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Wyszukujesz frazę ""Contig Mapping"" wg kryterium: Temat


Tytuł :
MetaCon: unsupervised clustering of metagenomic contigs with probabilistic k-mers statistics and coverage.
Autorzy :
Qian J; Department of Information Engineering, University of Padova, Via Giovanni Gradenigo 6, Padova, Italy.
Comin M; Department of Information Engineering, University of Padova, Via Giovanni Gradenigo 6, Padova, Italy. .
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Źródło :
BMC Bioinformatics [BMC Bioinformatics] 2019 Nov 22; Vol. 20 (Suppl 9), pp. 367. Date of Electronic Publication: 2019 Nov 22.
Typ publikacji :
Journal Article
Journal Info :
Publisher: BioMed Central Country of Publication: England NLM ID: 100965194 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2105 (Electronic) Linking ISSN: 14712105 NLM ISO Abbreviation: BMC Bioinformatics Subsets: MEDLINE
MeSH Terms :
Algorithms*
Contig Mapping*
Metagenome*
Metagenomics*
Probability*
Statistics as Topic*
Cluster Analysis ; Databases, Genetic ; Microbiota/genetics
Czasopismo naukowe
Tytuł :
Complete genomic sequence of tea-oil camellia deltapartitivirus 1, a novel virus from Camellia oleifera.
Autorzy :
Wu LP; School of Life Science, Key Laboratory of Poyang Lake Environment and Resource, Ministry of Education, Nanchang University, Nanchang, Jiangxi, 330031, China.
Du YM; School of Life Science, Key Laboratory of Poyang Lake Environment and Resource, Ministry of Education, Nanchang University, Nanchang, Jiangxi, 330031, China.
Xiao H; School of Life Science, Key Laboratory of Poyang Lake Environment and Resource, Ministry of Education, Nanchang University, Nanchang, Jiangxi, 330031, China.
Peng L; School of Life Science, Key Laboratory of Poyang Lake Environment and Resource, Ministry of Education, Nanchang University, Nanchang, Jiangxi, 330031, China.
Li R; USDA-ARS, National Germplasm Resources Laboratory, Beltsville, MD, 20705, USA. .
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Źródło :
Archives Of Virology [Arch Virol] 2020 Jan; Vol. 165 (1), pp. 227-231. Date of Electronic Publication: 2019 Oct 28.
Typ publikacji :
Journal Article
Journal Info :
Publisher: Springer-Verlag Country of Publication: Austria NLM ID: 7506870 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1432-8798 (Electronic) Linking ISSN: 03048608 NLM ISO Abbreviation: Arch. Virol. Subsets: MEDLINE
MeSH Terms :
Camellia/*virology
RNA Viruses/*genetics
Whole Genome Sequencing/*methods
Contig Mapping ; Genome, Viral ; High-Throughput Nucleotide Sequencing/methods ; Open Reading Frames ; Phylogeny ; RNA Viruses/classification ; RNA, Double-Stranded/genetics
Czasopismo naukowe
Tytuł :
Linkage disequilibrium maps to guide contig ordering for genome assembly.
Autorzy :
Pengelly RJ; Genetic Epidemiology & Bioinformatics, Faculty of Medicine, University of Southampton, Southampton, UK.
Collins A; Genetic Epidemiology & Bioinformatics, Faculty of Medicine, University of Southampton, Southampton, UK.
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Źródło :
Bioinformatics (Oxford, England) [Bioinformatics] 2019 Feb 15; Vol. 35 (4), pp. 541-545.
Typ publikacji :
Journal Article
Journal Info :
Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE
MeSH Terms :
Contig Mapping*
Linkage Disequilibrium*
Polymorphism, Single Nucleotide*
Software*
Humans
Czasopismo naukowe
Tytuł :
BMC3C: binning metagenomic contigs using codon usage, sequence composition and read coverage.
Autorzy :
Yu G; College of Computer and Information Science, Southwest University, Chongqing, China.
Jiang Y; College of Computer and Information Science, Southwest University, Chongqing, China.
Wang J; College of Computer and Information Science, Southwest University, Chongqing, China.
Zhang H; School of Life Sciences and Partner State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong SAR, China.
Luo H; School of Life Sciences and Partner State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong SAR, China.
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Źródło :
Bioinformatics (Oxford, England) [Bioinformatics] 2018 Dec 15; Vol. 34 (24), pp. 4172-4179.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE
MeSH Terms :
Algorithms*
Codon*
Contig Mapping*
Metagenomics*
Cluster Analysis ; Computational Biology ; Sequence Analysis, DNA
Czasopismo naukowe
Tytuł :
Purge Haplotigs: allelic contig reassignment for third-gen diploid genome assemblies.
