Taxonomic metagenome sequence assignment with structured output models View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/nmeth0311-191

DOI

http://dx.doi.org/10.1038/nmeth0311-191

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1017901774

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/21358620


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

JSON-LD is the canonical representation for SciGraph data.

TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

[
  {
    "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
    "about": [
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/10", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Technology", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/11", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Medical and Health Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Bacteria", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Computer Simulation", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Metagenome", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Software", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Max-Planck Research Group for Computational Genomics and Epidemiology, Max Planck Institute for Informatics, Saarbr\u00fccken, Germany", 
          "id": "http://www.grid.ac/institutes/grid.419528.3", 
          "name": [
            "Max-Planck Research Group for Computational Genomics and Epidemiology, Max Planck Institute for Informatics, Saarbr\u00fccken, Germany"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Patil", 
        "givenName": "Kaustubh R", 
        "id": "sg:person.01362637627.85", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01362637627.85"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Computer Science, University of Potsdam, Potsdam, Germany", 
          "id": "http://www.grid.ac/institutes/grid.11348.3f", 
          "name": [
            "Department of Computer Science, University of Potsdam, Potsdam, Germany"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Haider", 
        "givenName": "Peter", 
        "id": "sg:person.0666070361.20", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0666070361.20"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Commonwealth Scientific and Industrial Research Organization Livestock Industries, Queensland Bioscience Precinct, St Lucia, Australia", 
          "id": "http://www.grid.ac/institutes/grid.1016.6", 
          "name": [
            "Commonwealth Scientific and Industrial Research Organization Livestock Industries, Queensland Bioscience Precinct, St Lucia, Australia"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Pope", 
        "givenName": "Phillip B", 
        "id": "sg:person.01214125664.12", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01214125664.12"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Harvard Faculty of Arts and Sciences Center for Systems Biology, Cambridge, Massacusetts, USA", 
          "id": "http://www.grid.ac/institutes/grid.483004.b", 
          "name": [
            "Harvard Faculty of Arts and Sciences Center for Systems Biology, Cambridge, Massacusetts, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Turnbaugh", 
        "givenName": "Peter J", 
        "id": "sg:person.01065252767.89", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01065252767.89"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Commonwealth Scientific and Industrial Research Organization Livestock Industries, Queensland Bioscience Precinct, St Lucia, Australia", 
          "id": "http://www.grid.ac/institutes/grid.1016.6", 
          "name": [
            "Commonwealth Scientific and Industrial Research Organization Livestock Industries, Queensland Bioscience Precinct, St Lucia, Australia"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Morrison", 
        "givenName": "Mark", 
        "id": "sg:person.01241753575.19", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01241753575.19"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Computer Science, University of Potsdam, Potsdam, Germany", 
          "id": "http://www.grid.ac/institutes/grid.11348.3f", 
          "name": [
            "Department of Computer Science, University of Potsdam, Potsdam, Germany"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Scheffer", 
        "givenName": "Tobias", 
        "id": "sg:person.0765615604.15", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0765615604.15"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Algorithmic Bioinformatics, Heinrich-Heine University D\u00fcsseldorf, D\u00fcsseldorf, Germany", 
          "id": "http://www.grid.ac/institutes/grid.411327.2", 
          "name": [
            "Max-Planck Research Group for Computational Genomics and Epidemiology, Max Planck Institute for Informatics, Saarbr\u00fccken, Germany", 
            "Department of Algorithmic Bioinformatics, Heinrich-Heine University D\u00fcsseldorf, D\u00fcsseldorf, Germany"
          ], 
          "type": "Organization"
        }, 
        "familyName": "McHardy", 
        "givenName": "Alice C", 
        "id": "sg:person.01041701425.67", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01041701425.67"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "sg:pub.10.1038/nmeth976", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1007149601", 
          "https://doi.org/10.1038/nmeth976"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nmeth.1358", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008886215", 
          "https://doi.org/10.1038/nmeth.1358"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2011-02-25", 
    "datePublishedReg": "2011-02-25", 
    "genre": "article", 
    "id": "sg:pub.10.1038/nmeth0311-191", 
    "inLanguage": "en", 
    "isAccessibleForFree": true, 
    "isFundedItemOf": [
      {
        "id": "sg:grant.2440522", 
        "type": "MonetaryGrant"
      }
    ], 
    "isPartOf": [
      {
        "id": "sg:journal.1033763", 
        "issn": [
          "1548-7091", 
          "1548-7105"
        ], 
        "name": "Nature Methods", 
        "publisher": "Springer Nature", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "3", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "8"
      }
    ], 
    "keywords": [
      "model", 
      "assignment", 
      "sequence assignment", 
      "output model", 
      "Taxonomic metagenome sequence assignment", 
      "metagenome sequence assignment", 
      "structured output models"
    ], 
    "name": "Taxonomic metagenome sequence assignment with structured output models", 
    "pagination": "191-192", 
    "productId": [
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1017901774"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1038/nmeth0311-191"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "21358620"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1038/nmeth0311-191", 
      "https://app.dimensions.ai/details/publication/pub.1017901774"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2022-01-01T18:25", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-springernature-scigraph/baseset/20220101/entities/gbq_results/article/article_549.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://doi.org/10.1038/nmeth0311-191"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/nmeth0311-191'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/nmeth0311-191'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/nmeth0311-191'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/nmeth0311-191'


 

This table displays all metadata directly associated to this object as RDF triples.

