Výsledky vyhledávání - computing algorithms and (((bioinformatics OR informatika) OR informatika) OR informatics)

Porting of an Atmospheric Chemistry Solver to Parallel CPU-GPU Execution

Autoři: Guzman Ruiz, Christian

Thesis Advisors: Acosta, Mario C. (Mario César), César Galobardes, Eduardo

Zdroj: TDX (Tesis Doctorals en Xarxa)

Témata: Informàtica d'alt rendiment, High-Performance Computing, Computación de alto rendimient, GPU, Models climàtics químics, Chemistry Climate models, Modelos climáticos químicos, Tecnologies

Popis souboru: application/pdf

Přístupová URL adresa: http://hdl.handle.net/10803/693090

Massive cosmological data generation and distribution

Autoři: Tallada Crespi, Pau

Thesis Advisors: Tonello , Nadia, Carretero Palacios, Jorge, César Galobardes, Eduardo

Zdroj: TDX (Tesis Doctorals en Xarxa)

Témata: Gestió de dades, Data management, Gestión de datos, Distribució de dades, Data distribution, Distribución de datos, Optimització d'algorismes, Algorithm optimization, Optimización de algoritmos, Tecnologies

Popis souboru: application/pdf

Přístupová URL adresa: http://hdl.handle.net/10803/691707

Derivation and Analysis of Distributed Computing Algorithms in Biological Systems

Autoři: Chandrasekhar, Arjun

Témata: Bioinformatics, Computer science, Ecology, Algorithms in Nature, Ant Biology, Distributed Computing, Neuroscience, Optimization

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/03v7w5sf
https://escholarship.org/content/qt03v7w5sf/qt03v7w5sf.pdf

Replacing non-biomedical concepts improves embedding of biomedical concepts

Autoři: Niyonkuru, Enock Gomez, Mauricio Soto Casarighi, Elena a další

Zdroj: PLOS ONE. 20(5)

Témata: Information and Computing Sciences, Biological Sciences, Bioinformatics and Computational Biology, Algorithms, Machine Learning, Semantics, Medical Informatics Computing, General Science & Technology

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/43k9s6k4
https://escholarship.org/content/qt43k9s6k4/qt43k9s6k4.pdf

Leveraging gene correlations in single cell transcriptomic data

Autoři: Silkwood, Kai Dollinger, Emmanuel Gervin, Joshua a další

Zdroj: BMC Bioinformatics. 25(1)

Témata: 31 Biological Sciences (for-2020), 3102 Bioinformatics and Computational Biology (for-2020), Human Genome (rcdc), Genetics (rcdc), Single-Cell Analysis (mesh), Humans (mesh), Sequence Analysis, RNA (mesh), Transcriptome (mesh), Algorithms (mesh), Gene Expression Profiling (mesh), Gene Regulatory Networks (mesh), Single cell RNA sequencing, Gene-gene correlation, Gene regulatory network, Gene co-expression network, Melanoma, Humans (mesh), Gene Expression Profiling (mesh), Sequence Analysis, RNA (mesh), Algorithms (mesh), Gene Regulatory Networks (mesh), Single-Cell Analysis (mesh), Transcriptome (mesh), Gene co-expression network, Gene regulatory network, Gene–gene correlation, Melanoma, Single cell RNA sequencing, Single-Cell Analysis (mesh), Humans (mesh), Sequence Analysis, RNA (mesh), Transcriptome (mesh), Algorithms (mesh), Gene Expression Profiling (mesh), Gene Regulatory Networks (mesh), 01 Mathematical Sciences (for), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), Bioinformatics (science-metrix), 31 Biological sciences (for-2020), 46 Information and computing sciences (for-2020), 49 Mathematical sciences (for-2020)

Přístupová URL adresa: https://escholarship.org/uc/item/15k712w5

FluxRETAP: a REaction TArget Prioritization genome-scale modeling technique for selecting genetic targets

Autoři: Czajka, Jeffrey J Kim, Joonhoon Tang, Yinjie J a další

Zdroj: Bioinformatics. 41(9)

