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SV-plaudit: A cloud-based framework for manually curating thousands of structural variants.
Gigascience. 2018 Jul 1;7(7):giy064. doi: 10.1093/gigascience/giy064.
Gigascience. 2018.
PMID: 29860504
Free PMC article.
XPRESSyourself: Enhancing, standardizing, and automating ribosome profiling computational analyses yields improved insight into data.
Berg JA, Belyeu JR, Morgan JT, Ouyang Y, Bott AJ, Quinlan AR, Gertz J, Rutter J.
Berg JA, et al. Among authors: belyeu jr.
PLoS Comput Biol. 2020 Jan 31;16(1):e1007625. doi: 10.1371/journal.pcbi.1007625. eCollection 2020 Jan.
PLoS Comput Biol. 2020.
PMID: 32004313
Free PMC article.
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Go Get Data (GGD) is a framework that facilitates reproducible access to genomic data.
Cormier MJ, Belyeu JR, Pedersen BS, Brown J, Köster J, Quinlan AR.
Cormier MJ, et al. Among authors: belyeu jr.
Nat Commun. 2021 Apr 12;12(1):2151. doi: 10.1038/s41467-021-22381-z.
Nat Commun. 2021.
PMID: 33846313
Free PMC article.
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Samplot: a platform for structural variant visual validation and automated filtering.
Belyeu JR, Chowdhury M, Brown J, Pedersen BS, Cormier MJ, Quinlan AR, Layer RM.
Belyeu JR, et al.
Genome Biol. 2021 May 25;22(1):161. doi: 10.1186/s13059-021-02380-5.
Genome Biol. 2021.
PMID: 34034781
Free PMC article.
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Unfazed: parent-of-origin detection for large and small de novo variants.
Belyeu JR, Sasani TA, Pedersen BS, Quinlan AR.
Belyeu JR, et al.
Bioinformatics. 2021 Dec 11;37(24):4860-4861. doi: 10.1093/bioinformatics/btab454.
Bioinformatics. 2021.
PMID: 34146087
Free PMC article.
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De novo structural mutation rates and gamete-of-origin biases revealed through genome sequencing of 2,396 families.
Belyeu JR, Brand H, Wang H, Zhao X, Pedersen BS, Feusier J, Gupta M, Nicholas TJ, Brown J, Baird L, Devlin B, Sanders SJ, Jorde LB, Talkowski ME, Quinlan AR.
Belyeu JR, et al.
Am J Hum Genet. 2021 Apr 1;108(4):597-607. doi: 10.1016/j.ajhg.2021.02.012. Epub 2021 Mar 5.
Am J Hum Genet. 2021.
PMID: 33675682
Free PMC article.
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Identification of allele-specific KIV-2 repeats and impact on Lp(a) measurements for cardiovascular disease risk.
Behera S, Belyeu JR, Chen X, Paulin LF, Nguyen NQH, Newman E, Mahmoud M, Menon VK, Qi Q, Joshi P, Marcovina S, Rossi M, Roller E, Han J, Onuchic V, Avery CL, Ballantyne CM, Rodriguez CJ, Kaplan RC, Muzny DM, Metcalf GA, Gibbs R, Yu B, Boerwinkle E, Eberle MA, Sedlazeck FJ.
Behera S, et al. Among authors: belyeu jr.
bioRxiv [Preprint]. 2023 Apr 27:2023.04.24.538128. doi: 10.1101/2023.04.24.538128.
bioRxiv. 2023.
PMID: 37163057
Free PMC article.
Preprint.
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Missing something? Codon aversion as a new character system in phylogenetics.
Miller JB, Hippen AA, Belyeu JR, Whiting MF, Ridge PG.
Miller JB, et al. Among authors: belyeu jr.
Cladistics. 2017 Oct;33(5):545-556. doi: 10.1111/cla.12183. Epub 2017 Feb 3.
Cladistics. 2017.
PMID: 34706488
Free article.
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