Mihai Pop

71 papers A 1B 1C 4Misc 1Journal 41Unranked 21
YearRankTypeTitle / Venue / Authors
2025 J jnl
Measuring the Carbon Footprint of Cryptographic Privacy-Enhancing Technologies.
CoRR
Marc Damie, Mihai Pop, Merijn Posthuma
2025 — conf
Species detection for microbiomes with TIPP-SD.
BCB
Chengze Shen, Eleanor Wedell, Mihai Pop, Tandy J. Warnow
2025 J jnl
TIPP3 and TIPP3-fast: Improved abundance profiling in metagenomics.
PLoS Comput. Biol.
Chengze Shen, Eleanor Wedell, Mihai Pop, Tandy J. Warnow
2024 J jnl
Database size positively correlates with the loss of species-level taxonomic resolution for the 16S rRNA and other prokaryotic marker genes.
PLoS Comput. Biol.
Seth Commichaux, Tu Luan, Harihara Subrahmaniam Muralidharan, Mihai Pop
2023 J jnl
PRAWNS: compact pan-genomic features for whole-genome population genomics.
Bioinform.
Kiran Javkar, Hugh Rand, Errol Strain, Mihai Pop
2022 — conf
Metamorphic Testing in Bioinformatics Software: A Case Study on Metagenomic Assembly.
MET@ICSE
Brook Stacy, Jason Hauzel, Mikael Lindvall, Adam A. Porter, Mihai Pop
2022 — conf
Probabilistic Petri Nets Model for Assessing Temporal Variations of the Number of Bikes in Bike-Sharing Stations.
AQTR
Horatiu Florian, Camelia Avram, Mihai Pop, Adrian Mocanu, Dan Radu, Adina Astilean
2021 J jnl
A critical assessment of gene catalogs for metagenomic analysis.
Bioinform.
Seth Commichaux, Nidhi Shah, Jay Ghurye, Alexander Stoppel, Jessica A. Goodheart, Guillermo G. Luque, Michael P. Cummings, Mihai Pop
2021 J jnl
TIPP2: metagenomic taxonomic profiling using phylogenetic markers.
Bioinform.
Nidhi Shah, Erin K. Molloy, Mihai Pop, Tandy J. Warnow
2021 J jnl
What do Eulerian and Hamiltonian cycles have to do with genome assembly?
PLoS Comput. Biol.
Paul Medvedev, Mihai Pop
2020 — conf
Benchmarking of computational error-correction methods for next-generation sequencing data.
BCB
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
2020 — conf
Similarity measure for station clustering in bike sharing systems.
AQTR
Horatiu Florian, Mihai Pop, Camelia Avram, Adina Astilean
2019 J jnl
Integrating Hi-C links with assembly graphs for chromosome-scale assembly.
PLoS Comput. Biol.
Jay Ghurye, Arang Rhie, Brian Walenz, Anthony D. Schmitt, Siddarth Selvaraj, Mihai Pop, Adam M. Phillippy, Sergey Koren
2019 J jnl
Metagenomic assembly through the lens of validation: recent advances in assessing and improving the quality of genomes assembled from metagenomes.
Briefings Bioinform.
Nathan D. Olson, Todd J. Treangen, Christopher Michael Hill, Victoria Cepeda-Espinoza, Jay Ghurye, Sergey Koren, Mihai Pop
2019 J jnl
Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows.
Bioinform.
Nidhi Shah, Michael G. Nute, Tandy J. Warnow, Mihai Pop
2019 J jnl
Modern technologies and algorithms for scaffolding assembled genomes.
PLoS Comput. Biol.
Jay Ghurye, Mihai Pop
2019 — conf
SeqScreen: a biocuration platform for robust taxonomic and biological process characterization of nucleic acid sequences of interest.
BIBM
Dreycey Albin, Pravin Muthu, Gene Godbold, Mikael Lindvall, Madeline Diep, Adam A. Porter, Mihai Pop, Krista Ternus, Todd J. Treangen, Dan Nasko, Ryan A. Leo Elworth, Jacob Lu, Advait Balaji, Christian Diaz, Nidhi Shah, Jeremy D. Selengut, Chris Hulme-Lowe
2018 J jnl
Outlier detection in BLAST hits.
Algorithms Mol. Biol.
Nidhi Shah, Stephen F. Altschul, Mihai Pop
2018 — ed.
Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2018, Washington, DC, USA, August 29 - September 01, 2018
BCB
Amarda Shehu, Cathy H. Wu, Christina Boucher, Jing Li, Hongfang Liu, Mihai Pop
2017 C conf
Better Greedy Sequence Clustering with Fast Banded Alignment.
WABI
Brian Brubach, Jay Ghurye, Mihai Pop, Aravind Srinivasan
2017 — conf
Events based advanced control strategy for urban street lighting.
