Mapping and quantifying mammalian transcriptomes by RNA-Seq View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2008-05-30

AUTHORS

Ali Mortazavi, Brian A Williams, Kenneth McCue, Lorian Schaeffer, Barbara Wold

ABSTRACT

The mouse transcriptome in three tissue types has been analyzed using Illumina next-generation sequencing technology. This quantitative RNA-Seq methodology has been used for expression analysis and splice isoform discovery and to confirm or extend reference gene models. Also in this issue, another paper reports application of the ABI SOLiD technology to sequence the transcriptome in mouse embryonic stem cells. More... »

PAGES

621-628

Journal

TITLE

Nature Methods

ISSUE

7

VOLUME

5

Related Patents

  • Methods And Systems For Digitally Counting Features On Arrays
  • High-Throughput Single-Cell Analysis Combining Proteomic And Genomic Information
  • Polycomb-Associated Non-Coding Rnas
  • Nucleic Acid Copy Number Determination Based On Fragment Estimates
  • Systems And Methods For Single-Molecule Detection Using Nanotubes
  • Optimal Soybean Loci
  • Polycomb-Associated Non-Coding Rnas
  • Error Correction In Amplification Of Samples
  • Spatially Encoded Biological Assays
  • Compositions And Methods For Modulating Smn Gene Family Expression
  • Spatially Encoded Biological Assays
  • Deducing Exon Connectivity By Rna-Templated Dna Ligation/Sequencing
  • Normalization Of Nucleic Acid Libraries
  • Regulatory Elements From Labyrinthulomycetes Microorganisms
  • Companion Diagnostic For Htra1 Rna Antagonists
  • Regulation Of Toxin And Antitoxin Genes For Biological Containment
  • Methods And Compositions For Inducing Hygienic Behavior In Honey Bees
  • Spatially Encoded Biological Assays
  • Digital Counting Of Individual Molecules By Stochastic Attachment Of Diverse Labels
  • Process For Producing Citramalic Acid Employing Aspergillus
  • Extracellular Aldonolactonase
  • Brassica Plants With Modified Seed Oil Composition
  • Massively Parallel Single Cell Analysis
  • Massively Parallel Continguity Mapping
  • Spatially Encoded Biological Assays
  • Maternal Plasma Transcriptome Analysis By Massively Parallel Rna Sequencing
  • Digital Counting Of Individual Molecules By Stochastic Attachment Of Diverse Labels
  • Individualized Vaccines For Cancer
  • Breast Cancer Biomarker Signatures For Invasiveness And Prognosis
  • Methods For Identifying Androgen Receptor Splice Variants In Subjects Having Castration Resistant Prostate Cancer
  • Polycomb-Associated Non-Coding Rnas
  • Polycomb-Associated Non-Coding Rnas
  • New Molecules For Isolation Of Polyribosomes, Ribosomes, Uses And Kits Thereof
  • Hydrophilic Coating Of Fluidic Channels
  • Production Of Proteins In Labyrinthulomycetes
  • Spatially Encoded Biological Assays
  • Sample Indexing For Single Cells
  • Digital Counting Of Individual Molecules By Stochastic Attachment Of Diverse Labels
  • Materials And Methods For The Treatment Of Vascular Disease
  • Expression Of Modified Glycoproteins And Glycopeptides
  • Nannochloropsis Kozak Consensus Sequence
  • Spatially Encoded Biological Assays
  • Massively Parallel Single Cell Analysis
  • Molecular Indexing Of Internal Sequences
  • Massively Parallel Single Cell Analysis
  • Promoters And Terminators For Use In Eukaryotic Cells
  • Method Of Using Non-Rare Cells To Detect Rare Cells
  • Risk Prognosis Method For Chronic Lymphocytic Leukemia
  • Regulatory Elements From Labyrinthulomycetes Microorganisms
  • Spatially Encoded Biological Assays
  • Spatially Encoded Biological Assays
  • Spatially Encoded Biological Assays
  • Measurement Of Protein Expression Using Reagents With Barcoded Oligonucleotide Sequences
  • Methods For Measuring Biomarkers In Gastrointestinal Cancer
  • Individualized Vaccines For Cancer