Témata: 31 Biological Sciences (for-2020), 3106 Industrial Biotechnology (for-2020), Genetics (rcdc), Biotechnology (rcdc), Bioengineering (rcdc), Escherichia coli (mesh), Metabolic Engineering (mesh), Software (mesh), Synthetic Biology (mesh), Pseudomonas putida (mesh), Machine Learning (mesh), Genome, Bacterial (mesh), Algorithms (mesh), Metabolic Networks and Pathways (mesh), Pseudomonas putida (mesh), Escherichia coli (mesh), Genome, Bacterial (mesh), Algorithms (mesh), Software (mesh), Metabolic Networks and Pathways (mesh), Synthetic Biology (mesh), Metabolic Engineering (mesh), Machine Learning (mesh), Escherichia coli (mesh), Metabolic Engineering (mesh), Software (mesh), Synthetic Biology (mesh), Pseudomonas putida (mesh), Machine Learning (mesh), Genome, Bacterial (mesh), Algorithms (mesh), Metabolic Networks and Pathways (mesh), 01 Mathematical Sciences (for), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), Bioinformatics (science-metrix), 31 Biological sciences (for-2020), 46 Information and computing sciences (for-2020), 49 Mathematical sciences (for-2020)

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/1n5748bq
https://escholarship.org/content/qt1n5748bq/qt1n5748bq.pdf

DNABERT-S: pioneering species differentiation with species-aware DNA embeddings

Autoři: Zhou, Zhihan Wu, Weimin Ho, Harrison a další

Zdroj: Bioinformatics. 41(Supplement_1)

Témata: 31 Biological Sciences (for-2020), 3102 Bioinformatics and Computational Biology (for-2020), 3105 Genetics (for-2020), 46 Information and Computing Sciences (for-2020), 4611 Machine Learning (for-2020), Human Genome (rcdc), Genetics (rcdc), Generic health relevance (hrcs-hc), 3 Good Health and Well Being (sdg), Sequence Analysis, DNA (mesh), DNA (mesh), Genomics (mesh), Algorithms (mesh), Species Specificity (mesh), Genome (mesh), 46 Information and Computing Sciences (for-2020), 31 Biological Sciences (for-2020), 3105 Genetics (for-2020), 4611 Machine Learning (for-2020), Human Genome (rcdc), Genetics (rcdc), Generic health relevance (hrcs-hc), 3 Good Health and Well Being (sdg), DNA (mesh), Sequence Analysis, DNA (mesh), Genomics (mesh), Species Specificity (mesh), Genome (mesh), Algorithms (mesh), Sequence Analysis, DNA (mesh), DNA (mesh), Genomics (mesh), Algorithms (mesh), Species Specificity (mesh), Genome (mesh), 01 Mathematical Sciences (for), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), Bioinformatics (science-metrix), 31 Biological sciences (for-2020), 46 Information and computing sciences (for-2020), 49 Mathematical sciences (for-2020)

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/9kf0s9g0
https://escholarship.org/content/qt9kf0s9g0/qt9kf0s9g0.pdf

SetBERT: the deep learning platform for contextualized embeddings and explainable predictions from high-throughput sequencing

Autoři: Ludwig, David W Guptil, Christopher Alexander, Nicholas R a další

Zdroj: Bioinformatics. 41(7)

Témata: 46 Information and Computing Sciences (for-2020), 31 Biological Sciences (for-2020), 3102 Bioinformatics and Computational Biology (for-2020), Bioengineering (rcdc), Networking and Information Technology R&D (NITRD) (rcdc), Human Genome (rcdc), Genetics (rcdc), Machine Learning and Artificial Intelligence (rcdc), 3 Good Health and Well Being (sdg), Deep Learning (mesh), High-Throughput Nucleotide Sequencing (mesh), Sequence Analysis, DNA (mesh), Microbiota (mesh), Software (mesh), Computational Biology (mesh), Algorithms (mesh), Sequence Analysis, DNA (mesh), Computational Biology (mesh), Algorithms (mesh), Software (mesh), High-Throughput Nucleotide Sequencing (mesh), Microbiota (mesh), Deep Learning (mesh), Deep Learning (mesh), High-Throughput Nucleotide Sequencing (mesh), Sequence Analysis, DNA (mesh), Microbiota (mesh), Software (mesh), Computational Biology (mesh), Algorithms (mesh), 01 Mathematical Sciences (for), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), Bioinformatics (science-metrix), 31 Biological sciences (for-2020), 46 Information and computing sciences (for-2020), 49 Mathematical sciences (for-2020)

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/7b07t0b7
https://escholarship.org/content/qt7b07t0b7/qt7b07t0b7.pdf

Aro: a machine learning approach to identifying single molecules and estimating classification error in fluorescence microscopy images

Autoři: Wu, Allison Chia-Yi Rifkin, Scott A

Zdroj: BMC Bioinformatics. 16(1)

