Publications with Arang Rhie, PhD

Postdoctoral Fellow

Reference genome and demographic history of the most endangered marine mammal, the vaquita
bioRxiv, May 28, 2020
Morin PA … Phillippy A, Rhie A … Jarvis ED
Towards complete and error-free genome assemblies of all vertebrate species
bioRxiv, May 23, 2020
Rhie AKoren SGhurye JWalenz BPPhillippy AM, Jarvis ED
Haplotype-Resolved Cattle Genomes Provide Insights Into Structural Variation and Adaptation
Nature Communications, April 29, 2020
Low WY, Tearle R, Liu R, Koren S, Rhie A, Bickhart DM, Rosen BD, Kronenberg ZN, Kingan SB, Tseng E, Thibaud-Nissen F, Martin FJ, Billis K, Ghurye J, Hastie AR, Lee J, Pang AW, Heaton MP, Phillippy AM, Hiendleder S, Smith TP, Williams JL
Continuous chromosome-scale haplotypes assembled from a single interspecies F1 hybrid of yak and cattle
Gigascience, April 3, 2020
Rice ES, Koren S, Rhie A, Heaton MP, Kalbfleisch TS, Hardy T, Hackett PH, Bickhart DM, Rosen BD, Vander LB, Maurer NW, Green RE, Phillippy AM, Petersen JL, Smith TP
De novo assembly of the cattle reference genome with single-molecule sequencing
Gigascience, March 19, 2020
Rosen BD … Koren SRhie A, Ghurye JPhillippy AM … Medrano JF
HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads
bioRxiv, March 17, 2020
Nurk S, Walenz BP, Rhie A, Vollger MR, Logsdon GA, Grothe R, Miga KH, Eichler EE, Phillippy AM, Koren S
Merqury: reference-free quality and phasing assessment for genome assemblies
bioRxiv, March 17, 2020
Rhie A, Walenz BP, Koren S, Phillippy AM
Improved reference genome of the arboviral vector Aedes albopictus
bioRxiv, February 28, 2020
Palatini U … Koren SGhurye J, Rhie APhillippy AM, Bonizzoni M
Weighted minimizer sampling improves long read mapping
bioRxiv, February 11, 2020
Jain C, Rhie A, Zhang H, Chu C, Koren S, Phillippy A
New insights into mammalian sex chromosome structure and evolution using high-quality sequences from bovine X and Y chromosomes
BMC Genomics, December 19, 2019
Liu R, Low WY, Tearle R, Koren S, Ghurye J, Rhie A, Phillippy AM, Rosen BD, Bickhart DM, Smith TPL, Hiendleder S, Williams JL
Integrating Hi-C links with assembly graphs for chromosome-scale assembly
PLoS Computational Biology, August 21, 2019
Ghurye J, Rhie A, Walenz BP, Schmitt A, Selvaraj S, Pop M, Phillippy AM, Koren S
Telomere-to-telomere assembly of a complete human X chromosome
bioRxiv, August 16, 2019
Miga KH, Koren S, Rhie AChang AMPhillippy AM
Extended haplotype phasing of de novo genome assemblies with FALCON-Phase
bioRxiv, April 19, 2019
Kronenberg ZN, Rhie A, Koren S, Concepcion G, Peluso P, Munson K, Hiendleder S, Fedrigo O, Jarvis E, Phillippy A, Eichler E, Williams J, Smith TPL, Hall R, Sullivan ST, Kingan SB
HLA*LA - HLA typing from linearly projected graph alignments
Bioinformatics, April 3, 2019
Dilthey AT, Mentzer AJ, Carapito R, Cutland C, Cereb N, Madhi SA, Rhie A, Koren S, Bahram S, McVean G, Phillippy AM
De novo assembly of haplotype-resolved genomes with trio binning
Nature Biotechnology, October 22, 2018
Koren S, Rhie A, Walenz BP, Dilthey AT, Bickhart DM, Kingan SB, Hiendleder S, Williams JL, Smith TPL, Phillippy AM
Nanopore sequencing and assembly of a human genome with ultra-long reads
Nature Biotechnology, January 29, 2018
Jain M, Koren SDilthey ATRhie APhillippy AM … & Loose M
De novo assembly and phasing of a Korean human genome
Nature, October 5, 2016
Seo JS, Rhie A, Kim J, Lee S, Sohn MH, Kim CU, Hastie A, Cao H, Yun J-Y, Kim J, Kuk J, P G H, Kim J, Ryu H, Kim J, Roh M, Baek J, Hunkapiller MW, Korlach J, Shin JY, Kim C
Genomic Copy Number Variations Characterize the Prognosis of Both P16-Positive and P16-Negative Oropharyngeal Squamous Cell Carcinoma After Curative Resection
Medicine, December 1, 2015
Rhie A, Park WS, Choi MK, Kim J-H, Ryu J, Ryu CH, Kim J-I, Jung Y-S
FX: an RNA-Seq analysis tool on the cloud
Bioinformatics, January 17, 2012
Hong D, Rhie A, Park S-S, Lee J, Ju YS, Kim S, Yu S-S, Bleazard T, Park H-S, Rhee H, Chong H, Yang K-S, Lee Y-S, Kim I-H, Lee JS, Kim J-I, Seo J-S