Zobrazeno 1 - 10
of 352
pro vyhledávání: '"Mihai Pop"'
Autor:
Tu Luan, Seth Commichaux, Maria Hoffmann, Victor Jayeola, Jae Hee Jang, Mihai Pop, Hugh Rand, Yan Luo
Publikováno v:
BMC Genomics, Vol 25, Iss 1, Pp 1-17 (2024)
Abstract Background Oxford Nanopore provides high throughput sequencing platforms able to reconstruct complete bacterial genomes with 99.95% accuracy. However, even small levels of error can obscure the phylogenetic relationships between closely rela
Externí odkaz:
https://doaj.org/article/5e843866bfc74f04884ca6746d393d87
Publikováno v:
PLoS Computational Biology, Vol 20, Iss 8, p e1012343 (2024)
For decades, the 16S rRNA gene has been used to taxonomically classify prokaryotic species and to taxonomically profile microbial communities. However, the 16S rRNA gene has been criticized for being too conserved to differentiate between distinct sp
Externí odkaz:
https://doaj.org/article/aa86971667e34fd79cdb653c9c563b78
Publikováno v:
Frontiers in Microbiology, Vol 14 (2024)
IntroductionA common task in the analysis of microbial communities involves assigning taxonomic labels to the sequences derived from organisms found in the communities. Frequently, such labels are assigned using machine learning algorithms that are t
Externí odkaz:
https://doaj.org/article/33a9b5ecc147405bbcb9824b5fab6902
Autor:
Seth Commichaux, Hugh Rand, Kiran Javkar, Erin K. Molloy, James B. Pettengill, Arthur Pightling, Maria Hoffmann, Mihai Pop, Victor Jayeola, Steven Foley, Yan Luo
Publikováno v:
BMC Genomics, Vol 24, Iss 1, Pp 1-18 (2023)
Abstract Background The Salmonella enterica serovar Newport red onion outbreak of 2020 was the largest foodborne outbreak of Salmonella in over a decade. The epidemiological investigation suggested two farms as the likely source of contamination. How
Externí odkaz:
https://doaj.org/article/ca72768b89244be3bfd51dc49a272706
SeqScreen: accurate and sensitive functional screening of pathogenic sequences via ensemble learning
Autor:
Advait Balaji, Bryce Kille, Anthony D. Kappell, Gene D. Godbold, Madeline Diep, R. A. Leo Elworth, Zhiqin Qian, Dreycey Albin, Daniel J. Nasko, Nidhi Shah, Mihai Pop, Santiago Segarra, Krista L. Ternus, Todd J. Treangen
Publikováno v:
Genome Biology, Vol 23, Iss 1, Pp 1-29 (2022)
Abstract The COVID-19 pandemic has emphasized the importance of accurate detection of known and emerging pathogens. However, robust characterization of pathogenic sequences remains an open challenge. To address this need we developed SeqScreen, which
Externí odkaz:
https://doaj.org/article/9c83eebfad2b4b72a204629a4c57f43d
Autor:
Seth Commichaux, Kiran Javkar, Padmini Ramachandran, Niranjan Nagarajan, Denis Bertrand, Yi Chen, Elizabeth Reed, Narjol Gonzalez-Escalona, Errol Strain, Hugh Rand, Mihai Pop, Andrea Ottesen
Publikováno v:
BMC Genomics, Vol 22, Iss 1, Pp 1-18 (2021)
Abstract Background Whole genome sequencing of cultured pathogens is the state of the art public health response for the bioinformatic source tracking of illness outbreaks. Quasimetagenomics can substantially reduce the amount of culturing needed bef
Externí odkaz:
https://doaj.org/article/5f6f85a22255402194931f23989f488c
Resources Relocation Support Strategy Based on a Modified Genetic Algorithm for Bike-Sharing Systems
Publikováno v:
Mathematics, Vol 11, Iss 8, p 1816 (2023)
In recent decades, special attention has been given to the adverse effects of traffic congestion. Bike-sharing systems, as a part of the broader category of shared transportation systems, are seen as viable solutions to these problems. Even if the qu
Externí odkaz:
https://doaj.org/article/b0a8818a276a46708c5570c255dc6689
Autor:
Jessica Chopyk, Daniel J. Nasko, Sarah Allard, Anthony Bui, Mihai Pop, Emmanuel F. Mongodin, Amy R. Sapkota
Publikováno v:
Environmental Microbiome, Vol 15, Iss 1, Pp 1-16 (2020)
Abstract Background Ponds are important freshwater habitats that support both human and environmental activities. However, relative to their larger counterparts (e.g. rivers, lakes), ponds are understudied, especially with regard to their microbial c
Externí odkaz:
https://doaj.org/article/4ecd5df3ffed4c359437510d7bbe900a
Autor:
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
Publikováno v:
Genome Biology, Vol 21, Iss 1, Pp 1-13 (2020)
Abstract Background Recent advancements in next-generation sequencing have rapidly improved our ability to study genomic material at an unprecedented scale. Despite substantial improvements in sequencing technologies, errors present in the data still
Externí odkaz:
https://doaj.org/article/4e1a4233b84144cea72cc63ae67e98ba
Autor:
Kiran Javkar, Hugh Rand, Maria Hoffmann, Yan Luo, Saul Sarria, Nagarajan Thirunavukkarasu, Christine A. Pillai, Patrick McGann, J. Kristie Johnson, Errol Strain, Mihai Pop
Publikováno v:
Frontiers in Microbiology, Vol 12 (2021)
Carbapenems—one of the important last-line antibiotics for the treatment of gram-negative infections—are becoming ineffective for treating Acinetobacter baumannii infections. Studies have identified multiple genes (and mechanisms) responsible for
Externí odkaz:
https://doaj.org/article/21c09e74e17e4975bf6b02b54b7d2817