Author

Michael Ronemus

Cold Spring Harbor LaboratoryORCID 0000-0003-0237-3540Unclaimed 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 Organism:human· 3 Research Focus:variant calling· 3 Assay:whole-genome sequencing· 3 Assay:whole-exome sequencing· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1

Frequent Co-Authors

Julie Rosenbaum· 3 shared Dan LevyiD· 2 shared Gholson J. LyoniD· 2 shared Giuseppe NarzisiiD· 2 shared Han FangiD· 2 shared Ivan Iossifov· 2 shared Michael C. SchatziD· 2 shared Michael H. WigleriD· 2 shared

Activity by Year

2014-2023 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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3 shared papersBioinformatics

Julie Rosenbaum

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Author profile →

4 papers

Recent·Most cited

DNA and RNA from the same single nucleus reveals interactions between genomic and transcriptomic landscapes in human tumor samples

Siran Li, Joan Alexander, Jude Kendall, Peter Andrews, Elizabeth Rose, Hope Orjuela, Sarah Park, Craig Podszus, Liam Shanley, Nissim Ranade, Patrick Morris, Danielle Stauder, Daniel Bradford, Michael Ronemus, Arvind Rishi, , Dan Levy

This study introduces hybrid BAG-seq to analyze DNA and RNA from single nuclei in tumor samples, revealing genome-transcriptome interactions and tumor heterogeneity.

bioRxiv · Oct 4, 2023 · PreprintGenomics

Mutational sequencing for accurate count and long-range assembly

Vijay Kumar, Julie Rosenbaum, Zihua Wang, Talitha Forcier, Michael Ronemus, Michael H. Wigler, Dan Levy

The paper introduces muSeq, a protocol that uses mutational sequencing to improve count accuracy and long-range assembly from short-read data.

bioRxiv · Jun 13, 2017 · PreprintGenomics

Indel variant analysis of short-read sequencing data with Scalpel

Han Fang, Ewa A. Grabowska, Kanika Arora, Vladimir Vacic, Michael C. Zody, Ivan Iossifov, Jason A. ORawe, Yiyang Wu, Laura T Jimenez Barron, Julie Rosenbaum, Michael Ronemus, Yoon-ha Lee, Zihua Wang, Gholson J. Lyon, Michael Wigler, , Giuseppe Narzisi

This paper introduces Scalpel, an open-source tool for accurate indel detection from short-read sequencing data, and demonstrates its application in various analysis modes.

Nature Protocols · Nov 17, 2016Peer-reviewedBioinformatics

Reducing INDEL calling errors in whole-genome and exome sequencing data

Han Fang, Yiyang Wu, Giuseppe Narzisi, Jason A. O'Rawe, Laura T. Jimenez Barrón, Julie Rosenbaum, Michael Ronemus, Ivan Iossifov, Michael C. Schatz, Gholson J. Lyon

This study identifies sources of INDEL calling errors in sequencing data and shows that whole-genome sequencing (WGS) outperforms whole-exome sequencing (WES) in accuracy and sensitivity for detecting INDELs.

bioRxiv · Sep 17, 2014Bioinformatics