المؤلفون: Kimmo Palin, Jussi Taipale, Janne H. Korhonen, Esko Ukkonen

المصدر: Bioinformatics. 33:514-521

مصطلحات موضوعية: 0301 basic medicine, Statistics and Probability, Theoretical computer science, Computer science, Chromosomes, Human, Pair 22, Single-nucleotide polymorphism, Polymorphism, Single Nucleotide, Biochemistry, 03 medical and health sciences, 0302 clinical medicine, INDEL Mutation, Humans, Position-Specific Scoring Matrices, Indel, Molecular Biology, ta113, Sequence Analysis, DNA, Position weight matrix, Computer Science Applications, Computational Mathematics, 030104 developmental biology, Computational Theory and Mathematics, Motif (music), Sequence motif, Algorithms, Software, 030217 neurology & neurosurgery

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7e75c3183a728d0db777344589c55c10
https://doi.org/10.1093/bioinformatics/btw683

المؤلفون: Jarkko Toivonen, Esko Ukkonen, Jussi Taipale, Pratyush Kumar Das

المساهمون: Department of Computer Science, University of Helsinki, ATG - Applied Tumor Genomics, Research Programs Unit, Jussi Taipale / Principal Investigator

المصدر: Bioinformatics

مصطلحات موضوعية: Statistics and Probability, Orientation (graph theory), Markov model, SEQUENCE, Biochemistry, 03 medical and health sciences, chemistry.chemical_compound, 0302 clinical medicine, EM ALGORITHM, Position (vector), Expectation–maximization algorithm, Order (group theory), Position-Specific Scoring Matrices, TRANSCRIPTION FACTOR, POSITION, Nucleotide Motifs, SPECIFICITY, Molecular Biology, 030304 developmental biology, Mathematics, 11832 Microbiology and virology, SITES, 0303 health sciences, Sequence, Binding Sites, IDENTIFICATION, RECOGNITION, PROTEIN-DNA INTERACTIONS, 113 Computer and information sciences, Mixture model, Original Papers, Computer Science Applications, Computational Mathematics, Monomer, Computational Theory and Mathematics, chemistry, 1182 Biochemistry, cell and molecular biology, Biological system, Sequence Analysis, 030217 neurology & neurosurgery, Algorithms, Software, Protein Binding, Transcription Factors

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::4fa5c60b115791df20ecab64d67f3986
https://pubmed.ncbi.nlm.nih.gov/31999322

المؤلفون: Leena Salmela, Riku Walve, Eric Rivals, Esko Ukkonen

المساهمون: Department of Computer Science, Helsinki Institute for Information Technology, Finnish Centre of Excellence in Algorithmic Data Analysis Research (Algodan), Combinatorial Pattern Matching research group / Esko Ukkonen, Genome-scale Algorithmics research group / Veli Mäkinen, Bioinformatics, Algorithmic Bioinformatics, Helsinki Institute for Information Technology (HIIT), Helsingin yliopisto = Helsingfors universitet = University of Helsinki-Aalto University, Méthodes et Algorithmes pour la Bioinformatique (MAB), Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier (LIRMM), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), Institut de Biologie Computationnelle (IBC), Institut National de la Recherche Agronomique (INRA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), Academy of Finland (grant 267591)EU FP7 SYSCOL UE7-SYSCOL-258236, ANR-12-BS02-0008,Colib'read,Méthodes d'extraction d'information biologique dans les données HTS non assemblées(2012), ANR-11-BINF-0002,IBC,Institut de biologie Computationnelle(2011), European Project: 258236,EC:FP7:HEALTH,FP7-HEALTH-2010-two-stage,SYSCOL(2011), Aalto University, ANR-11-BINF-0002,IBC,Institut de Biologie Computationnelle de Montpellier(2011), Université de Montpellier (UM)-Institut National de la Recherche Agronomique (INRA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS), Aalto University-University of Helsinki, Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)

المصدر: Bioinformatics
Bioinformatics, 2017, 33 (6), pp.799-806. ⟨10.1093/bioinformatics/btw321⟩
Bioinformatics, Oxford University Press (OUP), 2017, 33 (6), pp.799-806. ⟨10.1093/bioinformatics/btw321⟩