Autorzy :
Roach MJ; The Australian Wine Research Institute, PO Box 197, Glen Osmond, SA, 5064, Australia. .
Schmidt SA; The Australian Wine Research Institute, PO Box 197, Glen Osmond, SA, 5064, Australia.
Borneman AR; The Australian Wine Research Institute, PO Box 197, Glen Osmond, SA, 5064, Australia.
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Źródło :
BMC Bioinformatics [BMC Bioinformatics] 2018 Nov 29; Vol. 19 (1), pp. 460. Date of Electronic Publication: 2018 Nov 29.
Typ publikacji :
Journal Article
Journal Info :
Publisher: BioMed Central Country of Publication: England NLM ID: 100965194 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2105 (Electronic) Linking ISSN: 14712105 NLM ISO Abbreviation: BMC Bioinformatics Subsets: MEDLINE
MeSH Terms :
Alleles*
Contig Mapping*
Diploidy*
Haplotypes/*genetics
High-Throughput Nucleotide Sequencing/*methods
Arabidopsis/genetics ; Genome, Plant ; Haploidy ; Heterozygote ; Homozygote ; Polymorphism, Single Nucleotide/genetics ; Software
Czasopismo naukowe
Tytuł :
A preliminary integrated genetic map distinguishes every chromosome pair and locates essential genes related to abiotic adaptation of Crassostrea angulata/gigas.
Autorzy :
Cross I; Area de Genética. Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz. Polígono Río San Pedro, 11510 Puerto Real, Cádiz, Spain.
Portela-Bens S; Area de Genética. Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz. Polígono Río San Pedro, 11510 Puerto Real, Cádiz, Spain.
García-Angulo A; Area de Genética. Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz. Polígono Río San Pedro, 11510 Puerto Real, Cádiz, Spain.
Merlo MA; Area de Genética. Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz. Polígono Río San Pedro, 11510 Puerto Real, Cádiz, Spain.
Rodríguez ME; Area de Genética. Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz. Polígono Río San Pedro, 11510 Puerto Real, Cádiz, Spain.
Liehr T; Institut für Humangenetik, Universitätsklinikum Jena, 07743, Jena, Germany.
Rebordinos L; Area de Genética. Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz. Polígono Río San Pedro, 11510 Puerto Real, Cádiz, Spain. .
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Źródło :
BMC Genetics [BMC Genet] 2018 Nov 15; Vol. 19 (1), pp. 104. Date of Electronic Publication: 2018 Nov 15.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: BioMed Central Country of Publication: England NLM ID: 100966978 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2156 (Electronic) Linking ISSN: 14712156 NLM ISO Abbreviation: BMC Genet.
MeSH Terms :
Chromosomes*
Contig Mapping*
Crassostrea/*genetics
Stress, Physiological/*genetics
Aneuploidy ; Animals ; Databases, Genetic ; Gene Library ; Karyotyping
Czasopismo naukowe
Tytuł :
Chromosome assembly of large and complex genomes using multiple references.
Autorzy :
Kolmogorov M; Department of Computer Science and Engineering, University of California, San Diego, California 92093, USA.
Armstrong J; Center for Biomolecular Science and Engineering, University of California, Santa Cruz, California 95064, USA.
Raney BJ; Center for Biomolecular Science and Engineering, University of California, Santa Cruz, California 95064, USA.
Streeter I; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton CB10 1SD, United Kingdom.
Dunn M; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.
Yang F; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.
Odom D; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.; Cancer Research UK Cambridge Institute, University of Cambridge, CB2 0RE Cambridge, United Kingdom.
Flicek P; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton CB10 1SD, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.
Keane TM; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton CB10 1SD, United Kingdom.; Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.; School of Life Sciences, University of Nottingham, Nottingham NG7 2NR, United Kingdom.
Thybert D; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton CB10 1SD, United Kingdom.; Earlham Institute, Norwich Research Park, Norwich NR4 7UG, United Kingdom.
Paten B; Center for Biomolecular Science and Engineering, University of California, Santa Cruz, California 95064, USA.
Pham S; BioTuring Incorporated, San Diego, California 92121, USA.
