioglu N, Uimari O, Cook JP, Shigesi N, Ferreira T, Velez-Edwards DR, Edwards TL, Mortlock S, Ruhioglu Z, Day F, Becker CM, Karhunen V, Martikainen H, Järvelin MR, Cantor RM, Ridker PM, Terry KL, Buring JE, Gordon SD, Medland SE, Montgomery GW, Nyholt DR, Hinds DA, Tung JY; 23andMe Research Team; Perry JRB, Lind PA, Painter JN, Martin NG, Morris AP, Chasman DI, Missmer SA, Zondervan KT, Morton CC. Gallagher CS, et al. Nat Commun. 2022 Sep 21;13(1):5543. doi: 10.1038/s41467-022-33222-y. Nat Commun. 2022. PMID: 36130970 Free PMC article. No abstract available.
83 results