Author

Michael T. Kalmbach

Mayo Clinic

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 4

Signature Assays, Organisms & Methods

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Approach:benchmark study· 2 Research Focus:software / tool· 2 Research Focus:variant calling· 2 Assay:whole-genome sequencing· 2 Research Focus:benchmarking· 1 Assay:DNA methylation· 1 Approach:experimental assay· 1 Approach:statistical model· 1

Frequent Co-Authors

Eric W. KleeiD· 3 shared Jacob R. Heldenbrand· 3 shared Liudmila Sergeevna MainzeriD· 3 shared Matthew E. HudsoniD· 3 shared Steven N. HartiD· 3 shared Christian A RossiD· 2 shared Derek E. WildmaniD· 2 shared Eric D. WiebeniD· 2 shared

Activity by Year

2017-2021 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersBioinformatics

Eric W. KleeORCID

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4 papers

Recent·Most cited

Design considerations for workflow management systems use in production genomics research and the clinic

Azza E. Ahmed, Joshua M. Allen, Tajesvi Bhat, Prakruthi Burra, Christina E. Fliege, Steven N. Hart, Jacob R. Heldenbrand, Matthew E. Hudson, Dave Deandre Istanto, Michael T. Kalmbach, Gregory D. Kapraun, Katherine I. Kendig, Matthew C. Kendzior, Eric W. Klee, Nate Mattson, , Liudmila Sergeevna Mainzer

This paper evaluates workflow management systems for genomics research and clinical use, comparing their features and suitability across different environments and use cases.

Scientific Reports · Nov 4, 2021Peer-reviewedBioinformatics

Computational performance and accuracy of Sentieon DNASeq variant calling workflow

Katherine I. Kendig, Saurabh Baheti, Matthew A. Bockol, Travis Drucker, Steven N. Hart, Jacob R. Heldenbrand, Mikel Hernáez, Matthew E. Hudson, Michael T. Kalmbach, Eric W. Klee, Nathan R. Mattson, Christian A Ross, Morgan L. Taschuk, Eric D. Wieben, Mathieu Wiepert, , Liudmila Sergeevna Mainzer

This study compares the accuracy and performance of Sentieon DNASeq and GATK for single-sample variant calling, finding they are nearly identical in accuracy with Sentieon being faster and more scalable.

Frontiers in Genetics · Aug 20, 2019Peer-reviewedBioinformatics

Performance benchmarking of GATK3.8 and GATK4

Jacob R. Heldenbrand, Saurabh Baheti, Matthew A. Bockol, Travis Drucker, Steven N. Hart, Matthew E. Hudson, Ravishankar K. Iyer, Michael T. Kalmbach, Eric W. Klee, Eric D. Wieben, Mathieu Wiepert, Derek E. Wildman, Liudmila Sergeevna Mainzer

This study benchmarks GATK3.8 and GATK4 to evaluate performance improvements and cost trade-offs in genomic variant calling.

bioRxiv · Jun 18, 2018 · PreprintBioinformatics

CircularLogo: A lightweight web application to visualize intra-motif dependencies

Zhenqing Ye, Tao Ma, Michael T. Kalmbach, Surendra Dasari, Jean‐Pierre Kocher, Liguo Wang

CircularLogo visualizes intra-motif dependencies in DNA/RNA sequences through an interactive web application.

BMC Bioinformatics · May 22, 2017Peer-reviewedBioinformatics