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Źródło :
Genome Research [Genome Res] 2018 Nov; Vol. 28 (11), pp. 1720-1732. Date of Electronic Publication: 2018 Oct 19.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9518021 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-5469 (Electronic) Linking ISSN: 10889051 NLM ISO Abbreviation: Genome Res. Subsets: MEDLINE
MeSH Terms :
Contig Mapping/*methods
Whole Genome Sequencing/*methods
Animals ; Contig Mapping/standards ; Mice ; Reference Standards ; Whole Genome Sequencing/standards
Czasopismo naukowe
Tytuł :
dnAQET: a framework to compute a consolidated metric for benchmarking quality of de novo assemblies.
Autorzy :
Yavas G; Bioinformatics Branch, Division of Bioinformatics and Biostatistics, National Center for Toxicological Center, U.S Food and Drug Administration, Jefferson, AR, 72079, USA.
Hong H; Bioinformatics Branch, Division of Bioinformatics and Biostatistics, National Center for Toxicological Center, U.S Food and Drug Administration, Jefferson, AR, 72079, USA.
Xiao W; Bioinformatics Branch, Division of Bioinformatics and Biostatistics, National Center for Toxicological Center, U.S Food and Drug Administration, Jefferson, AR, 72079, USA. .; Present Address: Molecular Pathology Cytology Branch, Division of Molecular Genetics and Pathology, Office of In Vitro Diagnostics and Radiological Health, the Center for Devices and Radiological Health, U.S Food and Drug Administration, Silver Spring, MD, 20993, USA. .
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Źródło :
BMC Genomics [BMC Genomics] 2019 Sep 11; Vol. 20 (1), pp. 706. Date of Electronic Publication: 2019 Sep 11.
Typ publikacji :
Journal Article
Journal Info :
Publisher: BioMed Central Country of Publication: England NLM ID: 100965258 Publication Model: Electronic Cited Medium: Internet ISSN: 1471-2164 (Electronic) Linking ISSN: 14712164 NLM ISO Abbreviation: BMC Genomics Subsets: MEDLINE
MeSH Terms :
Genomics/*methods
Benchmarking ; Contig Mapping ; Software
Czasopismo naukowe
Tytuł :
Identification of candidate genes involved in steroidal alkaloids biosynthesis in organ-specific transcriptomes of Veratrum nigrum L.
Autorzy :
Szeliga M; Department of Biotechnology and Bioinformatics, Faculty of Chemistry, Rzeszow University of Technology, Powstańców Warszawy 6 Ave, 35-595 Rzeszów, Poland. Electronic address: .
Ciura J; Department of Biotechnology and Bioinformatics, Faculty of Chemistry, Rzeszow University of Technology, Powstańców Warszawy 6 Ave, 35-595 Rzeszów, Poland; Department of Plant Physiology and Biochemistry, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Gronostajowa 7, 30-387 Kraków, Poland.
Grzesik M; Department of Biotechnology and Bioinformatics, Faculty of Chemistry, Rzeszow University of Technology, Powstańców Warszawy 6 Ave, 35-595 Rzeszów, Poland; Department of Biochemistry and Cell Biology, Faculty of Biology and Agriculture, University of Rzeszów, Ćwiklińskiej 1, 35-601 Rzeszów, Poland.
Tyrka M; Department of Biotechnology and Bioinformatics, Faculty of Chemistry, Rzeszow University of Technology, Powstańców Warszawy 6 Ave, 35-595 Rzeszów, Poland.
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Źródło :
Gene [Gene] 2019 Sep 05; Vol. 712, pp. 143962. Date of Electronic Publication: 2019 Jul 06.
Typ publikacji :
Journal Article
Journal Info :
Publisher: Elsevier/North-Holland Country of Publication: Netherlands NLM ID: 7706761 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1879-0038 (Electronic) Linking ISSN: 03781119 NLM ISO Abbreviation: Gene Subsets: MEDLINE
MeSH Terms :
Gene Expression Regulation, Plant*
Transcriptome*
Alkaloids/*biosynthesis
Steroids/*biosynthesis
Veratrum/*metabolism
Contig Mapping ; DNA, Complementary/metabolism ; Gene Library ; Gene Ontology ; Genetic Markers ; High-Throughput Nucleotide Sequencing ; Microsatellite Repeats ; Molecular Sequence Annotation ; Oligonucleotide Array Sequence Analysis ; Plant Leaves/metabolism ; Plant Proteins/metabolism ; Plant Roots/metabolism ; Sequence Analysis, RNA
Czasopismo naukowe
Tytuł :
Comparison of de-novo assembly tools for plasmid metagenome analysis.
