Results 1 to 10 of about 3,386,876 (148)

Population structure analysis of Salmonella serovar Muenchen to redefine geno-serotyping using genome indexing approaches [PDF]

Frontiers in Microbiology
Accurate identification of Salmonella serovars for source attribution in foodborne illness outbreaks. Traditional serotyping, which relies on antigenic properties, continues to serve as gold standard; however, advances in whole-genome sequencing (WGS ...
Padmini Ramachandran, Padmini Ramachandran, Kranti Konganti, Amanda M. Windsor, Christopher J. Grim, Abani K. Pradhan, Abani K. Pradhan   +6 more
doaj   +2 more sources

Kssd: sequence dimensionality reduction by k-mer substring space sampling enables real-time large-scale datasets analysis

Genome Biology, 2021
Here, we develop k -mer substring space decomposition (Kssd), a sketching technique which is significantly faster and more accurate than current sketching methods. We show that it is the only method that can be used for large-scale dataset comparisons at
Huiguang Yi, Yanling Lin, Chengqi Lin, Wenfei Jin   +3 more
doaj   +2 more sources

Density-reducing Jaccard estimators for sketch-based long read applications [PDF]

BMC Bioinformatics
Sequence sketching—a class of techniques aimed at generating compact representations of longer sequences—has become widely used in numerous long read applications, including assembly and mapping.
Tazin Rahman, Ananth Kalyanaraman
doaj   +2 more sources

Aligning distant sequences to graphs using long seed sketches. [PDF]

Genome Res, 2023
AbstractSequence-to-graph alignment is an important step in applications such as variant genotyping, read error correction and genome assembly. When a query sequence requires a substantial number of edits to align, approximate alignment tools that follow the seed-and-extend approach require shorter seeds to get any matches.
Joudaki A, Meterez A, Mustafa H, Groot Koerkamp R, Kahles A, Rätsch G.   +5 more
europepmc   +5 more sources

A putative scenario of how de novo protein-coding genes originate in the Saccharomyces cerevisiae lineage [PDF]

BMC Genomics
Background Novel protein-coding genes were considered to be born by re-organization of pre-existing genes, such as gene duplication and gene fusion. However, recent progress of genome research revealed that more protein-coding genes than expected were ...
Tetsushi Yada, Takeaki Taniguchi
doaj   +2 more sources

Sketching and Sequence Alignment: A Rate-Distortion Perspective [PDF]

2021 IEEE International Symposium on Information Theory (ISIT), 2021
Pairwise alignment of DNA sequencing data is a ubiquitous task in bioinformatics and typically represents a heavy computational burden. A standard approach to speed up this task is to compute "sketches" of the DNA reads (typically via hashing-based techniques) that allow the efficient computation of pairwise alignment scores.
Shomorony, Ilan, Kamath, Govinda M.
openaire   +2 more sources

Generating Concept Sketches from CAD Sequences

ACM Transactions on Graphics, 2022
Concept sketches are ubiquitous in industrial design, as they allow designers to quickly depict imaginary 3D objects. To construct their sketches with accurate perspective, designers rely on longstanding drawing techniques, including the use of auxiliary construction lines to identify midpoints of perspective planes, to align points ...
Hähnlein, Felix, Li, Changjian, Mitra, Niloy, Bousseau, Adrien   +3 more
openaire   +4 more sources

Engaging children in geosciences through storytelling and creative dance [PDF]

Geoscience Communication, 2020
Natural sciences have traditionally been disseminated in outreach activities as formal, one-way presentations. Nevertheless, innovative strategies are being increasingly developed using arts, gaming, and sketching, amongst others.
A. Matias, A. R. Carrasco, A. A. Ramos, R. Borges   +3 more
doaj   +1 more source

The neurophysiological activations of mechanical engineers and industrial designers while designing and problem-solving

Design Science, 2020
This paper presents results from an experiment using electroencephalography to measure neurophysiological activations of mechanical engineers and industrial designers when designing and problem-solving.
Sonia Vieira, John S. Gero, Jessica Delmoral, Valentin Gattol, Carlos Fernandes, Marco Parente, António A. Fernandes   +6 more
doaj   +1 more source

Smart Reservation and Sketch Timetabling Based on ADMM: A Dual-Decomposition Algorithm Application

IEEE Access, 2021
In order to mitigate congestion of urban transportation network, this paper propose a reservation scheme. Given users’ preferred departure time, arrival time and flexible time windows at both origins and destinations, the centralized reserving and
Luetian Sun, Rui Song
doaj   +1 more source