  • Deoxy- Cytidine Or Uridine Derivatives For Use In Cancer Therapies
  • Digital Counting Of Individual Molecules By Stochastic Attachment Of Diverse Labels
  • Onapristone Extended-Release Compositions And Methods
  • Combinations Of Lsd1 Inhibitors For Use In The Treatment Of Solid Tumors
  • Methods And Compositions For Inducing Hygienic Behavior In Honey Bees
  • Spatially Addressable Molecular Barcoding
  • Digital Counting Of Individual Molecules By Stochastic Attachment Of Diverse Labels
  • Methods And Compositions For Nucleic Acid Sequencing
  • Spatially Addressable Molecular Barcoding
  • Massively Parallel Contiguity Mapping
  • Accurate Molecular Barcoding
  • Methods For Diagnosing And Treating Refractory Celiac Disease Type 2
  • Methods Of Treatment And Diagnosis Of Tumours
  • Spatially Distinguished, Multiplex Nucleic Acid Analysis Of Biological Specimens
  • Amorphous Onapristone Compositions And Methods Of Making The Same
  • Circulating Tumor Cell Diagnostics For Prostate Cancer Biomarkers
  • Materials And Methods For The Treatment Of Vascular Disease
  • Polycomb-Associated Non-Coding Rnas
  • Extracellular Aldonolactonase
  • Risk Prognosis Method For Chronic Lymphocytic Leukemia
  • Polycomb-Associated Non-Coding Rnas
  • Alternatively Spliced Mrna Isoforms As Prognostic Indicators For Metastatic Cancer
  • Individualized Vaccines For Cancer
  • Methods For Modulating Atrx-Dependent Gene Repression
  • Brassica Plants With Modified Seed Oil Composition
  • Systems And Methods For Single-Molecule Detection Using Nanotubes
  • Sample Preparation On A Solid Support
  • Methods For Analyzing Rare Circulating Cells
  • Brassica Plants With Modified Seed Oil Composition
  • Methods For Detecting Modification Resistant Nucleic Acids
  • Rna Analytics Method
  • Maternal Plasma Transcriptome Analysis By Massively Parallel Rna Sequencing
  • Nucleic Acid Copy Number Determination Based On Fragment Estimates
  • Digital Counting Of Individual Molecules By Stochastic Attachment Of Diverse Labels
  • Methods And Systems For Determining Spatial Patterns Of Biological Targets In A Sample
  • Sample Indexing For Single Cells
  • Methods Of Making Onapristone Intermediates
  • Signature For Diagnosis Of Bacterial Vs Viral Infections
  • Assessment Of The Risk Of Complication In A Patient Suspected Of Having An Infection, Having A Sofa Score Lower Than Two
  • Colorectal Cancer Markers
  • Colorectal Cancer Markers
  • Individualized Vaccines For Cancer
  • Method For Subtyping Lymphoma Types By Means Of Expression Profiling
  • Rna Interactome Of Polycomb Repressive Complex 1 (Prc1)
  • Methods For Detecting Modification Resistant Nucleic Acids
  • Methods And Compositions For Library Normalization
  • Site-Specific Integration
  • Tetraselmis Promoters And Terminators For Use In Eukaryotic Cells
  • Preserving Genomic Connectivity Information In Fragmented Genomic Dna Samples
  • Polycomb-Associated Non-Coding Rnas
  • Polycomb-Associated Non-Coding Rnas
  • Methods For Detecting Modification Resistant Nucleic Acids
  • Alternatively Spliced Mrna Isoforms As Prognostic Indicators For Metastatic Cancer
  • Identification Of Immunogenic Mutant Peptides Using Genomic, Transcriptomic And Proteomic Information
  • Molecular Subtyping, Prognosis And Treatment Of Prostate Cancer
  • Stable Genes In Comparative Transcriptomics
  • Massively Parallel Single Cell Analysis
  • Massively Parallel Single Cell Analysis
  • Sample Preparation On A Solid Support
  • Massively Parallel Single Cell Analysis
  • Compositions And Methods For Modulating Mecp2 Expression
  • Stable Genes In Comparative Transcriptomics
  • Regulatory Sequence Of Cupin Family Gene
  • Digital Counting Of Individual Molecules By Stochastic Attachment Of Diverse Labels
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nmeth.1226

