Eizenga JM - Search Results

1

Conserved novel ORFs in the mitochondrial genome of the ctenophore Beroe forskalii.

Schultz DT, Eizenga JM, Corbett-Detig RB, Francis WR, Christianson LM, Haddock SHD. Schultz DT, et al. Among authors: eizenga jm. PeerJ. 2020 Jan 27;8:e8356. doi: 10.7717/peerj.8356. eCollection 2020. PeerJ. 2020. PMID: 32025367 Free PMC article.

2

Distance indexing and seed clustering in sequence graphs.

Chang X, Eizenga J, Novak AM, Sirén J, Paten B. Chang X, et al. Bioinformatics. 2020 Jul 1;36(Suppl_1):i146-i153. doi: 10.1093/bioinformatics/btaa446. Bioinformatics. 2020. PMID: 32657356 Free PMC article.

3

Bayesian Framework for Detecting Gene Expression Outliers in Individual Samples.

Vivian J, Eizenga JM, Beale HC, Vaske OM, Paten B. Vivian J, et al. Among authors: eizenga jm. JCO Clin Cancer Inform. 2020 Feb;4:160-170. doi: 10.1200/CCI.19.00095. JCO Clin Cancer Inform. 2020. PMID: 32097024 Free PMC article.

4

Mapping DNA methylation with high-throughput nanopore sequencing.

Rand AC, Jain M, Eizenga JM, Musselman-Brown A, Olsen HE, Akeson M, Paten B. Rand AC, et al. Among authors: eizenga jm. Nat Methods. 2017 Apr;14(4):411-413. doi: 10.1038/nmeth.4189. Epub 2017 Feb 20. Nat Methods. 2017. PMID: 28218897 Free PMC article.

5

Genome graphs and the evolution of genome inference.

Paten B, Novak AM, Eizenga JM, Garrison E. Paten B, et al. Among authors: eizenga jm. Genome Res. 2017 May;27(5):665-676. doi: 10.1101/gr.214155.116. Epub 2017 Mar 30. Genome Res. 2017. PMID: 28360232 Free PMC article. Review.

6

A phylogenetic approach for haplotype analysis of sequence data from complex mitochondrial mixtures.

Vohr SH, Gordon R, Eizenga JM, Erlich HA, Calloway CD, Green RE. Vohr SH, et al. Among authors: eizenga jm. Forensic Sci Int Genet. 2017 Sep;30:93-105. doi: 10.1016/j.fsigen.2017.05.007. Epub 2017 May 29. Forensic Sci Int Genet. 2017. PMID: 28667863 Free article.

7

Modelling haplotypes with respect to reference cohort variation graphs.

Rosen Y, Eizenga J, Paten B. Rosen Y, et al. Bioinformatics. 2017 Jul 15;33(14):i118-i123. doi: 10.1093/bioinformatics/btx236. Bioinformatics. 2017. PMID: 28881971 Free PMC article.

8

Superbubbles, Ultrabubbles, and Cacti.

Paten B, Eizenga JM, Rosen YM, Novak AM, Garrison E, Hickey G. Paten B, et al. Among authors: eizenga jm. J Comput Biol. 2018 Jul;25(7):649-663. doi: 10.1089/cmb.2017.0251. Epub 2018 Feb 20. J Comput Biol. 2018. PMID: 29461862 Free PMC article.

9

A Flow Procedure for Linearization of Genome Sequence Graphs.

Haussler D, Smuga-Otto M, Eizenga JM, Paten B, Novak AM, Nikitin S, Zueva M, Miagkov D. Haussler D, et al. Among authors: eizenga jm. J Comput Biol. 2018 Jul;25(7):664-676. doi: 10.1089/cmb.2017.0248. Epub 2018 May 24. J Comput Biol. 2018. PMID: 29792514 Free PMC article.

10

Variation graph toolkit improves read mapping by representing genetic variation in the reference.

Garrison E, Sirén J, Novak AM, Hickey G, Eizenga JM, Dawson ET, Jones W, Garg S, Markello C, Lin MF, Paten B, Durbin R. Garrison E, et al. Among authors: eizenga jm. Nat Biotechnol. 2018 Oct;36(9):875-879. doi: 10.1038/nbt.4227. Epub 2018 Aug 20. Nat Biotechnol. 2018. PMID: 30125266 Free PMC article.

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