Témata: 46 Information and Computing Sciences (for-2020), 31 Biological Sciences (for-2020), 4603 Computer Vision and Multimedia Computation (for-2020), Networking and Information Technology R&D (NITRD) (rcdc), Bioengineering (rcdc), Algorithms (mesh), Animals (mesh), Artificial Intelligence (mesh), Caenorhabditis elegans (mesh), Computational Biology (mesh), Embryo, Nonmammalian (mesh), Fluorescence (mesh), Fluorescent Dyes (mesh), Image Processing, Computer-Assisted (mesh), In Situ Hybridization, Fluorescence (mesh), Microscopy, Fluorescence (mesh), Nanotechnology (mesh), RNA, Messenger (mesh), Software (mesh), Staining and Labeling (mesh), Single molecule imaging, smFISH, Random forest, Image informatics, RNA, Fluorescence microscopy, Machine learning, Image quality, Embryo, Nonmammalian (mesh), Animals (mesh), Caenorhabditis elegans (mesh), RNA, Messenger (mesh), Fluorescent Dyes (mesh), Microscopy, Fluorescence (mesh), Staining and Labeling (mesh), In Situ Hybridization, Fluorescence (mesh), Computational Biology (mesh), Algorithms (mesh), Nanotechnology (mesh), Fluorescence (mesh), Artificial Intelligence (mesh), Image Processing, Computer-Assisted (mesh), Software (mesh), Algorithms (mesh), Animals (mesh), Artificial Intelligence (mesh), Caenorhabditis elegans (mesh), Computational Biology (mesh), Embryo, Nonmammalian (mesh), Fluorescence (mesh), Fluorescent Dyes (mesh), Image Processing, Computer-Assisted (mesh), In Situ Hybridization, Fluorescence (mesh), Microscopy, Fluorescence (mesh), Nanotechnology (mesh), RNA, Messenger (mesh), Software (mesh), Staining and Labeling (mesh), 01 Mathematical Sciences (for), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), Bioinformatics (science-metrix), 31 Biological sciences (for-2020), 46 Information and computing sciences (for-2020), 49 Mathematical sciences (for-2020)

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/21v4j6jw
https://escholarship.org/content/qt21v4j6jw/qt21v4j6jw.pdf

Kingdom-wide CRISPR guide design with ALLEGRO

Autoři: Mohseni, Amirsadra Nia, Reyhane Ghorbani Tafrishi, Aida a další

Zdroj: Nucleic Acids Research. 53(15)

Témata: Biological Sciences, Bioinformatics and Computational Biology, Biotechnology, Genetics, Human Genome, Generic health relevance, RNA, Guide, CRISPR-Cas Systems, CRISPR-Cas Systems, Genome, Fungal, Gene Editing, Algorithms, Kluyveromyces, Saccharomyces cerevisiae, Clustered Regularly Interspaced Short Palindromic Repeats, Yarrowia, Rhodotorula, Gene Library, Saccharomycetales, Environmental Sciences, Information and Computing Sciences, Developmental Biology, Biological sciences, Chemical sciences, Environmental sciences

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/9zm954ng
https://escholarship.org/content/qt9zm954ng/qt9zm954ng.pdf

TRFill: synergistic use of HiFi and Hi-C sequencing enables accurate assembly of tandem repeats for population-level analysis.

Autoři: Wen, Huaming Yang, Jinbao Zhao, Xianjia a další

Zdroj: Genome biology. 26(1)

Témata: Centromere, Telomere, Humans, Sequence Analysis, DNA, Tandem Repeat Sequences, Algorithms, Software, Solanum lycopersicum, Gap filling, Genome assembly, Reference-guided genome assembly, Segmental duplications, Tandem repeats, Environmental Sciences, Biological Sciences, Information and Computing Sciences, Bioinformatics

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/1s4297xt
https://escholarship.org/content/qt1s4297xt/qt1s4297xt.pdf

Systematic benchmarking of computational methods to identify spatially variable genes

Autoři: Li, Zhijian M.Patel, Zain Song, Dongyuan a další

Zdroj: Genome Biology. 26(1)

