Author

David Tse

University of Miami

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· 2 Genomics· 2 Neuroscience· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 4 Research Focus:variant calling· 3 Approach:experimental assay· 2 Assay:whole-genome sequencing· 2 Assay:bulk RNA-seq· 1 Research Focus:differential expression· 1 Research Focus:genome assembly· 1 Organism:human· 1

Frequent Co-Authors

Asif Khalak· 1 shared Daniel PelaeziD· 1 shared Eren Şaşoğlu· 1 shared Gabriel GaidoshiD· 1 shared Govinda M Kamath· 1 shared Hua Wang· 1 shared Ilan Shomorony· 1 shared Joseph Hui· 1 shared

Activity by Year

2015-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 8 mutual co-author links

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1 shared paperBioinformatics

Asif Khalak

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Author profile →

5 papers

Recent·Most cited

Activation of Multiple Eph Receptors on Neuronal Membranes Correlates with The Onset of Traumatic Optic Neuropathy

Thomas A. Strong, Juan Esquivel, Qikai Wang, Paul J. Ledon, Hua Wang, Gabriel Gaidosh, David Tse, Daniel Pelaez

This study identifies Eph receptor activation in postnatal mouse retinas and shows its correlation with traumatic optic neuropathy onset and neuroprotective effects upon inhibition.

Eye and Vision · Oct 1, 2023Peer-reviewedNeuroscience

Do Read Errors Matter for Genome Assembly?

Ilan Shomorony, Thomas Courtade, David Tse

The paper investigates the tradeoff between read length and error rate for genome assembly using an adversarial erasure error model and verifies results on real genomes.

bioRxiv · Aug 31, 2016 · PreprintBioinformatics

Shannon: An Information-Optimal de Novo RNA-Seq Assembler

Sreeram Kannan, Joseph Hui, Kayvon Mazooji, Lior Pachter, David Tse

Shannon is an RNA-Seq assembler that uses information theory to optimally reconstruct transcripts, achieving higher sensitivity and specificity than existing methods.

bioRxiv · Feb 9, 2016 · PreprintGenomics

FinisherSC : A repeat-aware tool for upgrading de-novo assembly using long reads

Ka Kit Lam, Kurt LaButti, Asif Khalak, David Tse

FinisherSC improves de-novo assembly using long reads by addressing repeats, producing longer and higher quality contigs with high concordance.

bioRxiv · Apr 4, 2015Bioinformatics

Optimal Haplotype Assembly from High-Throughput Mate-Pair Reads

Govinda M Kamath, Eren Şaşoğlu, David Tse

The paper develops a formula for haplotype assembly from mate-pair reads using a generative model and connects it to decoding convolutional codes.

bioRxiv · Feb 7, 2015 · PreprintGenomics