Publications by authors named "Derek Aguiar"

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Bayesian reconstruction and differential testing of excised introns.
Marjan Hosseini, Devin McConnell, Derek Aguiar

Bioinformatics· December 2025

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Deep statistical modelling of nanopore sequencing translocation times reveals latent non-B DNA structures.
Marjan Hosseini, Aaron Palmer, William Manka, Patrick G S Grady, Venkata Patchigolla, Derek Aguiar

Bioinformatics· June 2023

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Evaluating molecular fingerprint-based models of drug side effects against a statistical control.
Berk A Alpay, Mark Gosink, Derek Aguiar

Drug Discov Today· November 2022

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AtheroSpectrum Reveals Novel Macrophage Foam Cell Gene Signatures Associated With Atherosclerotic Cardiovascular Disease Risk.
Chuan Li, Lili Qu, Alyssa J Matz, Patrick A Murphy, Yongmei Liu, Derek Aguiar

Circulation· January 2022

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Combinatorial and statistical prediction of gene expression from haplotype sequence.
Berk A Alpay, Pinar Demetci, Sorin Istrail, Derek Aguiar

Bioinformatics· July 2020

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Bayesian nonparametric discovery of isoforms and individual specific quantification.
Derek Aguiar, Li-Fang Cheng, Bianca Dumitrascu, Fantine Mordelet, Athma A Pai

Nat Commun· April 2018

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Transcriptome of American oysters, Crassostrea virginica, in response to bacterial challenge: insights into potential mechanisms of disease resistance.
Ian C McDowell, Chamilani Nikapitiya, Derek Aguiar, Christopher E Lane, Sorin Istrail

PLoS One· March 2016

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Tumor haplotype assembly algorithms for cancer genomics.
Derek Aguiar, Wendy S W Wong, Sorin Istrail

Pac Symp Biocomput· August 2014

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A quantitative reference transcriptome for Nematostella vectensis early embryonic development: a pipeline for de novo assembly in emerging model systems.
Sarah Tulin, Derek Aguiar, Sorin Istrail, Joel Smith

Evodevo· May 2014

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Haplotype phasing by multi-assembly of shared haplotypes: phase-dependent interactions between rare variants.
Bjarni V Halldórsson, Derek Aguiar, Sorin Istrail

Pac Symp Biocomput· November 2013

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Haplotype assembly in polyploid genomes and identical by descent shared tracts.
Derek Aguiar, Sorin Istrail

Bioinformatics· July 2013

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DELISHUS: an efficient and exact algorithm for genome-wide detection of deletion polymorphism in autism.
Derek Aguiar, Bjarni V Halldórsson, Eric M Morrow, Sorin Istrail

Bioinformatics· June 2012

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HapCompass: a fast cycle basis algorithm for accurate haplotype assembly of sequence data.
Derek Aguiar, Sorin Istrail

J Comput Biol· June 2012

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The Clark phaseable sample size problem: long-range phasing and loss of heterozygosity in GWAS.
Bjarni V Halldórsson, Derek Aguiar, Ryan Tarpine, Sorin Istrail

J Comput Biol· March 2011

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Practical computational methods for regulatory genomics: a cisGRN-Lexicon and cisGRN-browser for gene regulatory networks.
Sorin Istrail, Ryan Tarpine, Kyle Schutter, Derek Aguiar

Methods Mol Biol· December 2010

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