Autorzy :
Gupta SK; Faculty of Biotechnology, College of Applied Life Sciences, SARI, Jeju National University, Jeju, 63243, Republic of Korea.
Raza S; Faculty of Biotechnology, College of Applied Life Sciences, SARI, Jeju National University, Jeju, 63243, Republic of Korea.
Unno T; Faculty of Biotechnology, College of Applied Life Sciences, SARI, Jeju National University, Jeju, 63243, Republic of Korea. .; Subtropical/Tropical Organism Gene Bank, Jeju National University, Jeju, 63243, Republic of Korea. .
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Źródło :
Genes & Genomics [Genes Genomics] 2019 Sep; Vol. 41 (9), pp. 1077-1083. Date of Electronic Publication: 2019 Jun 11.
Typ publikacji :
Comparative Study; Journal Article; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: The Korean Society of Genetics Country of Publication: Korea (South) NLM ID: 101481027 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2092-9293 (Electronic) Linking ISSN: 19769571 NLM ISO Abbreviation: Genes Genomics Subsets: MEDLINE
MeSH Terms :
Software*
Contig Mapping/*methods
Metagenomics/*methods
Sequence Analysis, DNA/*methods
Metagenome ; Microbiota/genetics ; Plasmids/genetics ; Water Microbiology
Czasopismo naukowe
Tytuł :
CSAR-web: a web server of contig scaffolding using algebraic rearrangements.
Autorzy :
Chen KT; Department of Computer Science, National Tsing Hua University, Hsinchu 30013, Taiwan.
Lu CL; Department of Computer Science, National Tsing Hua University, Hsinchu 30013, Taiwan.
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Źródło :
Nucleic Acids Research [Nucleic Acids Res] 2018 Jul 02; Vol. 46 (W1), pp. W55-W59.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res.
MeSH Terms :
Contig Mapping*
Internet*
Software*
Genome/*genetics
Algorithms ; Computational Biology/methods ; Genomics/methods ; Sequence Analysis, DNA
Czasopismo naukowe
Tytuł :
The red deer Cervus elaphus genome CerEla1.0: sequencing, annotating, genes, and chromosomes.
Autorzy :
Bana NÁ; Agricultural Biotechnology Institute, National Agricultural Research and Innovation Center, Szent-Györgyi Albert str. 4, Gödöllő, 2100, Hungary.; Department of Animal Breeding Technology and Management Faculty of Agricultural and Environmental Sciences, Kaposvár University, Guba Sándor str. 40, Kaposvár, 7400, Hungary.
Nyiri A; Agricultural Biotechnology Institute, National Agricultural Research and Innovation Center, Szent-Györgyi Albert str. 4, Gödöllő, 2100, Hungary.
Nagy J; Department of Animal Breeding Technology and Management Faculty of Agricultural and Environmental Sciences, Kaposvár University, Guba Sándor str. 40, Kaposvár, 7400, Hungary.
Frank K; Agricultural Biotechnology Institute, National Agricultural Research and Innovation Center, Szent-Györgyi Albert str. 4, Gödöllő, 2100, Hungary.; Department of Animal Breeding Technology and Management Faculty of Agricultural and Environmental Sciences, Kaposvár University, Guba Sándor str. 40, Kaposvár, 7400, Hungary.
Nagy T; Agricultural Biotechnology Institute, National Agricultural Research and Innovation Center, Szent-Györgyi Albert str. 4, Gödöllő, 2100, Hungary.
Stéger V; Agricultural Biotechnology Institute, National Agricultural Research and Innovation Center, Szent-Györgyi Albert str. 4, Gödöllő, 2100, Hungary.
Schiller M; Agricultural Biotechnology Institute, National Agricultural Research and Innovation Center, Szent-Györgyi Albert str. 4, Gödöllő, 2100, Hungary.
Lakatos P; 1st Department of Internal Medicine, Semmelweis University, Korányi Sándor str. 2/a, Budapest, 1083, Hungary.
Sugár L; Department of Animal Breeding Technology and Management Faculty of Agricultural and Environmental Sciences, Kaposvár University, Guba Sándor str. 40, Kaposvár, 7400, Hungary.
Horn P; Department of Animal Breeding Technology and Management Faculty of Agricultural and Environmental Sciences, Kaposvár University, Guba Sándor str. 40, Kaposvár, 7400, Hungary.
Barta E; Agricultural Biotechnology Institute, National Agricultural Research and Innovation Center, Szent-Györgyi Albert str. 4, Gödöllő, 2100, Hungary.; Department of Biochemistry and Molecular Biology, University of Debrecen, Nagyerdei ave 98, Debrecen, 4032, Hungary.
