Statistical Binning for Barcoded Reads Improves Downstream Analyses

por Shajii, Ariya, Numanagić, Ibrahim, Whelan, Christopher, Berger, Bonnie
Publicado 2018

Fast characterization of segmental duplication structure in multiple genome assemblies

por Išerić, Hamza, Alkan, Can, Hach, Faraz, Numanagić, Ibrahim
Publicado 2022

Seq: A High-Performance Language for Bioinformatics

por SHAJII, ARIYA, NUMANAGIĆ, IBRAHIM, BAGHDADI, RIYADH, BERGER, BONNIE, AMARASINGHE, SAMAN
Publicado 2019

Sequre: a high-performance framework for secure multiparty computation enables biomedical data sharing

por Smajlović, Haris, Shajii, Ariya, Berger, Bonnie, Cho, Hyunghoon, Numanagić, Ibrahim
Publicado 2023

Fast characterization of segmental duplications in genome assemblies

por Numanagić, Ibrahim, Gökkaya, Alim S, Zhang, Lillian, Berger, Bonnie, Alkan, Can, Hach, Faraz
Publicado 2018

Cypiripi: exact genotyping of CYP2D6 using high-throughput sequencing data

por Numanagić, Ibrahim, Malikić, Salem, Pratt, Victoria M., Skaar, Todd C., Flockhart, David A., Sahinalp, S. Cenk
Publicado 2015

Discovery and genotyping of novel sequence insertions in many sequenced individuals

por Kavak, Pınar, Lin, Yen-Yi, Numanagić, Ibrahim, Asghari, Hossein, Güngör, Tunga, Alkan, Can, Hach, Faraz
Publicado 2017

Optimal compressed representation of high throughput sequence data via light assembly

por Ginart, Antonio A., Hui, Joseph, Zhu, Kaiyuan, Numanagić, Ibrahim, Courtade, Thomas A., Sahinalp, S. Cenk, Tse, David N.
Publicado 2018

Publisher Correction: Optimal compressed representation of high throughput sequence data via light assembly

por Ginart, Antonio A., Hui, Joseph, Zhu, Kaiyuan, Numanagić, Ibrahim, Courtade, Thomas A., Sahinalp, S. Cenk, Tse, David N.
Publicado 2018

Improved haplotype inference by exploiting long-range linking and allelic imbalance in RNA-seq datasets

por Berger, Emily, Yorukoglu, Deniz, Zhang, Lillian, Nyquist, Sarah K., Shalek, Alex K., Kellis, Manolis, Numanagić, Ibrahim, Berger, Bonnie
Publicado 2020

An efficient genotyper and star-allele caller for pharmacogenomics

por Hari, Ananth, Zhou, Qinghui, Gonzaludo, Nina, Harting, John, Scott, Stuart A., Qin, Xiang, Scherer, Steve, Sahinalp, S. Cenk, Numanagić, Ibrahim
Publicado 2023

Allelic decomposition and exact genotyping of highly polymorphic and structurally variant genes

por Numanagić, Ibrahim, Malikić, Salem, Ford, Michael, Qin, Xiang, Toji, Lorraine, Radovich, Milan, Skaar, Todd C., Pratt, Victoria M., Berger, Bonnie, Scherer, Steve, Sahinalp, S. Cenk
Publicado 2018

Computational pharmacogenotype extraction from clinical next-generation sequencing

por Shugg, Tyler, Ly, Reynold C., Osei, Wilberforce, Rowe, Elizabeth J., Granfield, Caitlin A., Lynnes, Ty C., Medeiros, Elizabeth B., Hodge, Jennelle C., Breman, Amy M., Schneider, Bryan P., Sahinalp, S. Cenk, Numanagić, Ibrahim, Salisbury, Benjamin A., Bray, Steven M., Ratcliff, Ryan, Skaar, Todd C.
Publicado 2023