مصطلحات موضوعية: 0301 basic medicine, Statistics and Probability, assembly, Computer science, 0206 medical engineering, ACM: F.: Theory of Computation/F.2: ANALYSIS OF ALGORITHMS AND PROBLEM COMPLEXITY, education, Sequence assembly, Word error rate, non hybrid correction, Recomb-Seq/Recomb-Cbb 2016, 02 engineering and technology, Saccharomyces cerevisiae, Biochemistry, Set (abstract data type), 03 medical and health sciences, substitution, Escherichia coli, Quantitative Biology - Genomics, Molecular Biology, Self correction, Throughput (business), De Bruijn sequence, Genomics (q-bio.GN), PacBio, Genome, ACM: F.: Theory of Computation/F.2: ANALYSIS OF ALGORITHMS AND PROBLEM COMPLEXITY/F.2.2: Nonnumerical Algorithms and Problems/F.2.2.6: Sorting and searching, Sequence analysis, 1184 Genetics, developmental biology, physiology, High-Throughput Nucleotide Sequencing, Sequence Analysis, DNA, DNA, 113 Computer and information sciences, Computer Science Applications, Computational Mathematics, 030104 developmental biology, Computational Theory and Mathematics, de Bruijn, indel, FOS: Biological sciences, NGS, LoRDEC, Nanopore sequencing, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], Error detection and correction, Algorithm, 020602 bioinformatics, Algorithms, Software

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6235fdfd98d53a603d4095fc76f2dadf
http://hdl.handle.net/10138/182781

المؤلفون: Szymon Grabowski, Esko Ukkonen, Emanuele Giaquinta, Alexandru I. Tomescu, Kimmo Fredriksson

المصدر: Theoretical Computer Science. 548:1-13

مصطلحات موضوعية: FOS: Computer and information sciences, 0303 health sciences, General Computer Science, 0102 computer and information sciences, Variable length, 01 natural sciences, Theoretical Computer Science, Combinatorics, 03 medical and health sciences, 010201 computation theory & mathematics, Computer Science - Data Structures and Algorithms, Data Structures and Algorithms (cs.DS), Motif (music), Alphabet, Fixed length, 030304 developmental biology, Mathematics

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2f9a8df886f19b3c46a63320b01b069f
https://doi.org/10.1016/j.tcs.2014.06.032

المؤلفون: Travis Gagie, Sophie Sverdlov, Dominik Kempa, Esko Ukkonen, Jarkko Toivonen, Leena Salmela, Alexandre P. Francisco

المصدر: bioRxiv

مصطلحات موضوعية: 0303 health sciences, Sequence, Finite-state machine, Heuristic, Computer science, 0102 computer and information sciences, Function (mathematics), Construct (python library), 01 natural sciences, Symbol (chemistry), 03 medical and health sciences, 010201 computation theory & mathematics, Position (vector), Binding site, Sequence motif, Algorithm, Transcription factor, 030304 developmental biology

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f707fa1f9e60f40c52109b81b1e4a629
https://doi.org/10.1101/143024

المؤلفون: Emanuele Giaquinta, Tomas Flouri, Kassian Kobert, Esko Ukkonen

المساهمون: Department of Computer Science, Aalto-yliopisto, Aalto University, Combinatorial Pattern Matching research group / Esko Ukkonen, Bioinformatics

مصطلحات موضوعية: FOS: Computer and information sciences, Discrete mathematics, String algorithms, Hamming distance, Space (mathematics), 113 Computer and information sciences, Longest repeated substring problem, Substring, Combinatorial problems, Computer Science Applications, Theoretical Computer Science, Longest common substring problem, Longest common substring, Combinatorics, Computer Science - Data Structures and Algorithms, Signal Processing, Data Structures and Algorithms (cs.DS), Constant (mathematics), Information Systems, Mathematics

وصف الملف: application/pdf

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::436e3282efbb048f96ad20622be756c4
https://aaltodoc.aalto.fi/handle/123456789/25527