Orosz L; Agricultural Biotechnology Institute, National Agricultural Research and Innovation Center, Szent-Györgyi Albert str. 4, Gödöllő, 2100, Hungary. .; Department of Genetics, Faculty of Sciences, Eötvös Loránd University, Pázmány Péter ave. 1/c, Budapest, 1117, Hungary. .
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Źródło :
Molecular Genetics And Genomics: MGG [Mol Genet Genomics] 2018 Jun; Vol. 293 (3), pp. 665-684. Date of Electronic Publication: 2018 Jan 02.
Typ publikacji :
Journal Article
Journal Info :
Publisher: Springer-Verlag Country of Publication: Germany NLM ID: 101093320 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1617-4623 (Electronic) Linking ISSN: 16174623 NLM ISO Abbreviation: Mol. Genet. Genomics Subsets: MEDLINE
MeSH Terms :
Contig Mapping/*methods
Deer/*genetics
Sequence Analysis, DNA/*methods
Animals ; Animals, Domestic/genetics ; Cattle ; Chromosome Mapping/methods ; Chromosome Mapping/veterinary ; Contig Mapping/veterinary ; Genome-Wide Association Study ; Molecular Sequence Annotation ; Sequence Analysis, DNA/veterinary
Czasopismo naukowe
Tytuł :
Identifying, understanding, and correcting technical artifacts on the sex chromosomes in next-generation sequencing data.
Autorzy :
Webster TH; School of Life Sciences, Arizona State University, 427 E Tyler Mall, Tempe, AZ 85281, USA.; Department of Anthropology, University of Utah, 260 S Central Drive, Carolyn and Kem Gardner Commons, Suite 4625, Salt Lake City, UT 84112, USA.
Couse M; University of British Columbia, 2329 West Mall, Vancouver, BC, V6T 1Z4, Canada.; BC Children's Hospital Research Institute, 950 W 28th Avenue, Vancouver, BC, V5Z 4H4, Canada.
Grande BM; Department of Molecular Biology and Biochemistry, Simon Fraser University, 8888 University Drive, Burnaby, BC, V5A 1S6, Canada.
Karlins E; Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, 9609 Medical Center Drive, MSC 9776, Bethesda, MD 20892, USA.
Phung TN; Interdepartmental Program in Bioinformatics, UCLA, 621 Charles E. Young Drive South, Los Angeles, CA 90095-1606, USA.
Richmond PA; BC Children's Hospital Research Institute, 950 W 28th Avenue, Vancouver, BC, V5Z 4H4, Canada.; Centre for Molecular Medicine and Therapeutics, University of British Columbia, 950 West 28th Avenue, Vancouver, BC, V52 4H4, Canada.
Whitford W; School of Biological Sciences, The University of Auckland, Private Bag 92019, Auckland 1142, New Zealand.; Centre for Brain Research, The University of Auckland, Private Bag 92019, Auckland 1142, New Zealand.
Wilson MA; School of Life Sciences, Arizona State University, 427 E Tyler Mall, Tempe, AZ 85281, USA.; Center for Evolution and Medicine, Arizona State University, 401 E. Tyler Mall, Tempe, AZ 85287, USA.
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Źródło :
Gigascience [Gigascience] 2019 Jul 01; Vol. 8 (7).
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: Oxford University Press Country of Publication: United States NLM ID: 101596872 Publication Model: Print Cited Medium: Internet ISSN: 2047-217X (Electronic) Linking ISSN: 2047217X NLM ISO Abbreviation: Gigascience Subsets: MEDLINE
MeSH Terms :
Sequence Homology, Nucleic Acid*
Chromosomes, Human, X/*genetics
Chromosomes, Human, Y/*genetics
High-Throughput Nucleotide Sequencing/*methods
Sequence Analysis, DNA/*methods
Artifacts ; Contig Mapping/methods ; Contig Mapping/standards ; Female ; High-Throughput Nucleotide Sequencing/standards ; Humans ; Male ; Sequence Alignment/methods ; Sequence Alignment/standards ; Sequence Analysis, DNA/standards
Czasopismo naukowe
Tytuł :
De novo transcriptome assembly of a facultative parasitic nematode Pelodera (syn. Rhabditis) strongyloides.
Autorzy :
Zhang M; Centre of Reproduction, Development and Aging, Faculty of Health Sciences, University of Macau, Macau, SAR, China.
Heikkinen L; University of Jyväskylä, Finland.
