Mihai Pop

  • University of Maryland, College Park, USA

According to our database1, Mihai Pop authored at least 61 papers between 1998 and 2022.

Collaborative distances:


ACM Fellow

ACM Fellow 2019, "For contributions to computational biology, algorithms, and software for DNA sequence analysis and sequence assembly".



In proceedings 
PhD thesis 


Online presence:

On csauthors.net:


Metamorphic Testing in Bioinformatics Software: A Case Study on Metagenomic Assembly.
Proceedings of the IEEE/ACM 7th International Workshop on Metamorphic Testing, 2022

Probabilistic Petri Nets Model for Assessing Temporal Variations of the Number of Bikes in Bike-Sharing Stations.
Proceedings of the IEEE International Conference on Automation, 2022

What do Eulerian and Hamiltonian cycles have to do with genome assembly?
PLoS Comput. Biol., 2021

TIPP2: metagenomic taxonomic profiling using phylogenetic markers.
Bioinform., 2021

A critical assessment of gene catalogs for metagenomic analysis.
Bioinform., 2021


Similarity measure for station clustering in bike sharing systems.
Proceedings of the IEEE International Conference on Automation, 2020

Integrating Hi-C links with assembly graphs for chromosome-scale assembly.
PLoS Comput. Biol., 2019

Modern technologies and algorithms for scaffolding assembled genomes.
PLoS Comput. Biol., 2019

Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows.
Bioinform., 2019

Metagenomic assembly through the lens of validation: recent advances in assessing and improving the quality of genomes assembled from metagenomes.
Briefings Bioinform., 2019

SeqScreen: a biocuration platform for robust taxonomic and biological process characterization of nucleic acid sequences of interest.
Proceedings of the 2019 IEEE International Conference on Bioinformatics and Biomedicine, 2019

Outlier detection in BLAST hits.
Algorithms Mol. Biol., 2018

Better Greedy Sequence Clustering with Fast Banded Alignment.
Proceedings of the 17th International Workshop on Algorithms in Bioinformatics, 2017

Gesture-based Visual Analytics in Virtual Reality.
Proceedings of the 14th International Conference on Human Computer Interaction, 2017

Events based advanced control strategy for urban street lighting.
Proceedings of the International Conference on Engineering, Technology and Innovation, 2017

Next Generation Sequencing (Dagstuhl Seminar 16351).
Dagstuhl Reports, 2016

Maligner: a fast ordered restriction map aligner.
Bioinform., 2016

Better Identification of Repeats in Metagenomic Scaffolding.
Proceedings of the Algorithms in Bioinformatics - 16th International Workshop, 2016

Limitations of Current Approaches for Reference-Free, Graph-Based Variant Detection.
Proceedings of the 7th ACM International Conference on Bioinformatics, 2016

Two stage scheduling method of touristic transport in multimodal networks.
Proceedings of the IEEE International Conference on Automation, 2016

Use and mis-use of supplementary material in science publications.
BMC Bioinform., 2015

Computational challenges in microbiome research.
Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine, 2015

Automated ensemble assembly and validation of microbial genomes.
BMC Bioinform., 2014

TIPP: taxonomic identification and phylogenetic profiling.
Bioinform., 2014

Exploring variation-aware contig graphs for (comparative) metagenomics using MaryGold.
Bioinform., 2013

Hawkeye and AMOS: visualizing and assessing the quality of genome assemblies.
Briefings Bioinform., 2013

K-mulus: Strategies for BLAST in the Cloud.
Proceedings of the Parallel Processing and Applied Mathematics, 2013

De novo likelihood-based measures for comparing metagenomic assemblies.
Proceedings of the 2013 IEEE International Conference on Bioinformatics and Biomedicine, 2013

Review of parallel algorithms by Henri Casanova, Arnaud Legrand, and Yves Robert.
SIGACT News, 2012

Bioinformatics for the Human Microbiome Project.
PLoS Comput. Biol., 2012

Exploiting sparseness in de novo genome assembly.
BMC Bioinform., 2012

AGORA: Assembly Guided by Optical Restriction Alignment.
BMC Bioinform., 2012

Workshop: Comparative assembly of metagenomic sequences.
Proceedings of the IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, 2012

SparseAssembler2: Sparse k-mer Graph for Memory Efficient Genome Assembly
CoRR, 2011

SparseAssembler: de novo Assembly with the Sparse de Bruijn Graph
CoRR, 2011

Assessing the benefits of using mate-pairs to resolve repeats in de novo short-read prokaryotic assemblies.
BMC Bioinform., 2011

DNACLUST: accurate and efficient clustering of phylogenetic marker genes.
BMC Bioinform., 2011

Bambus 2: scaffolding metagenomes.
Bioinform., 2011

Workshop: Can you assemble whole genomes from next generation sequencing data?
Proceedings of the IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011

Invited: Challenges in metagenomic assembly.
Proceedings of the IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011

Finding Biologically Accurate Clusterings in Hierarchical Tree Decompositions Using the Variation of Information.
J. Comput. Biol., 2010

Alignment and clustering of phylogenetic markers - implications for microbial diversity studies.
BMC Bioinform., 2010

Assembly complexity of prokaryotic genomes using short reads.
BMC Bioinform., 2010

Identifying Differentially Abundant Metabolic Pathways in Metagenomic Datasets.
Proceedings of the Bioinformatics Research and Applications, 6th International Symposium, 2010

MetaPhyler: Taxonomic profiling for metagenomic sequences.
Proceedings of the 2010 IEEE International Conference on Bioinformatics and Biomedicine, 2010

Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples.
PLoS Comput. Biol., 2009

ARDB - Antibiotic Resistance Genes Database.
Nucleic Acids Res., 2009

Parametric Complexity of Sequence Assembly: Theory and Applications to Next Generation Sequencing.
J. Comput. Biol., 2009

Genome assembly reborn: recent computational challenges.
Briefings Bioinform., 2009

Inexact Local Alignment Search over Suffix Arrays.
Proceedings of the 2009 IEEE International Conference on Bioinformatics and Biomedicine, 2009

Figaro: a novel statistical method for vector sequence removal.
Bioinform., 2008

Scaffolding and validation of bacterial genome assemblies using optical restriction maps.
Bioinform., 2008

Minimus: a fast, lightweight genome assembler.
BMC Bioinform., 2007

Comparative genome assembly.
Briefings Bioinform., 2004

Shotgun Sequence Assembly.
Adv. Comput., 2004

Genome Sequence Assembly: Algorithms and Issues.
Computer, 2002

Efficient perspective-accurate silhouette computation and applications.
Proceedings of the Seventeenth Annual Symposium on Computational Geometry, 2001

Efficient Perspective-Accurate Silhouette Computation.
Proceedings of the Fifteenth Annual Symposium on Computational Geometry, 1999

Drawing of Two-Dimensional Irregular Meshes.
Proceedings of the Graph Drawing, 6th International Symposium, 1998

De-amortization of Algorithms.
Proceedings of the Computing and Combinatorics, 4th Annual International Conference, 1998