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Jordan M Eizenga
Jordan M Eizenga
Postdoctoral Researcher, Genomics Institute, University of California Santa Cruz
Dirección de correo verificada de ucsc.edu
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Variation graph toolkit improves read mapping by representing genetic variation in the reference
E Garrison, J Sirén, AM Novak, G Hickey, JM Eizenga, ET Dawson, ...
Nature biotechnology 36 (9), 875-879, 2018
3302018
Mapping DNA methylation with high-throughput nanopore sequencing
AC Rand, M Jain, JM Eizenga, A Musselman-Brown, HE Olsen, M Akeson, ...
Nature methods 14 (4), 411-413, 2017
3082017
Genome graphs and the evolution of genome inference
B Paten, AM Novak, JM Eizenga, E Garrison
Genome research 27 (5), 665-676, 2017
2342017
Genotyping structural variants in pangenome graphs using the vg toolkit
G Hickey, D Heller, J Monlong, JA Sibbesen, J Sirén, J Eizenga, ...
Genome biology 21 (1), 1-17, 2020
972020
Pangenome graphs
JM Eizenga, AM Novak, JA Sibbesen, S Heumos, A Ghaffaari, G Hickey, ...
Annual review of genomics and human genetics 21, 139, 2020
592020
Superbubbles, ultrabubbles, and cacti
B Paten, JM Eizenga, YM Rosen, AM Novak, E Garrison, G Hickey
Journal of Computational Biology 25 (7), 649-663, 2018
542018
Genome graphs
AM Novak, G Hickey, E Garrison, S Blum, A Connelly, A Dilthey, ...
BioRxiv, 101378, 2017
542017
Sequence variation aware genome references and read mapping with the variation graph toolkit
E Garrison, J Sirén, AM Novak, G Hickey, JM Eizenga, ET Dawson, ...
BioRxiv, 234856, 2017
332017
A phylogenetic approach for haplotype analysis of sequence data from complex mitochondrial mixtures
SH Vohr, R Gordon, JM Eizenga, HA Erlich, CD Calloway, RE Green
Forensic Science International: Genetics 30, 93-105, 2017
322017
Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads
K Shafin, T Pesout, PC Chang, M Nattestad, A Kolesnikov, S Goel, G Baid, ...
Nature methods 18 (11), 1322-1332, 2021
282021
Aerosol microbiome over the Mediterranean Sea diversity and abundance
E Mescioglu, E Rahav, N Belkin, P Xian, JM Eizenga, A Vichik, B Herut, ...
Atmosphere 10 (8), 440, 2019
222019
Pangenomics enables genotyping of known structural variants in 5202 diverse genomes
J Sirén, J Monlong, X Chang, AM Novak, JM Eizenga, C Markello, ...
Science 374 (6574), abg8871, 2021
202021
Haplotype-aware variant calling enables high accuracy in nanopore long-reads using deep neural networks
K Shafin, T Pesout, PC Chang, M Nattestad, A Kolesnikov, S Goel, G Baid, ...
BioRxiv, 2021
202021
Genotyping common, large structural variations in 5,202 genomes using pangenomes, the Giraffe mapper, and the vg toolkit
J Sirén, J Monlong, X Chang, AM Novak, JM Eizenga, C Markello, ...
Biorxiv, 2020.12. 04.412486, 2021
202021
Efficient dynamic variation graphs
JM Eizenga, AM Novak, E Kobayashi, F Villani, C Cisar, S Heumos, ...
Bioinformatics 36 (21), 5139-5144, 2021
142021
Modelling haplotypes with respect to reference cohort variation graphs
Y Rosen, J Eizenga, B Paten
Bioinformatics 33 (14), i118-i123, 2017
112017
A strategy for building and using a human reference pangenome
B Llamas, G Narzisi, V Schneider, PA Audano, E Biederstedt, L Blauvelt, ...
F1000Research 8, 2019
102019
Cytosine variant calling with high-throughput nanopore sequencing
AC Rand, M Jain, J Eizenga, A Musselman-Brown, HE Olsen, M Akeson, ...
bioRxiv, 047134, 2016
102016
Conserved novel ORFs in the mitochondrial genome of the ctenophore Beroe forskalii
DT Schultz, JM Eizenga, RB Corbett-Detig, WR Francis, LM Christianson, ...
PeerJ 8, e8356, 2020
92020
Genome graphs. bioRxiv
AM Novak, G Hickey, E Garrison, S Blum, A Connelly, A Dilthey, ...
Publisher: Cold Spring Harbor Laboratory Section: New Results). https://www …, 2017
92017
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Artículos 1–20