153 TRIPLES      21 PREDICATES      39 URIs      28 LITERALS      11 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1038/nmeth0311-191 schema:about N0767d7373b634ab38ea669b70853b4b7
2 N4651f492b3824fadb1d93e8715a40458
3 Na6e030d11a7545ce9a7a25468ab1476d
4 Neb3629032ea541ed9f754eb820c9f201
5 anzsrc-for:06
6 anzsrc-for:10
7 anzsrc-for:11
8 schema:author Na3bc1de0234845509e424a97f4792918
9 schema:citation sg:pub.10.1038/nmeth.1358
10 sg:pub.10.1038/nmeth976
11 schema:datePublished 2011-02-25
12 schema:datePublishedReg 2011-02-25
13 schema:genre article
14 schema:inLanguage en
15 schema:isAccessibleForFree true
16 schema:isPartOf Na8097b8617cf49679bd6fe46492a5e0b
17 Nb503ebd86c4342b186b741532feeeb25
18 sg:journal.1033763
19 schema:keywords Taxonomic metagenome sequence assignment
20 assignment
21 metagenome sequence assignment
22 model
23 output model
24 sequence assignment
25 structured output models
26 schema:name Taxonomic metagenome sequence assignment with structured output models
27 schema:pagination 191-192
28 schema:productId Ndb2bdfe4b8db4d87bcb5d7d4d861477a
29 Nf74370b2708e49c7a2ba072617331979
30 Nf757fc38eda74942aaf69d1556a2a008
31 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017901774
32 https://doi.org/10.1038/nmeth0311-191
33 schema:sdDatePublished 2022-01-01T18:25
34 schema:sdLicense https://scigraph.springernature.com/explorer/license/
35 schema:sdPublisher Nd37884d526c047879896e8ef82a49616
36 schema:url https://doi.org/10.1038/nmeth0311-191
37 sgo:license sg:explorer/license/
38 sgo:sdDataset articles
39 rdf:type schema:ScholarlyArticle
40 N012ec0681e994f5c926cbba2b7fd576d rdf:first sg:person.01041701425.67
41 rdf:rest rdf:nil
42 N0767d7373b634ab38ea669b70853b4b7 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
43 schema:name Computer Simulation
44 rdf:type schema:DefinedTerm
45 N289c87a067364fc793054fa9f6b2bcd3 rdf:first sg:person.01065252767.89
46 rdf:rest Na53a8c09e78f4ad0932f6d2054cc40ef
47 N39f495bcf8544020a2f8940c7ba530a6 rdf:first sg:person.0765615604.15
48 rdf:rest N012ec0681e994f5c926cbba2b7fd576d
49 N4651f492b3824fadb1d93e8715a40458 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
50 schema:name Bacteria
51 rdf:type schema:DefinedTerm
52 N546b37cad8464df082c49fc8fc20aaa0 rdf:first sg:person.0666070361.20
53 rdf:rest N680e69a28d3941718f508cde709ade8a
54 N680e69a28d3941718f508cde709ade8a rdf:first sg:person.01214125664.12
55 rdf:rest N289c87a067364fc793054fa9f6b2bcd3
56 Na3bc1de0234845509e424a97f4792918 rdf:first sg:person.01362637627.85
57 rdf:rest N546b37cad8464df082c49fc8fc20aaa0
58 Na53a8c09e78f4ad0932f6d2054cc40ef rdf:first sg:person.01241753575.19
59 rdf:rest N39f495bcf8544020a2f8940c7ba530a6
60 Na6e030d11a7545ce9a7a25468ab1476d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
61 schema:name Software
62 rdf:type schema:DefinedTerm
63 Na8097b8617cf49679bd6fe46492a5e0b schema:volumeNumber 8
64 rdf:type schema:PublicationVolume
65 Nb503ebd86c4342b186b741532feeeb25 schema:issueNumber 3
66 rdf:type schema:PublicationIssue
67 Nd37884d526c047879896e8ef82a49616 schema:name Springer Nature - SN SciGraph project
68 rdf:type schema:Organization
69 Ndb2bdfe4b8db4d87bcb5d7d4d861477a schema:name doi
70 schema:value 10.1038/nmeth0311-191
71 rdf:type schema:PropertyValue
72 Neb3629032ea541ed9f754eb820c9f201 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
73 schema:name Metagenome
74 rdf:type schema:DefinedTerm
75 Nf74370b2708e49c7a2ba072617331979 schema:name dimensions_id
76 schema:value pub.1017901774
77 rdf:type schema:PropertyValue
78 Nf757fc38eda74942aaf69d1556a2a008 schema:name pubmed_id
79 schema:value 21358620
80 rdf:type schema:PropertyValue
81 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
82 schema:name Biological Sciences
83 rdf:type schema:DefinedTerm
84 anzsrc-for:10 schema:inDefinedTermSet anzsrc-for:
85 schema:name Technology
86 rdf:type schema:DefinedTerm
87 anzsrc-for:11 schema:inDefinedTermSet anzsrc-for:
88 schema:name Medical and Health Sciences