    DOI

    http://dx.doi.org/10.1038/nmeth.1226

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1045381177

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/18516045


    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/2008/0604", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Genetics", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/1004", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Medical Biotechnology", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "3' Untranslated Regions", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Algorithms", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Alternative Splicing", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Animals", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Brain", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Chromosome Mapping", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Databases, Nucleic Acid", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Exons", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Expression Profiling", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Liver", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Mice", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Mice, Inbred C57BL", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Muscle, Skeletal", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Oligonucleotide Array Sequence Analysis", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Promoter Regions, Genetic", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "RNA", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "RNA Splicing", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "RNA, Messenger", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Sensitivity and Specificity", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Sequence Analysis, RNA", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Software", 
            "type": "DefinedTerm"
          }
        ], 
        "author": [
          {
            "affiliation": {
              "alternateName": "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA", 
              "id": "http://www.grid.ac/institutes/grid.20861.3d", 
              "name": [
                "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Mortazavi", 
            "givenName": "Ali", 
            "id": "sg:person.0673025131.06", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0673025131.06"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA", 
              "id": "http://www.grid.ac/institutes/grid.20861.3d", 
              "name": [
                "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Williams", 
            "givenName": "Brian A", 
            "id": "sg:person.0741140331.06", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0741140331.06"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA", 
              "id": "http://www.grid.ac/institutes/grid.20861.3d", 
              "name": [
                "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "McCue", 
            "givenName": "Kenneth", 
            "id": "sg:person.07460726307.17", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07460726307.17"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA", 
              "id": "http://www.grid.ac/institutes/grid.20861.3d", 
              "name": [
                "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Schaeffer", 
            "givenName": "Lorian", 
            "id": "sg:person.01055366731.33", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01055366731.33"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA", 
              "id": "http://www.grid.ac/institutes/grid.20861.3d", 
              "name": [
                "Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Wold", 
            "givenName": "Barbara", 
            "id": "sg:person.01026162263.73", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01026162263.73"
            ], 
            "type": "Person"
          }
        ], 
        "citation": [
          {
            "id": "sg:pub.10.1186/gb-2004-5-7-231", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1045727951", 
              "https://doi.org/10.1186/gb-2004-5-7-231"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2105-8-461", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044855683", 
              "https://doi.org/10.1186/1471-2105-8-461"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nbt0906-1071", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037582905", 
              "https://doi.org/10.1038/nbt0906-1071"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/gb-2007-8-5-r82", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1041442033", 
              "https://doi.org/10.1186/gb-2007-8-5-r82"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrg2083", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1025632491", 
              "https://doi.org/10.1038/nrg2083"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nmeth768", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1006027429", 
              "https://doi.org/10.1038/nmeth768"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2105-7-276", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1031404240", 
              "https://doi.org/10.1186/1471-2105-7-276"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/76469", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1028559169", 
              "https://doi.org/10.1038/76469"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature07002", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044718936", 
              "https://doi.org/10.1038/nature07002"
            ], 
            "type": "CreativeWork"
          }
        ], 
        "datePublished": "2008-05-30", 
        "datePublishedReg": "2008-05-30", 
        "description": "The mouse transcriptome in three tissue types has been analyzed using Illumina next-generation sequencing technology. This quantitative RNA-Seq methodology has been used for expression analysis and splice isoform discovery and to confirm or extend reference gene models. Also in this issue, another paper reports application of the ABI SOLiD technology to sequence the transcriptome in mouse embryonic stem cells.", 
        "genre": "article", 
        "id": "sg:pub.10.1038/nmeth.1226", 
        "inLanguage": "en", 
        "isAccessibleForFree": false, 
        "isFundedItemOf": [
          {
            "id": "sg:grant.2699343", 
            "type": "MonetaryGrant"
          }
        ], 
        "isPartOf": [
          {
            "id": "sg:journal.1033763", 
            "issn": [
              "1548-7091", 
              "1548-7105"
            ], 
            "name": "Nature Methods", 
            "publisher": "Springer Nature", 
            "type": "Periodical"
          }, 
          {
            "issueNumber": "7", 
            "type": "PublicationIssue"
          }, 
          {
            "type": "PublicationVolume", 
            "volumeNumber": "5"
          }
        ], 
        "keywords": [
          "Illumina next-generation sequencing technology", 
          "mouse embryonic stem cells", 
          "RNA-seq methodology", 
          "next-generation sequencing technologies", 
          "embryonic stem cells", 
          "mammalian transcriptome", 
          "gene models", 
          "mouse transcriptome", 
          "RNA-seq", 
          "sequencing technologies", 
          "expression analysis", 
          "transcriptome", 
          "stem cells", 
          "tissue types", 
          "solid technology", 
          "cells", 
          "discovery", 
          "splice", 
          "mapping", 
          "analysis", 
          "types", 
          "technology", 
          "model", 
          "applications", 
          "methodology", 
          "issues", 
          "paper"
        ], 
        "name": "Mapping and quantifying mammalian transcriptomes by RNA-Seq", 
        "pagination": "621-628", 
        "productId": [
          {
            "name": "dimensions_id", 
            "type": "PropertyValue", 
            "value": [
              "pub.1045381177"
            ]
          }, 
          {
            "name": "doi", 
            "type": "PropertyValue", 
            "value": [
              "10.1038/nmeth.1226"
            ]
          }, 
          {
            "name": "pubmed_id", 
            "type": "PropertyValue", 
            "value": [
              "18516045"
            ]
          }
        ], 
        "sameAs": [
          "https://doi.org/10.1038/nmeth.1226", 
          "https://app.dimensions.ai/details/publication/pub.1045381177"
        ], 
        "sdDataset": "articles", 
        "sdDatePublished": "2022-06-01T22:07", 
        "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
        "sdPublisher": {
          "name": "Springer Nature - SN SciGraph project", 
          "type": "Organization"
        }, 
        "sdSource": "s3://com-springernature-scigraph/baseset/20220601/entities/gbq_results/article/article_457.jsonl", 
        "type": "ScholarlyArticle", 
        "url": "https://doi.org/10.1038/nmeth.1226"
      }
    ]
     