Témata: 31 Biological Sciences (for-2020), 3102 Bioinformatics and Computational Biology (for-2020), Human Genome (rcdc), Genetics (rcdc), Networking and Information Technology R&D (NITRD) (rcdc), Benchmarking (mesh), Computational Biology (mesh), Algorithms (mesh), Gene Expression Profiling (mesh), Humans (mesh), Transcriptome (mesh), Benchmarking, Spatially variable genes, Simulation, Spatial omics, Visium, MERFISH, Humans (mesh), Gene Expression Profiling (mesh), Computational Biology (mesh), Algorithms (mesh), Benchmarking (mesh), Transcriptome (mesh), Benchmarking, MERFISH, Simulation, Spatial omics, Spatially variable genes, Visium, Benchmarking (mesh), Computational Biology (mesh), Algorithms (mesh), Gene Expression Profiling (mesh), Humans (mesh), Transcriptome (mesh), 05 Environmental Sciences (for), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), Bioinformatics (science-metrix)

Přístupová URL adresa: https://escholarship.org/uc/item/16x872z6

Functional protein mining with conformal guarantees

Autoři: Boger, Ron S Chithrananda, Seyone Angelopoulos, Anastasios N a další

Zdroj: Nature Communications. 16(1)

Témata: 46 Information and Computing Sciences (for-2020), 3101 Biochemistry and Cell Biology (for-2020), 3102 Bioinformatics and Computational Biology (for-2020), 31 Biological Sciences (for-2020), Proteins (mesh), Algorithms (mesh), Computational Biology (mesh), Protein Conformation (mesh), Data Mining (mesh), Databases, Protein (mesh), Reproducibility of Results (mesh), Proteins (mesh), Reproducibility of Results (mesh), Computational Biology (mesh), Protein Conformation (mesh), Algorithms (mesh), Databases, Protein (mesh), Data Mining (mesh), Proteins (mesh), Algorithms (mesh), Computational Biology (mesh), Protein Conformation (mesh), Data Mining (mesh), Databases, Protein (mesh), Reproducibility of Results (mesh)

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/3br9k1dr
https://escholarship.org/content/qt3br9k1dr/qt3br9k1dr.pdf

clusterMaker2: a major update to clusterMaker, a multi-algorithm clustering app for Cytoscape

Autoři: Utriainen, Maija Morris, John H

Zdroj: BMC Bioinformatics. 24(1)

Témata: Biological Sciences, Bioinformatics and Computational Biology, Networking and Information Technology R&D (NITRD), Bioengineering, Generic health relevance, Mobile Applications, Saccharomyces cerevisiae, Algorithms, Protein Interaction Maps, Cluster Analysis, Clustering, Community detection, Network analysis, Visualization, Cytoscape, Mathematical Sciences, Information and Computing Sciences, Bioinformatics, Biological sciences, Information and computing sciences, Mathematical sciences

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/4pt6q1c3
https://escholarship.org/content/qt4pt6q1c3/qt4pt6q1c3.pdf

Post-quantum cryptography acceleration for next generation computers

Autoři: Kostalampros, Ioannis-Vatistas

Přispěvatelé: University/Department: Universitat Politècnica de Catalunya. Departament d'Arquitectura de Computadors

Thesis Advisors: Moretó Planas, Miquel, Hernández Luz, Carles

Zdroj: TDX (Tesis Doctorals en Xarxa)

Témata: Àrees temàtiques de la UPC::Informàtica, 004 - Informàtica

Popis souboru: application/pdf

Přístupová URL adresa: http://hdl.handle.net/10803/695219
https://dx.doi.org/10.5821/dissertation-2117-441612

A generalized covariate-adjusted top-scoring pair algorithm with applications to diabetic kidney disease stage classification in the Chronic Renal Insufficiency Cohort (CRIC) Study

Autoři: Kwan, Brian Fuhrer, Tobias Montemayor, Daniel a další

Zdroj: BMC Bioinformatics. 24(1)

Témata: Mathematical Sciences, Information and Computing Sciences, Statistics, Machine Learning, Kidney Disease, Diabetes, Clinical Research, Renal and urogenital, Humans, Diabetic Nephropathies, Betaine, Algorithms, Metabolomics, Renal Insufficiency, Chronic, Diabetes Mellitus, Biomarker, Classification, Feature selection, Kidney disease, Order statistics, Ranking algorithm, Biological Sciences, Bioinformatics, Biological sciences, Information and computing sciences, Mathematical sciences

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/004995rm
https://escholarship.org/content/qt004995rm/qt004995rm.pdf

ChromaFactor: Deconvolution of single-molecule chromatin organization with non-negative matrix factorization