المؤلفون: Jarkko Toivonen, Jussi Taipale, Arttu Jolma, Jian Yan, Nicholas M. Luscombe, Mikko Taipale, Ekaterina Morgunova, Kimmo Palin, Kazuhiro R. Nitta, Tom Whitington, Patrick Lemaire, Martin Enge, Timothy P. Hughes, Esko Ukkonen, Teemu Kivioja, Gong-Hong Wei, Pasi Rastas, Renaud Vincentelli, Juan M. Vaquerizas

المصدر: Cell. 152(1-2):327-339

مصطلحات موضوعية: Chromatin Immunoprecipitation, Biology, Models, Biological, General Biochemistry, Genetics and Molecular Biology, Mice, 03 medical and health sciences, chemistry.chemical_compound, 0302 clinical medicine, Phylogenetics, Animals, Humans, Gene, Transcription factor, Phylogeny, 030304 developmental biology, Genetics, 0303 health sciences, Biochemistry, Genetics and Molecular Biology(all), SELEX Aptamer Technique, fungi, DNA, Markov Chains, ChIP-sequencing, chemistry, Chromatin immunoprecipitation, 030217 neurology & neurosurgery, Systematic evolution of ligands by exponential enrichment, Transcription Factors

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9820ef8889f379d9f623e43f3f37fcd6

المؤلفون: Veli Antti Tapani Mäkinen, Esko Ukkonen

المصدر: University of Helsinki

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::58bf0cc762ae412f7697902abb528a63
https://doi.org/10.1007/978-1-4939-2864-4_296

المؤلفون: Jussi Taipale, Arttu Jolma, Lu Cheng, Jian Yan, Esko Ukkonen, Mikko Taipale, Shaheynoor Talukder, Juan M. Vaquerizas, Gong-Hong Wei, Kimmo Palin, Martin Bonke, Martin Enge, Nicholas M. Luscombe, Jarkko Toivonen, Teemu Kivioja, Timothy P. Hughes, Mikko J. Sillanpää

المصدر: Genome Research

مصطلحات موضوعية: Molecular Sequence Data, Method, Biology, DNA sequencing, 03 medical and health sciences, 0302 clinical medicine, Genetics, Humans, Binding site, Transcription factor, Genetics (clinical), 030304 developmental biology, 0303 health sciences, Binding Sites, Massive parallel sequencing, Base Sequence, SELEX Aptamer Technique, Affinity Labels, DNA, DNA binding site, DNA microarray, Sequence motif, 030217 neurology & neurosurgery, Systematic evolution of ligands by exponential enrichment, Transcription Factors

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1e3e1ddb0fa052bab5503b4483832ac5
https://doi.org/10.1101/gr.100552.109

المؤلفون: Jarkko Toivonen, Esko Ukkonen, Jussi Taipale, Arttu Jolma, Yimeng Yin, Teemu Kivioja

المساهمون: Helsinki Institute for Information Technology HIIT, University of Helsinki, Karolinska Institutet, University of Cambridge, Aalto University, Department of Computer Science, Aalto-yliopisto, Genome-Scale Biology (GSB) Research Program, Jussi Taipale / Principal Investigator, Helsinki Institute for Information Technology

المصدر: Nucleic Acids Research

مصطلحات موضوعية: 0301 basic medicine, Chromatin Immunoprecipitation, DNA-BINDING, SPECIFICITIES, Computational biology, Biology, SEQUENCE, Machine Learning, 03 medical and health sciences, chemistry.chemical_compound, EM ALGORITHM, Expectation–maximization algorithm, Genetics, HUMAN GENOME, Nucleotide Motifs, Binding site, motif detection, Transcription factor, ta515, Probability, SITES, Binding Sites, Models, Statistical, Base Sequence, IDENTIFICATION, business.industry, SELEX Aptamer Technique, Palindrome, Computational Biology, EXPECTATION MAXIMIZATION ALGORITHM, DNA, Modular design, 113 Computer and information sciences, Mixture model, ALIGNMENT, 030104 developmental biology, Monomer, chemistry, Methods Online, 1182 Biochemistry, cell and molecular biology, 3111 Biomedicine, business, Algorithms, Software, Transcription Factors, CHIP-SEQ DATA

وصف الملف: application/pdf

URL الوصول: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9737d0d00f0d2f4641835ad841eb625a
https://doi.org/10.1093/nar/gky027