89 rdf:type schema:DefinedTerm
90 sg:grant.2440522 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth0311-191
91 rdf:type schema:MonetaryGrant
92 sg:journal.1033763 schema:issn 1548-7091
93 1548-7105
94 schema:name Nature Methods
95 schema:publisher Springer Nature
96 rdf:type schema:Periodical
97 sg:person.01041701425.67 schema:affiliation grid-institutes:grid.411327.2
98 schema:familyName McHardy
99 schema:givenName Alice C
100 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01041701425.67
101 rdf:type schema:Person
102 sg:person.01065252767.89 schema:affiliation grid-institutes:grid.483004.b
103 schema:familyName Turnbaugh
104 schema:givenName Peter J
105 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01065252767.89
106 rdf:type schema:Person
107 sg:person.01214125664.12 schema:affiliation grid-institutes:grid.1016.6
108 schema:familyName Pope
109 schema:givenName Phillip B
110 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01214125664.12
111 rdf:type schema:Person
112 sg:person.01241753575.19 schema:affiliation grid-institutes:grid.1016.6
113 schema:familyName Morrison
114 schema:givenName Mark
115 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01241753575.19
116 rdf:type schema:Person
117 sg:person.01362637627.85 schema:affiliation grid-institutes:grid.419528.3
118 schema:familyName Patil
119 schema:givenName Kaustubh R
120 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01362637627.85
121 rdf:type schema:Person
122 sg:person.0666070361.20 schema:affiliation grid-institutes:grid.11348.3f
123 schema:familyName Haider
124 schema:givenName Peter
125 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0666070361.20
126 rdf:type schema:Person
127 sg:person.0765615604.15 schema:affiliation grid-institutes:grid.11348.3f
128 schema:familyName Scheffer
129 schema:givenName Tobias
130 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0765615604.15
131 rdf:type schema:Person
132 sg:pub.10.1038/nmeth.1358 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008886215
133 https://doi.org/10.1038/nmeth.1358
134 rdf:type schema:CreativeWork
135 sg:pub.10.1038/nmeth976 schema:sameAs https://app.dimensions.ai/details/publication/pub.1007149601
136 https://doi.org/10.1038/nmeth976
137 rdf:type schema:CreativeWork
138 grid-institutes:grid.1016.6 schema:alternateName Commonwealth Scientific and Industrial Research Organization Livestock Industries, Queensland Bioscience Precinct, St Lucia, Australia
139 schema:name Commonwealth Scientific and Industrial Research Organization Livestock Industries, Queensland Bioscience Precinct, St Lucia, Australia
140 rdf:type schema:Organization
141 grid-institutes:grid.11348.3f schema:alternateName Department of Computer Science, University of Potsdam, Potsdam, Germany
142 schema:name Department of Computer Science, University of Potsdam, Potsdam, Germany
143 rdf:type schema:Organization
144 grid-institutes:grid.411327.2 schema:alternateName Department of Algorithmic Bioinformatics, Heinrich-Heine University Düsseldorf, Düsseldorf, Germany
145 schema:name Department of Algorithmic Bioinformatics, Heinrich-Heine University Düsseldorf, Düsseldorf, Germany
146 Max-Planck Research Group for Computational Genomics and Epidemiology, Max Planck Institute for Informatics, Saarbrücken, Germany
147 rdf:type schema:Organization
148 grid-institutes:grid.419528.3 schema:alternateName Max-Planck Research Group for Computational Genomics and Epidemiology, Max Planck Institute for Informatics, Saarbrücken, Germany
149 schema:name Max-Planck Research Group for Computational Genomics and Epidemiology, Max Planck Institute for Informatics, Saarbrücken, Germany
150 rdf:type schema:Organization
151 grid-institutes:grid.483004.b schema:alternateName Harvard Faculty of Arts and Sciences Center for Systems Biology, Cambridge, Massacusetts, USA
152 schema:name Harvard Faculty of Arts and Sciences Center for Systems Biology, Cambridge, Massacusetts, USA
153 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...