Knott KE; University of Jyväskylä, Finland.
Wong G; Centre of Reproduction, Development and Aging, Faculty of Health Sciences, University of Macau, Macau, SAR, China. Electronic address: .
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Źródło :
Gene [Gene] 2019 Aug 20; Vol. 710, pp. 30-38. Date of Electronic Publication: 2019 May 23.
Typ publikacji :
Journal Article
Journal Info :
Publisher: Elsevier/North-Holland Country of Publication: Netherlands NLM ID: 7706761 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1879-0038 (Electronic) Linking ISSN: 03781119 NLM ISO Abbreviation: Gene Subsets: MEDLINE
MeSH Terms :
Gene Expression Profiling/*methods
Helminth Proteins/*genetics
Rhabditoidea/*genetics
Animals ; Contig Mapping ; Evolution, Molecular ; Gene Expression Regulation ; Phylogeny ; Rhabditoidea/anatomy & histology ; Sequence Analysis, RNA/methods
Czasopismo naukowe
Tytuł :
BiosyntheticSPAdes: reconstructing biosynthetic gene clusters from assembly graphs.
Autorzy :
Meleshko D; Center for Algorithmic Biotechnology, Institute for Translational Biomedicine, St. Petersburg State University, St. Petersburg, Russia, 19904.; Tri-Institutional PhD Program in Computational Biology and Medicine, Weill Cornell Medical College, New York, New York 10021, USA.
Mohimani H; Department of Computer Science and Engineering, University of California, San Diego, California 92093-0404, USA.; Computational Biology Department, School of Computer Sciences, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA.
Tracanna V; Bioinformatics Group, Wageningen University, 6708 PB Wageningen, The Netherlands.
Hajirasouliha I; Institute for Computational Biomedicine, Department of Physiology and Biophysics, Weill Cornell Medicine of Cornell University, New York, New York 10021, USA.; Englander Institute for Precision Medicine, Meyer Cancer Center, Weill Cornell Medicine, New York, New York 10021, USA.
Medema MH; Bioinformatics Group, Wageningen University, 6708 PB Wageningen, The Netherlands.
Korobeynikov A; Center for Algorithmic Biotechnology, Institute for Translational Biomedicine, St. Petersburg State University, St. Petersburg, Russia, 19904.; Department of Statistical Modelling, St. Petersburg State University, St. Petersburg, Russia, 198504.
Pevzner PA; Center for Algorithmic Biotechnology, Institute for Translational Biomedicine, St. Petersburg State University, St. Petersburg, Russia, 19904.; Department of Computer Science and Engineering, University of California, San Diego, California 92093-0404, USA.
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Źródło :
Genome Research [Genome Res] 2019 Aug; Vol. 29 (8), pp. 1352-1362. Date of Electronic Publication: 2019 Jun 03.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9518021 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-5469 (Electronic) Linking ISSN: 10889051 NLM ISO Abbreviation: Genome Res. Subsets: MEDLINE
MeSH Terms :
Genes, Bacterial*
Metagenome*
Multigene Family*
Software*
Metagenomics/*methods
Contig Mapping ; Datasets as Topic ; Dental Plaque/microbiology ; Gingiva/microbiology ; Humans ; Internet ; Mouth Mucosa/microbiology ; Pharynx/microbiology ; Protein Biosynthesis ; Tongue/microbiology
Czasopismo naukowe
Tytuł :
Chromosomal-level assembly of the blood clam, Scapharca (Anadara) broughtonii, using long sequence reads and Hi-C.
Autorzy :
Bai CM; Key Laboratory of Maricultural Organism Disease Control, Ministry of Agriculture; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology; Qingdao Key Laboratory of Mariculture Epidemiology and Biosecurity; Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 106 Nanjing Road, Qingdao 266071, China.
Xin LS; Key Laboratory of Maricultural Organism Disease Control, Ministry of Agriculture; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology; Qingdao Key Laboratory of Mariculture Epidemiology and Biosecurity; Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 106 Nanjing Road, Qingdao 266071, China.
Rosani U; Department of Biology, University of Padua, Via Ugo Bassi 58/B, Padua 35121, Italy.; Alfred Wegener Institute - Helmholtz Centre for Polar and Marine Research, Wadden Sea Station, Hafenstraße 43, List/Sylt 25992, Germany.
Wu B; Key Laboratory of Maricultural Organism Disease Control, Ministry of Agriculture; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology; Qingdao Key Laboratory of Mariculture Epidemiology and Biosecurity; Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 106 Nanjing Road, Qingdao 266071, China.
