Author

Jack Wadden

University of MichiganORCID 0000-0002-3055-3656Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 4

Signature Assays, Organisms & Methods

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Organism:human· 3 Research Focus:variant calling· 3 Research Focus:benchmarking· 2 Assay:long-read sequencing· 2 Approach:statistical model· 2 Assay:whole-genome sequencing· 2 Organism:bacteria (other)· 1 Research Focus:cell type annotation· 1

Frequent Co-Authors

David T. BlaauwiD· 4 shared Reetuparna DasiD· 3 shared Robert P. DicksoniD· 3 shared Satish NarayanasamyiD· 3 shared Kush Goliya· 2 shared Piyush RanjaniD· 2 shared Alan P. BoyleiD· 1 shared Arun Karthi SubramaniyaniD· 1 shared

Activity by Year

2020-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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4 shared papersBioinformatics

David T. BlaauwORCID

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4 papers

Recent·Most cited

BioinformaticsArchives of Clinical and Biomedical ResearchPeer-reviewedJan 1, 2023

Rapid Real-time Squiggle Classification for Read Until Using RawMap

Harisankar Sadasivan, Jack Wadden, Kush Goliya…·Satish Narayanasamy

RawMap is a fast and accurate classifier for filtering non-target reads in real-time nanopore sequencing, improving efficiency and reducing costs.

26 citations

humanmultiple species

𝕏 PostBluesky

BioinformaticsbioRxivPreprintMay 14, 2021

Ultra-rapid somatic variant detection via real-time threshold sequencing

Jack Wadden, Brandon Newell, Joshua Bugbee…·Reetuparna Das

This paper introduces Threshold Sequencing and LAMPrey to enable ultra-rapid somatic variant detection in under 30 minutes using real-time sequencing and targeted amplification.

DOI 10.1101/2021.05.14.444172

whole-genome sequencingexperimental assay

𝕏 PostBluesky

BioinformaticsbioRxivPreprintJan 15, 2021

Real-Time, Direct Classification of Nanopore Signals with SquiggleNet

Yuwei Bao, Jack Wadden, John R. Erb‐Downward…·Joshua D. Welch

SquiggleNet classifies nanopore signals in real time with high accuracy, outperforming traditional methods in speed and memory usage.

6 citations

humanbacteria (other)

𝕏 PostBluesky

BioinformaticsbioRxivPreprintMar 23, 2020

Accelerating Maximal-Exact-Match Seeding with Enumerated Radix Trees

Arun Karthi Subramaniyan, Jack Wadden, Kush Goliya…·Reetuparna Das

The paper introduces an optimized data structure for read alignment, improving performance while maintaining accuracy.

5 citations

humanwhole-genome sequencing

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