ICE/ITMC
Adina Astilean, Camelia Avram, Ramona Bolboaca, Valentin Sita, Mihai Pop
2017 — conf
Gesture-based Visual Analytics in Virtual Reality.
RoCHI
Mihai Pop, Adrian Sabou
2017 C conf
Outlier Detection in BLAST Hits.
WABI
Nidhi Shah, Stephen F. Altschul, Mihai Pop
2016 C conf
Better Identification of Repeats in Metagenomic Scaffolding.
WABI
Jay Ghurye, Mihai Pop
2016 — conf
Limitations of Current Approaches for Reference-Free, Graph-Based Variant Detection.
BCB
Amelia Bateman, Todd J. Treangen, Mihai Pop
2016 J jnl
Maligner: a fast ordered restriction map aligner.
Bioinform.
Lee Mendelowitz, David C. Schwartz, Mihai Pop
2016 J jnl
Next Generation Sequencing (Dagstuhl Seminar 16351).
Dagstuhl Reports
Gene Myers, Mihai Pop, Knut Reinert, Tandy J. Warnow
2016 — conf
Two stage scheduling method of touristic transport in multimodal networks.
AQTR
Mihai Pop, Mirela Dobra, Claudiu Domuta, Mihai Hulea, Adina Astilean
2015 C ed.
Algorithms in Bioinformatics - 15th International Workshop, WABI 2015, Atlanta, GA, USA, September 10-12, 2015, Proceedings
WABI
Mihai Pop, Hélène Touzet
2015 — conf
Computational challenges in microbiome research.
BIBM
Mihai Pop
2015 J jnl
Use and mis-use of supplementary material in science publications.
BMC Bioinform.
Mihai Pop, Steven Salzberg
2014 J jnl
Automated ensemble assembly and validation of microbial genomes.
BMC Bioinform.
Sergey Koren, Todd J. Treangen, Christopher Michael Hill, Mihai Pop, Adam M. Phillippy
2014 J jnl
TIPP: taxonomic identification and phylogenetic profiling.
Bioinform.
Nam-phuong Nguyen, Siavash Mirarab, Bo Liu, Mihai Pop, Tandy J. Warnow
2013 — conf
De novo likelihood-based measures for comparing metagenomic assemblies.
BIBM
Christopher Michael Hill, Irina Astrovskaya, Howard Huang, Sergey Koren, Atif Memon, Todd J. Treangen, Mihai Pop
2013 J jnl
Exploring variation-aware contig graphs for (comparative) metagenomics using MaryGold.
Bioinform.
Jurgen F. Nijkamp, Mihai Pop, Marcel J. T. Reinders, Dick de Ridder
2013 J jnl
Hawkeye and AMOS: visualizing and assessing the quality of genome assemblies.
Briefings Bioinform.
Michael C. Schatz, Adam M. Phillippy, Daniel D. Sommer, Arthur L. Delcher, Daniela Puiu, Giuseppe Narzisi, Steven L. Salzberg, Mihai Pop
2013 — conf
K-mulus: Strategies for BLAST in the Cloud.
PPAM (2)
Christopher Michael Hill, Carl H. Albach, Sebastian Angel, Mihai Pop
2012 J jnl
AGORA: Assembly Guided by Optical Restriction Alignment.
BMC Bioinform.
Henry C. Lin, Steve Goldstein, Lee Mendelowitz, Shiguo Zhou, Joshua L. Wetzel, David C. Schwartz, Mihai Pop
2012 J jnl
Bioinformatics for the Human Microbiome Project.
PLoS Comput. Biol.
Dirk Gevers, Mihai Pop, Patrick D. Schloss, Curtis Huttenhower
2012 J jnl
Exploiting sparseness in de novo genome assembly.
BMC Bioinform.
Chengxi Ye, Zhanshan (Sam) Ma, Charles H. Cannon, Mihai Pop, Douglas W. Yu
2012 — ed.
IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2012, Las Vegas, NV, USA, February 23-25, 2012
ICCABS
Sorin Istrail, Ion I. Mandoiu, Mihai Pop, Sanguthevar Rajasekaran, John L. Spouge
2012 J jnl
Review of parallel algorithms by Henri Casanova, Arnaud Legrand, and Yves Robert.
SIGACT News
Mihai Pop
2012 — conf
Workshop: Comparative assembly of metagenomic sequences.
ICCABS
Bo Liu, Mihai Pop
2011 J jnl
Assessing the benefits of using mate-pairs to resolve repeats in de novo short-read prokaryotic assemblies.
BMC Bioinform.
Joshua L. Wetzel, Carl Kingsford, Mihai Pop
2011 J jnl
Bambus 2: scaffolding metagenomes.