Autoři: Gunsalus, Laura M Keiser, Michael J Pollard, Katherine S

Zdroj: PLOS Computational Biology. 21(2)

Témata: Biochemistry and Cell Biology, Biological Sciences, Human Genome, Genetics, Biotechnology, 1.1 Normal biological development and functioning, 2.1 Biological and endogenous factors, Generic health relevance, Chromatin, Computational Biology, Humans, Single Molecule Imaging, Algorithms, Single-Cell Analysis, Mathematical Sciences, Information and Computing Sciences, Bioinformatics

Přístupová URL adresa: https://escholarship.org/uc/item/9cw1r2jr

Evaluation of an automated phenotyping algorithm for rheumatoid arthritis

Autoři: Zheng, Henry W Ranganath, Veena K Perry, Lucas C a další

Zdroj: Journal of Biomedical Informatics. 135

Témata: 46 Information and Computing Sciences (for-2020), 4601 Applied Computing (for-2020), Rheumatoid Arthritis (rcdc), Arthritis (rcdc), Clinical Research (rcdc), Autoimmune Disease (rcdc), 7.3 Management and decision making (hrcs-rac), 7.1 Individual care needs (hrcs-rac), Inflammatory and immune system (hrcs-hc), Humans (mesh), Electronic Health Records (mesh), Algorithms (mesh), Knowledge Bases (mesh), Phenotype (mesh), Arthritis, Rheumatoid (mesh), Phenotyping algorithm, Computational phenotyping, Rheumatoid arthritis, PheKB, Humans (mesh), Arthritis, Rheumatoid (mesh), Phenotype (mesh), Algorithms (mesh), Knowledge Bases (mesh), Electronic Health Records (mesh), Computational phenotyping, PheKB, Phenotyping algorithm, Rheumatoid arthritis, Humans (mesh), Electronic Health Records (mesh), Algorithms (mesh), Knowledge Bases (mesh), Phenotype (mesh), Arthritis, Rheumatoid (mesh), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), 11 Medical and Health Sciences (for), Biomedical Engineering (science-metrix), Medical Informatics (science-metrix), 4203 Health services and systems (for-2020), 4601 Applied computing (for-2020)

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/9pd5z853
https://escholarship.org/content/qt9pd5z853/qt9pd5z853.pdf

Tree polynomials identify a link between co-transcriptional R-loops and nascent RNA folding

Autoři: Liu, Pengyu Lusk, Jacob Jonoska, Nataša a další

Zdroj: PLOS Computational Biology. 20(12)

Témata: Biological Sciences, Bioinformatics and Computational Biology, Genetics, Human Genome, 1.1 Normal biological development and functioning, RNA, Computational Biology, Transcription, Genetic, Nucleic Acid Conformation, Algorithms, Software, RNA Folding, R-Loop Structures, Mathematical Sciences, Information and Computing Sciences, Bioinformatics

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/7hf1p79d
https://escholarship.org/content/qt7hf1p79d/qt7hf1p79d.pdf

Bipartite tight spectral clustering (BiTSC) algorithm for identifying conserved gene co-clusters in two species

Autoři: Sun, Yidan Eden Zhou, Heather J Li, Jingyi Jessica

Zdroj: Bioinformatics. 37(9)

Témata: 31 Biological Sciences (for-2020), 3102 Bioinformatics and Computational Biology (for-2020), Networking and Information Technology R&D (NITRD) (rcdc), Genetics (rcdc), Bioengineering (rcdc), Generic health relevance (hrcs-hc), Algorithms (mesh), Animals (mesh), Cluster Analysis (mesh), Drosophila melanogaster (mesh), Gene Expression (mesh), Gene Expression Profiling (mesh), Animals (mesh), Drosophila melanogaster (mesh), Cluster Analysis (mesh), Gene Expression Profiling (mesh), Gene Expression (mesh), Algorithms (mesh), Algorithms (mesh), Animals (mesh), Cluster Analysis (mesh), Drosophila melanogaster (mesh), Gene Expression (mesh), Gene Expression Profiling (mesh), 01 Mathematical Sciences (for), 06 Biological Sciences (for), 08 Information and Computing Sciences (for), Bioinformatics (science-metrix), 31 Biological sciences (for-2020), 46 Information and computing sciences (for-2020), 49 Mathematical sciences (for-2020)

Popis souboru: application/pdf

Přístupová URL adresa: https://escholarship.org/uc/item/0zk6839v
https://escholarship.org/content/qt0zk6839v/qt0zk6839v.pdf