Wang QC; Key Laboratory of Maricultural Organism Disease Control, Ministry of Agriculture; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology; Qingdao Key Laboratory of Mariculture Epidemiology and Biosecurity; Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 106 Nanjing Road, Qingdao 266071, China.
Duan XK; Biomarker Technologies Corporation, 12 Fuqian Street, Beijing 101200, China.
Liu ZH; Key Laboratory of Maricultural Organism Disease Control, Ministry of Agriculture; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology; Qingdao Key Laboratory of Mariculture Epidemiology and Biosecurity; Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 106 Nanjing Road, Qingdao 266071, China.
Wang CM; Key Laboratory of Maricultural Organism Disease Control, Ministry of Agriculture; Laboratory for Marine Fisheries Science and Food Production Processes, Qingdao National Laboratory for Marine Science and Technology; Qingdao Key Laboratory of Mariculture Epidemiology and Biosecurity; Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 106 Nanjing Road, Qingdao 266071, China.
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Źródło :
Gigascience [Gigascience] 2019 Jul 01; Vol. 8 (7).
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: Oxford University Press Country of Publication: United States NLM ID: 101596872 Publication Model: Print Cited Medium: Internet ISSN: 2047-217X (Electronic) Linking ISSN: 2047217X NLM ISO Abbreviation: Gigascience Subsets: MEDLINE
MeSH Terms :
Genome*
Bivalvia/*genetics
Chromosomes/*genetics
Animals ; Contig Mapping ; Molecular Sequence Annotation ; Whole Genome Sequencing
Czasopismo naukowe
Tytuł :
De novo genome assembly of the endangered Acer yangbiense, a plant species with extremely small populations endemic to Yunnan Province, China.
Autorzy :
Yang J; Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.
Wariss HM; Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; University of Chinese Academy of Sciences, Beijing, 100049, China.
Tao L; Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.
Zhang R; Beijing Ori-Gene Science and Technology Co. Ltd, Beijing, 102206, China.
Yun Q; Beijing Ori-Gene Science and Technology Co. Ltd, Beijing, 102206, China.
Hollingsworth P; Royal Botanic Garden Edinburgh, 20a Inverleith Row, Edinburgh, UK.
Dao Z; Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.
Luo G; Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.
Guo H; Southwest Forestry University, Kunming, 650224, Yunnan, China.
Ma Y; Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.
Sun W; Yunnan Key Laboratory for Integrative Conservation of Plant Species with Extremely Small Populations, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.; Kunming Botanical Garden, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.
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Źródło :
Gigascience [Gigascience] 2019 Jul 01; Vol. 8 (7).
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: Oxford University Press Country of Publication: United States NLM ID: 101596872 Publication Model: Print Cited Medium: Internet ISSN: 2047-217X (Electronic) Linking ISSN: 2047217X NLM ISO Abbreviation: Gigascience Subsets: MEDLINE
MeSH Terms :
Endangered Species*
Genome, Plant*
Acer/*genetics
Chromosomes, Plant/*genetics
China ; Contig Mapping ; Molecular Sequence Annotation ; Whole Genome Sequencing
Czasopismo naukowe
Tytuł :
Misassembly of long reads undermines de novo-assembled ethnicity-specific genomes: validation in a Chinese Han population.
Autorzy :
Mai Z; Key Laboratory of Functional Protein Research of Guangdong Higher Education Institutes, Institute of Life and Health Engineering, Jinan University, Guangzhou, 510632, China.
Liu W; Key Laboratory of Functional Protein Research of Guangdong Higher Education Institutes, Institute of Life and Health Engineering, Jinan University, Guangzhou, 510632, China.
Ding W; Key Laboratory of Functional Protein Research of Guangdong Higher Education Institutes, Institute of Life and Health Engineering, Jinan University, Guangzhou, 510632, China.
Zhang G; Key Laboratory of Functional Protein Research of Guangdong Higher Education Institutes, Institute of Life and Health Engineering, Jinan University, Guangzhou, 510632, China. .
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Źródło :
Human Genetics [Hum Genet] 2019 Jul; Vol. 138 (7), pp. 757-769. Date of Electronic Publication: 2019 Jun 05.
