Author

Alexander Ostrovsky

Johns Hopkins UniversityORCID 0000-0002-7901-7109Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 3 Research Focus:clustering· 2 Organism:multiple species· 2 Research Focus:software / tool· 2 Approach:statistical model· 2 Assay:whole-genome sequencing· 2 Organism:Arabidopsis· 1 Research Focus:benchmarking· 1

Frequent Co-Authors

Anton NekrutenkoiD· 4 shared Michael C. SchatziD· 3 shared Björn Andreas GrüningiD· 2 shared Dave ClementsiD· 2 shared Delphine LarivièreiD· 2 shared Adam M. PhillippyiD· 1 shared Agostinho AntunesiD· 1 shared Alessandro CulottiiD· 1 shared

Activity by Year

2020-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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4 shared papersBioinformatics

Anton NekrutenkoORCID

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4 papers

Recent·Most cited

Panagram reveals pangenome architectures underlying trait variation in plants and animals

Katharine M. Jenike, Nicole L. Brown, Sam Kovaka, Delphine Larivière, Robin Burns, Frances L. Chen, Hagai Shohat, Matthias Benoit, Tyler C. Collins, Rachel F. Daniels, Blaine Fitzgerald, Iacopo Gentile, Anat Hendelman, Rachel A. Johnston, Betty Y.H. Huang, , Michael C. Schatz

Alignment-free pan-k-mer profiles track minimap2 similarity (whole-chromosome r^2 0.959-0.968), profile 605 vertebrate genomes in about a day on 40 cores, and nominate trait-linked loci across plants and animals.

bioRxiv · Oct 22, 2026 · PreprintGenomics✦ In-depth digest

Scalable, accessible, and reproducible reference genome assembly and evaluation in Galaxy

Delphine Larivière, Linelle Ann L. Abueg, Nadolina Brajuka, Cristóbal Gallardo Alba, Björn Andreas Grüning, Byung June Ko, Alexander Ostrovsky, Marc Palmada‐Flores, Brandon D. Pickett, Keon Rabbani, Agostinho Antunes, Jennifer Balacco, Mark Chaisson, Haoyu Cheng, Joanna Collins, , Giulio Formenti

The paper presents a scalable pipeline for reference genome assembly and evaluation, demonstrating its effectiveness across 51 vertebrate species using Galaxy.

Nature Biotechnology · Jan 26, 2024Peer-reviewedBioinformatics

Inverting the model of genomics data sharing with the NHGRI Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL)

Michael C. Schatz, Anthony Philippakis, Enis Afgan, Eric Banks, Vincent J. Carey, Robert J. Carroll, Alessandro Culotti, Kyle Ellrott, Jeremy Goecks, Robert L. Grossman, Ira M. Hall, Kasper D. Hansen, Jonathan Lawson, Jeffrey T. Leek, Anne O’Donnell‐Luria, , Jason Walker

The paper describes AnVIL, a cloud-based platform that enables genomic data analysis without data transfer, improving security, scalability, and collaboration.

Cell Genomics · Jan 1, 2022Peer-reviewedBioinformatics

A Single-cell RNA-seq Training and Analysis Suite using the Galaxy Framework

Mehmet Tekman, Bérénice Batut, Alexander Ostrovsky, Christophe Antoniewski, Dave Clements, Fidel Ramírez, Graham Etherington, Hans-Rudolf Hotz, Jelle Scholtalbers, Jonathan R. Manning, Léa Bellenger, Maria Doyle, Mohammad Heydarian, Ni Huang, Nicola Soranzo, , Björn Andreas Grüning

The paper introduces a Galaxy-based suite for scRNA-seq analysis, offering workflows, training resources, and tools for preprocessing, normalization, and clustering across 10x and alternative platforms.

GigaScience · Oct 1, 2020Peer-reviewedBioinformatics