Author

Reetuparna Das

University of MichiganORCID 0000-0002-5894-8342Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Bioinformatics· 4

Signature Assays, Organisms & Methods

Click to filter · or open tag

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

Frequent Co-Authors

David T. BlaauwiD· 4 shared Satish NarayanasamyiD· 4 shared Jack WaddeniD· 3 shared Kush Goliya· 2 shared Robert P. DicksoniD· 2 shared Arun Karthi SubramaniyaniD· 1 shared Brandon Newell· 1 shared Carl Johannes KoschmanniD· 1 shared

Activity by Year

2020-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 34 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

4 shared papersBioinformatics

David T. BlaauwORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

nPoRe: n-Polymer Realigner for improved pileup variant calling

Tim Dunn, David T. Blaauw, Reetuparna Das, Satish Narayanasamy

nPoRe improves INDEL recall in nanopore sequencing by extending gap penalties in alignment, achieving 73.04% recall with no loss of precision.

BMC Bioinformatics · Mar 16, 2023Peer-reviewedBioinformatics

Rapid Real-time Squiggle Classification for Read Until Using RawMap

Harisankar Sadasivan, Jack Wadden, Kush Goliya, Piyush Ranjan, Robert P. Dickson, David T. Blaauw, Reetuparna Das, Satish Narayanasamy

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

Archives of Clinical and Biomedical Research · Jan 1, 2023Peer-reviewedBioinformatics

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

Jack Wadden, Brandon Newell, Joshua Bugbee, Robert P. Dickson, Carl Johannes Koschmann, David T. Blaauw, Satish Narayanasamy, 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.

bioRxiv · May 14, 2021 · PreprintBioinformatics

Accelerating Maximal-Exact-Match Seeding with Enumerated Radix Trees

Arun Karthi Subramaniyan, Jack Wadden, Kush Goliya, Nathan Ozog, Xiao Long Wu, Satish Narayanasamy, David T. Blaauw, Reetuparna Das

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

bioRxiv · Mar 23, 2020 · PreprintBioinformatics