Author details

Full Name

Mihai Pop

Affiliation

ORCID

Career Start Year

1995

Papers

141

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37016310	Assessment of plasmids for relating the 2020 Salmonella enterica serovar Newport onion outbreak to farms implicated by the outbreak investigation.		2023
36116790	Gut Microbiome-Wide Search for Bacterial Azoreductases Reveals Potentially Uncharacterized Azoreductases Encoded in the Human Gut Microbiome.	Drug Metabolism and Disposition	2023
36912074	SCRAPT: an iterative algorithm for clustering large 16S rRNA gene data sets.		2023
36579850	PRAWNS: compact pan-genomic features for whole-genome population genomics.		2023
35057236	Some Theoretical and Experimental Extensions Based on the Properties of the Intrinsic Transfer Matrix.	Materials	2022
35725628	SeqScreen: accurate and sensitive functional screening of pathogenic sequences via ensemble learning.		2022
34659144	Whole-Genome Assessment of Clinical Isolates Uncovers Potentially Novel Factors Influencing Carbapenem Resistance.	Frontiers in Microbiology	2021
34014915	What do Eulerian and Hamiltonian cycles have to do with genome assembly?	PLoS Computational Biology	2021
33792639	A critical assessment of gene catalogs for metagenomic analysis.		2021
33471121	TIPP2: metagenomic taxonomic profiling using phylogenetic markers.		2021
34039264	Evaluating the accuracy of Listeria monocytogenes assemblies from quasimetagenomic samples using long and short reads.	BMC Genomics	2021
33717033	Binnacle: Using Scaffolds to Improve the Contiguity and Quality of Metagenomic Bins.	Frontiers in Microbiology	2021
33500335	Genomic Drivers of Multidrug-Resistant Affecting Vulnerable Patient Populations in the United States and Abroad.	mBio	2021
34745023	The Capacity to Produce Hydrogen Sulfide (HS) via Cysteine Degradation Is Ubiquitous in the Human Gut Microbiome.	Frontiers in Microbiology	2021
33171855	A New Thermal Conductivity Model and Two-Phase Mixed Convection of CuO-Water Nanofluids in a Novel I-Shaped Porous Cavity Heated by Oriented Triangular Hot Block.	Nanomaterials	2020
31846873	Metagenomic analysis of bacterial and viral assemblages from a freshwater creek and irrigated field reveals temporal and spatial dynamics.	Science of the Total Environment	2020
32183840	Benchmarking of computational error-correction methods for next-generation sequencing data.	Genome Biol	2020
31726395	Comparative metagenomic analysis of microbial taxonomic and functional variations in untreated surface and reclaimed waters used in irrigation applications.	Water Research	2020
33902740	Seasonal dynamics in taxonomy and function within bacterial and viral metagenomic assemblages recovered from a freshwater agricultural pond.	Environmental Microbiomes	2020
31375138	Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation.	Genome Biol	2019
31594828	Current State of and Future Opportunities for Prediction in Microbiome Research: Report from the Mid-Atlantic Microbiome Meet-up in Baltimore on 9 January 2019.	mSystems	2019
31681437	Embracing Ambiguity in the Taxonomic Classification of Microbiome Sequencing Data.	Frontiers in Genetics	2019
28968737	Metagenomic assembly through the lens of validation: recent advances in assessing and improving the quality of genomes assembled from metagenomes.	Brief Bioinform	2019
30247621	Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows.		2019
31451112	MetaCarvel: linking assembly graph motifs to biological variants.		2019
31433799	Integrating Hi-C links with assembly graphs for chromosome-scale assembly.	PLoS Comput Biol	2019
31166948	Modern technologies and algorithms for scaffolding assembled genomes.	PLoS Computational Biology	2019
31015109	Pharmaceuticals, herbicides, and disinfectants in agricultural water sources.	Environmental Research	2019
30938701	Microbiota of the Hickey Run Tributary of the Anacostia River.	Microbiology Resource Announcements	2019
29588650	Outlier detection in BLAST hits.	Algorithms for Molecular Biology	2018
29929281	Conventional wastewater treatment and reuse site practices modify bacterial community structure but do not eliminate some opportunistic pathogens in reclaimed water.	Sci Total Environ	2018
30396371	Current progress and future opportunities in applications of bioinformatics for biodefense and pathogen detection: report from the Winter Mid-Atlantic Microbiome Meet-up, College Park, MD, January 10, 2018.	Microbiome	2018
30467235	You can't always sequence your way out of a tight spot: Next-generation sequencing holds great promise for pathogen detection, but the devil is in the details.	EMBO Reports	2018
28202080	Mentholation affects the cigarette microbiota by selecting for bacteria resistant to harsh environmental conditions and selecting against potential bacterial pathogens.	Microbiome	2017
28326071	Temporal Variations in Cigarette Tobacco Bacterial Community Composition and Tobacco-Specific Nitrosamine Content Are Influenced by Brand and Storage Conditions.	Frontiers in Microbiology	2017
28967888	Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software.	Nat Methods	2017
28701198	Scaffolding of long read assemblies using long range contact information.	BMC Genomics	2017
29030152	Identification of microbiota dynamics using robust parameter estimation methods.		2017
29218035	Characterization of Two Cryptic Plasmids Isolated in Haiti from Clinical Non-O1/Non-O139.	Frontiers in Microbiology	2017
28111618	Chaperone-Usher Pili Loci of Colonization Factor-Negative Human Enterotoxigenic .	Frontiers in Cellular and Infection Microbiology	2016
28721243	A perspective on 16S rRNA operational taxonomic unit clustering using sequence similarity.	npj Biofilms and Microbiomes	2016
27391224	Longitudinal analysis of the lung microbiota of cynomolgous macaques during long-term SHIV infection.	Microbiome	2016
27277524	Individual-specific changes in the human gut microbiota after challenge with enterotoxigenic Escherichia coli and subsequent ciprofloxacin treatment.	BMC Genomics	2016
26943627	Capturing the most wanted taxa through cross-sample correlations.	ISME Journal	2016
26637292	Maligner: a fast ordered restriction map aligner.	Bioinformatics	2016
27858948	Comparison of 360-Degree Circumferential Trabeculotomy and Conventional Trabeculotomy in Primary Pediatric Glaucoma Surgery: Part 1.	Journal of Pediatric Ophthalmology and Strabismus	2016
27698619	Metagenomic Assembly: Overview, Challenges and Applications.	Yale Journal of Biology and Medicine	2016
27611571	Diversity in a Polymicrobial Community Revealed by Analysis of Viromes, Endolysins and CRISPR Spacers.	PLoS One	2016
26225154	Evolution of Choroidal Neovascular Membrane in Best Disease after Single Intravitreal Bevacizumab. Case Report.		2015
25625766	Microbiota that affect risk for shigellosis in children in low-income countries.	Emerg Infect Dis	2015