Photo of Paul Medvedev

Paul Medvedev

Associate Professor
Department of Biochemistry and Molecular Biology, Genome Sciences Institute of the Huck

Affiliation(s):

  • School of Electrical Engineering and Computer Science
  • Computer Science and Engineering
  • Huck Institutes of the Life Sciences

W316 Westgate Building

pzm11@psu.edu

814-863-1242

Personal or Departmental Website

Research Areas:

 
 

 

Education

  • BS, Computer Science, University of CA, Los Angeles, 2002
  • M.Sc., Computer Science, University of Southern Denmark at Odense, 2004
  • Ph D, Computer Science, University of Toronto, 2010

Publications

Journal Articles

  • Chen Sun* and Paul Medvedev, 2018, "Toward fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics", Bioinformatics, pp. bty641
  • Sven Warris, Elio Schijlen, Henri van de Geest, Rahulsimham Vegesna*, Thamara Hesselink, Bas te Lintel Hekkert, Gabino Sanchez-Perez, Paul Medvedev, Kateryna D Makova and Dick de Ridder, 2018, "Correcting palindromes in long reads after whole-genome amplification", BMC genomics, 19, (1), pp. 22 pages
  • Paul Medvedev, 2018, "Modeling Biological Problems in Computer Science: A Case Study in Genome Assembly", Briefings in Bioinformatics, bby003, pp. 10 pages
  • Kristoffer Sahlin, Marta Tomaszkiewicz, Kateryna D Makova and Paul Medvedev, 2018, "Deciphering highly similar multigene family transcripts from Iso-Seq data with IsoCon", Nature Communications, 9, pp. 4601

Conference Proceedings

  • Rayan Chikhi, Vladan Jovicic, Stefan Kratsch, Paul Medvedev, Martin Milanic, Sofya Raskhodnikova and Nithin Varma*, 2018, "Bipartite Graphs of Small Readability", Springer, 10976, pp. 16 pages

Research Projects

  • February 2015 - January 2020, "CAREER: De Novo Assembly of Large Genomic Data," (Sponsor: National Science Foundation).
  • September 2014 - August 2018, "XPS: FULL: DSD: End-to-end Acceleration of Genomic Workflows on Emerging Heterogeneous Supercomputers," (Sponsor: National Science Foundation).
  • June 2014 - May 2018, "ABI Innovation: A Novel Framework for Detecting Genomic Structural Variation," (Sponsor: National Science Foundation).

Honors and Awards

Service

Service to Penn State:

Service to External Organizations:

 


 

About

The School of Electrical Engineering and Computer Science was created in the spring of 2015 to allow greater access to courses offered by both departments for undergraduate and graduate students in exciting collaborative research in fields.

We offer B.S. degrees in electrical engineering, computer science, computer engineering and data science and graduate degrees (master's degrees and Ph.D.'s) in electrical engineering and computer science and engineering. EECS focuses on the convergence of technologies and disciplines to meet today’s industrial demands.

School of Electrical Engineering and Computer Science

The Pennsylvania State University

207 Electrical Engineering West

University Park, PA 16802

814-863-6740

Department of Computer Science and Engineering

814-865-9505

Department of Electrical Engineering

814-865-7667