    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/nmeth.1226'

    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/nmeth.1226'

    Turtle is a human-readable linked data format.

    curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/nmeth.1226'

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

    curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/nmeth.1226'


     

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

    247 TRIPLES      22 PREDICATES      85 URIs      66 LITERALS      28 BLANK NODES

    Subject Predicate Object
    1 sg:pub.10.1038/nmeth.1226 schema:about N04254eabb517465a9f4953f8b0e9eac1
    2 N14f923bc22e54b7ca39ccc74bce5e5b4
    3 N2dfe5400ac4e461aa7bf751d846f1426
    4 N45c7c3a7afac49de86bea8be80c83d54
    5 N63579875b10649019537a1f1d451b919
    6 N65e0a0800a81417097cd176e610aaacb
    7 N6bc0e98cd2b24a32acdb50abae87d9ff
    8 N6d918e9194024ada963a65f7fc36a6cf
    9 N7bc88de8c8ca491082e2faacd63cc859
    10 N8d01ea5fc43f448796aadeb12703af02
    11 Nb408674fba5e4e7086dfbd2321acff64
    12 Nbf967c901ff8488eb3a1fa294901ff92
    13 Nc7a25f5c6fc04d7bb1bc10570a4288dd
    14 Nc9c1bcb1bb60407a8802d6e4e9e57ac3
    15 Nd1b82da59d5b401bb8e27bc3f696d87c
    16 Nd7bd263a509348cf9ed0e212dd709986
    17 Nec691782e7584cf9a38174d22d8e101f
    18 Nf54ea63cc990433fa1f2870b869fa5dc
    19 Nf5a5832f395d44748ff737ac54391d98
    20 Nf63d250937e343e1a4ab993d49540365
    21 Nfaf5e427ec944868bb9bb1acd3f14cf2
    22 anzsrc-for:06
    23 anzsrc-for:0604
    24 anzsrc-for:10
    25 anzsrc-for:1004
    26 schema:author Na16a9df5b3ef46bf91a4d1b13f6879d1
    27 schema:citation sg:pub.10.1038/76469
    28 sg:pub.10.1038/nature07002
    29 sg:pub.10.1038/nbt0906-1071
    30 sg:pub.10.1038/nmeth768
    31 sg:pub.10.1038/nrg2083
    32 sg:pub.10.1186/1471-2105-7-276
    33 sg:pub.10.1186/1471-2105-8-461
    34 sg:pub.10.1186/gb-2004-5-7-231
    35 sg:pub.10.1186/gb-2007-8-5-r82
    36 schema:datePublished 2008-05-30
    37 schema:datePublishedReg 2008-05-30
    38 schema:description The mouse transcriptome in three tissue types has been analyzed using Illumina next-generation sequencing technology. This quantitative RNA-Seq methodology has been used for expression analysis and splice isoform discovery and to confirm or extend reference gene models. Also in this issue, another paper reports application of the ABI SOLiD technology to sequence the transcriptome in mouse embryonic stem cells.
    39 schema:genre article
    40 schema:inLanguage en
    41 schema:isAccessibleForFree false
    42 schema:isPartOf N137f3209c3e44fa98193ce209dd90e8a
    43 N5e41aef3b5c342fcb7caa18b0d2a5fad
    44 sg:journal.1033763
    45 schema:keywords Illumina next-generation sequencing technology
    46 RNA-seq
    47 RNA-seq methodology
    48 analysis
    49 applications
    50 cells
    51 discovery
    52 embryonic stem cells
    53 expression analysis
    54 gene models
    55 issues
    56 mammalian transcriptome
    57 mapping
    58 methodology
    59 model
    60 mouse embryonic stem cells
    61 mouse transcriptome
    62 next-generation sequencing technologies
    63 paper
    64 sequencing technologies
    65 solid technology
    66 splice
    67 stem cells
    68 technology
    69 tissue types
    70 transcriptome
    71 types
    72 schema:name Mapping and quantifying mammalian transcriptomes by RNA-Seq
    73 schema:pagination 621-628
    74 schema:productId N043db40aa40d41958d2524d454ef5f90
    75 N3b0c8650fd534197a941b9f4099749c5
    76 N3ed0d96129ca4cd2bcb1b943c6d4b836
    77 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045381177
