Improving the usability and archival stability of bioinformatics software

by Serghei Mangul, Lana S. Martin, Eleazar Eskin, Ran Blekhman
Published 2019-02-01

Metalign: efficient alignment-based metagenomic profiling via containment min hash

by Nathan LaPierre, Mohammed Alser, Eleazar Eskin, David Koslicki, Serghei Mangul
Published 2020-09-01

Correction to: Improving the usability and comprehensiveness of microbial databases

by Caitlin Loeffler, Aaron Karlsberg, Lana S. Martin, Eleazar Eskin, David Koslicki, Serghei Mangul
Published 2020-07-01

Improving the usability and comprehensiveness of microbial databases

by Caitlin Loeffler, Aaron Karlsberg, Lana S. Martin, Eleazar Eskin, David Koslicki, Serghei Mangul
Published 2020-04-01

Improving the completeness of public metadata accompanying omics studies

by Anushka Rajesh, Yutong Chang, Malak S. Abedalthagafi, Annie Wong-Beringer, Michael I. Love, Serghei Mangul
Published 2021-04-01

PUMAA: A Platform for Accessible Microbiome Analysis in the Undergraduate Classroom

by Keith Mitchell, Jiem Ronas, Christopher Dao, Amanda C. Freise, Serghei Mangul, Casey Shapiro, Jordan Moberg Parker
Published 2020-10-01

MiCoP: microbial community profiling method for detecting viral and fungal organisms in metagenomic samples

by Nathan LaPierre, Serghei Mangul, Mohammed Alser, Igor Mandric, Nicholas C. Wu, David Koslicki, Eleazar Eskin
Published 2019-06-01

Spatial Analysis of Single Fiber Cells of the Developing Ocular Lens Reveals Regulated Heterogeneity of Gene Expression

by Rajendra K. Gangalum, Dongjae Kim, Raj K. Kashyap, Serghei Mangul, Xinkai Zhou, David Elashoff, Suraj P. Bhat
Published 2018-12-01

Systematic benchmarking of omics computational tools

by Serghei Mangul, Lana S. Martin, Brian L. Hill, Angela Ka-Mei Lam, Margaret G. Distler, Alex Zelikovsky, Eleazar Eskin, Jonathan Flint
Published 2019-03-01

Technology dictates algorithms: recent developments in read alignment

by Mohammed Alser, Jeremy Rotman, Dhrithi Deshpande, Kodi Taraszka, Huwenbo Shi, Pelin Icer Baykal, Harry Taegyun Yang, Victor Xue, Sergey Knyazev, Benjamin D. Singer, Brunilda Balliu, David Koslicki, Pavel Skums, Alex Zelikovsky, Can Alkan, Onur Mutlu, Serghei Mangul
Published 2021-08-01

Challenges and recommendations to improve the installability and archival stability of omics computational tools.

by Serghei Mangul, Thiago Mosqueiro, Richard J Abdill, Dat Duong, Keith Mitchell, Varuni Sarwal, Brian Hill, Jaqueline Brito, Russell Jared Littman, Benjamin Statz, Angela Ka-Mei Lam, Gargi Dayama, Laura Grieneisen, Lana S Martin, Jonathan Flint, Eleazar Eskin, Ran Blekhman
Published 2019-06-01

Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia

by Loes M. Olde Loohuis, Serghei Mangul, Anil P. S. Ori, Guillaume Jospin, David Koslicki, Harry Taegyun Yang, Timothy Wu, Marco P. Boks, Catherine Lomen-Hoerth, Martina Wiedau-Pazos, Rita M. Cantor, Willem M. de Vos, René S. Kahn, Eleazar Eskin, Roel A. Ophoff
Published 2018-05-01

Author Correction: Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing

by Igor Mandric, Jeremy Rotman, Harry Taegyun Yang, Nicolas Strauli, Dennis J. Montoya, William Van Der Wey, Jiem R. Ronas, Benjamin Statz, Douglas Yao, Velislava Petrova, Alex Zelikovsky, Roberto Spreafico, Sagiv Shifman, Noah Zaitlen, Maura Rossetti, K. Mark Ansel, Eleazar Eskin, Serghei Mangul
Published 2020-09-01

Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing

by Igor Mandric, Jeremy Rotman, Harry Taegyun Yang, Nicolas Strauli, Dennis J. Montoya, William Van Der Wey, Jiem R. Ronas, Benjamin Statz, Douglas Yao, Velislava Petrova, Alex Zelikovsky, Roberto Spreafico, Sagiv Shifman, Noah Zaitlen, Maura Rossetti, K. Mark Ansel, Eleazar Eskin, Serghei Mangul
Published 2020-06-01

Benchmarking of computational error-correction methods for next-generation sequencing data

by Keith Mitchell, Jaqueline J. Brito, Igor Mandric, Qiaozhen Wu, Sergey Knyazev, Sei Chang, Lana S. Martin, Aaron Karlsberg, Ekaterina Gerasimov, Russell Littman, Brian L. Hill, Nicholas C. Wu, Harry Taegyun Yang, Kevin Hsieh, Linus Chen, Eli Littman, Taylor Shabani, German Enik, Douglas Yao, Ren Sun, Jan Schroeder, Eleazar Eskin, Alex Zelikovsky, Pavel Skums, Mihai Pop, Serghei Mangul
Published 2020-03-01

ROP: dumpster diving in RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues

by Serghei Mangul, Harry Taegyun Yang, Nicolas Strauli, Franziska Gruhl, Hagit T. Porath, Kevin Hsieh, Linus Chen, Timothy Daley, Stephanie Christenson, Agata Wesolowska-Andersen, Roberto Spreafico, Cydney Rios, Celeste Eng, Andrew D. Smith, Ryan D. Hernandez, Roel A. Ophoff, Jose Rodriguez Santana, Erez Y. Levanon, Prescott G. Woodruff, Esteban Burchard, Max A. Seibold, Sagiv Shifman, Eleazar Eskin, Noah Zaitlen
Published 2018-02-01