Typ publikacji :
Journal Article; Validation Studies
Journal Info :
Publisher: Springer Verlag Country of Publication: Germany NLM ID: 7613873 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1432-1203 (Electronic) Linking ISSN: 03406717 NLM ISO Abbreviation: Hum. Genet. Subsets: MEDLINE
MeSH Terms :
Genome, Human*
Reference Standards*
Asian Continental Ancestry Group/*genetics
Ethnic Groups/*genetics
Genomics/*standards
High-Throughput Nucleotide Sequencing/*methods
Sequence Analysis, DNA/*standards
Algorithms ; Contig Mapping ; Genetics, Population ; Humans ; Polymorphism, Single Nucleotide ; Transcriptome
Czasopismo naukowe
Tytuł :
Transcriptome analysis reveals novel insights in air-breathing magur catfish (Clarias magur) in response to high environmental ammonia.
Autorzy :
Banerjee B; Biochemical Adaptation Laboratory, Department of Zoology, North-Eastern Hill University, Shillong 793022, India.
Koner D; Biochemical Adaptation Laboratory, Department of Zoology, North-Eastern Hill University, Shillong 793022, India.
Hasan R; Biochemical Adaptation Laboratory, Department of Zoology, North-Eastern Hill University, Shillong 793022, India.
Bhattacharya S; Molecular Endocrinology Laboratory, Centre for Advanced Studies in Zoology, Visva-Bharati University, Santiniketan 731235, India.
Saha N; Biochemical Adaptation Laboratory, Department of Zoology, North-Eastern Hill University, Shillong 793022, India. Electronic address: .
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Źródło :
Gene [Gene] 2019 Jun 30; Vol. 703, pp. 35-49. Date of Electronic Publication: 2019 Apr 03.
Typ publikacji :
Journal Article
Journal Info :
Publisher: Elsevier/North-Holland Country of Publication: Netherlands NLM ID: 7706761 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1879-0038 (Electronic) Linking ISSN: 03781119 NLM ISO Abbreviation: Gene Subsets: MEDLINE
MeSH Terms :
Ammonia/*toxicity
Catfishes/*physiology
Fish Proteins/*genetics
Gene Expression Profiling/*methods
Adaptation, Physiological ; Animals ; Base Composition ; Brain/drug effects ; Brain/metabolism ; Catfishes/genetics ; Contig Mapping ; Gene Expression Regulation/drug effects ; Gene Regulatory Networks/drug effects ; Liver/drug effects ; Liver/metabolism ; Reactive Oxygen Species/metabolism ; Sequence Analysis, RNA/methods
Czasopismo naukowe
Tytuł :
Plastome reduction and gene content in New World Pilostyles (Apodanthaceae) unveils high similarities to African and Australian congeners.
Autorzy :
Arias-Agudelo LM; Centro Nacional de Secuenciación Genómica - CNSG, Sede de Investigación Universitaria - SIU, Universidad de Antioquia UdeA, Carrera 53 # 61-30, Medellín, Colombia; Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia UdeA, Carrera 51D # 62-29, Medellín, Colombia.
González F; Universidad Nacional de Colombia, Facultad de Ciencias, Instituto de Ciencias Naturales, AA. 7495, Bogotá, Colombia.
Isaza JP; Centro Nacional de Secuenciación Genómica - CNSG, Sede de Investigación Universitaria - SIU, Universidad de Antioquia UdeA, Carrera 53 # 61-30, Medellín, Colombia; Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia UdeA, Carrera 51D # 62-29, Medellín, Colombia.
Alzate JF; Centro Nacional de Secuenciación Genómica - CNSG, Sede de Investigación Universitaria - SIU, Universidad de Antioquia UdeA, Carrera 53 # 61-30, Medellín, Colombia; Grupo de Parasitología, Facultad de Medicina, Universidad de Antioquia UdeA, Carrera 51D # 62-29, Medellín, Colombia.
Pabón-Mora N; Instituto de Biología, Universidad de Antioquia UdeA, Medellín, Colombia. Electronic address: .
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Źródło :
Molecular Phylogenetics And Evolution [Mol Phylogenet Evol] 2019 Jun; Vol. 135, pp. 193-202. Date of Electronic Publication: 2019 Mar 23.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
Journal Info :
Publisher: Academic Press Country of Publication: United States NLM ID: 9304400 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1095-9513 (Electronic) Linking ISSN: 10557903 NLM ISO Abbreviation: Mol. Phylogenet. Evol. Subsets: MEDLINE
MeSH Terms :
Genes, Plant*
Genome, Plastid/*genetics
Magnoliopsida/*genetics
Africa ; Amino Acid Sequence ; Australia ; Base Sequence ; Contig Mapping ; Molecular Sequence Annotation ; Phylogeny ; Synteny/genetics ; Transcription, Genetic
Czasopismo naukowe

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