Bioinform.
Sergey Koren, Todd J. Treangen, Mihai Pop
2011 J jnl
DNACLUST: accurate and efficient clustering of phylogenetic marker genes.
BMC Bioinform.
Mohammadreza Ghodsi, Bo Liu, Mihai Pop
2011 — conf
Invited: Challenges in metagenomic assembly.
ICCABS
Mihai Pop
2011 J jnl
SparseAssembler2: Sparse k-mer Graph for Memory Efficient Genome Assembly
CoRR
Chengxi Ye, Charles H. Cannon, Zhanshan (Sam) Ma, Douglas W. Yu, Mihai Pop
2011 J jnl
SparseAssembler: de novo Assembly with the Sparse de Bruijn Graph
CoRR
Chengxi Ye, Zhanshan (Sam) Ma, Charles H. Cannon, Mihai Pop, Douglas W. Yu
2011 — conf
Workshop: Can you assemble whole genomes from next generation sequencing data?
ICCABS
Mihai Pop
2010 J jnl
Alignment and clustering of phylogenetic markers - implications for microbial diversity studies.
BMC Bioinform.
James Robert White, Saket Navlakha, Niranjan Nagarajan, Mohammadreza Ghodsi, Carl Kingsford, Mihai Pop
2010 J jnl
Assembly complexity of prokaryotic genomes using short reads.
BMC Bioinform.
Carl Kingsford, Michael C. Schatz, Mihai Pop
2010 J jnl
Finding Biologically Accurate Clusterings in Hierarchical Tree Decompositions Using the Variation of Information.
J. Comput. Biol.
Saket Navlakha, James Robert White, Niranjan Nagarajan, Mihai Pop, Carl Kingsford
2010 — conf
Identifying Differentially Abundant Metabolic Pathways in Metagenomic Datasets.
ISBRA
Bo Liu, Mihai Pop
2010 — conf
MetaPhyler: Taxonomic profiling for metagenomic sequences.
BIBM
Bo Liu, Theodore Gibbons, Mohammadreza Ghodsi, Mihai Pop
2009 J jnl
ARDB - Antibiotic Resistance Genes Database.
Nucleic Acids Res.
Bo Liu, Mihai Pop
2009 B conf
Finding Biologically Accurate Clusterings in Hierarchical Tree Decompositions Using the Variation of Information.
RECOMB
Saket Navlakha, James Robert White, Niranjan Nagarajan, Mihai Pop, Carl Kingsford
2009 J jnl
Genome assembly reborn: recent computational challenges.
Briefings Bioinform.
Mihai Pop
2009 — conf
Inexact Local Alignment Search over Suffix Arrays.
BIBM
Mohammadreza Ghodsi, Mihai Pop
2009 J jnl
Parametric Complexity of Sequence Assembly: Theory and Applications to Next Generation Sequencing.
J. Comput. Biol.
Niranjan Nagarajan, Mihai Pop
2009 J jnl
Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples.
PLoS Comput. Biol.
James Robert White, Niranjan Nagarajan, Mihai Pop
2008 J jnl
Figaro: a novel statistical method for vector sequence removal.
Bioinform.
James Robert White, Michael Roberts, James A. Yorke, Mihai Pop
2008 J jnl
Scaffolding and validation of bacterial genome assemblies using optical restriction maps.
Bioinform.
Niranjan Nagarajan, Timothy D. Read, Mihai Pop
2007 J jnl
Minimus: a fast, lightweight genome assembler.
BMC Bioinform.
Daniel D. Sommer, Arthur L. Delcher, Steven L. Salzberg, Mihai Pop
2004 J jnl
Comparative genome assembly.
Briefings Bioinform.
Mihai Pop, Adam M. Phillippy, Arthur L. Delcher, Steven Salzberg
2004 J jnl
Shotgun Sequence Assembly.
Adv. Comput.
Mihai Pop
2002 J jnl
Genome Sequence Assembly: Algorithms and Issues.
Computer
Mihai Pop, Steven Salzberg, Martin Shumway
2001 — conf
Efficient perspective-accurate silhouette computation and applications.
SCG
Mihai Pop, Christian A. Duncan, Gill Barequet, Michael T. Goodrich, Wenjing Huang, Subodh Kumar
1999 — conf
Efficient Perspective-Accurate Silhouette Computation.
SCG
Gill Barequet, Christian A. Duncan, Michael T. Goodrich, Subodh Kumar, Mihai Pop
1998 Misc conf
De-amortization of Algorithms.
COCOON
S. Rao Kosaraju, Mihai Pop
1998 A conf
Drawing of Two-Dimensional Irregular Meshes.
GD
Alok Aggarwal, S. Rao Kosaraju, Mihai Pop