    78 https://doi.org/10.1038/nmeth.1226
    79 schema:sdDatePublished 2022-06-01T22:07
    80 schema:sdLicense https://scigraph.springernature.com/explorer/license/
    81 schema:sdPublisher N1640361344f34549a56f33367031f09a
    82 schema:url https://doi.org/10.1038/nmeth.1226
    83 sgo:license sg:explorer/license/
    84 sgo:sdDataset articles
    85 rdf:type schema:ScholarlyArticle
    86 N04254eabb517465a9f4953f8b0e9eac1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    87 schema:name Chromosome Mapping
    88 rdf:type schema:DefinedTerm
    89 N043db40aa40d41958d2524d454ef5f90 schema:name doi
    90 schema:value 10.1038/nmeth.1226
    91 rdf:type schema:PropertyValue
    92 N137f3209c3e44fa98193ce209dd90e8a schema:volumeNumber 5
    93 rdf:type schema:PublicationVolume
    94 N14f923bc22e54b7ca39ccc74bce5e5b4 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    95 schema:name Mice, Inbred C57BL
    96 rdf:type schema:DefinedTerm
    97 N15579b8a5a904c4d9f670e46829998ae rdf:first sg:person.01026162263.73
    98 rdf:rest rdf:nil
    99 N1640361344f34549a56f33367031f09a schema:name Springer Nature - SN SciGraph project
    100 rdf:type schema:Organization
    101 N2dfe5400ac4e461aa7bf751d846f1426 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    102 schema:name Algorithms
    103 rdf:type schema:DefinedTerm
    104 N3b0c8650fd534197a941b9f4099749c5 schema:name pubmed_id
    105 schema:value 18516045
    106 rdf:type schema:PropertyValue
    107 N3ed0d96129ca4cd2bcb1b943c6d4b836 schema:name dimensions_id
    108 schema:value pub.1045381177
    109 rdf:type schema:PropertyValue
    110 N4430502ea272496cbbe3abaf606e0251 rdf:first sg:person.0741140331.06
    111 rdf:rest Nf0ab731e204b4d1fabe26ecadd0d2403
    112 N45c7c3a7afac49de86bea8be80c83d54 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    113 schema:name Muscle, Skeletal
    114 rdf:type schema:DefinedTerm
    115 N5e41aef3b5c342fcb7caa18b0d2a5fad schema:issueNumber 7
    116 rdf:type schema:PublicationIssue
    117 N63579875b10649019537a1f1d451b919 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    118 schema:name Oligonucleotide Array Sequence Analysis
    119 rdf:type schema:DefinedTerm
    120 N65e0a0800a81417097cd176e610aaacb schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    121 schema:name Brain
    122 rdf:type schema:DefinedTerm
    123 N6bc0e98cd2b24a32acdb50abae87d9ff schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    124 schema:name RNA Splicing
    125 rdf:type schema:DefinedTerm
    126 N6d918e9194024ada963a65f7fc36a6cf schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    127 schema:name Software
    128 rdf:type schema:DefinedTerm
    129 N7bc88de8c8ca491082e2faacd63cc859 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    130 schema:name Exons
    131 rdf:type schema:DefinedTerm
    132 N8d01ea5fc43f448796aadeb12703af02 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    133 schema:name Gene Expression Profiling
    134 rdf:type schema:DefinedTerm
    135 Na16a9df5b3ef46bf91a4d1b13f6879d1 rdf:first sg:person.0673025131.06
    136 rdf:rest N4430502ea272496cbbe3abaf606e0251
    137 Na683e63a76414a94ba2fec67874a5549 rdf:first sg:person.01055366731.33
    138 rdf:rest N15579b8a5a904c4d9f670e46829998ae
    139 Nb408674fba5e4e7086dfbd2321acff64 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    140 schema:name RNA
    141 rdf:type schema:DefinedTerm
    142 Nbf967c901ff8488eb3a1fa294901ff92 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    143 schema:name RNA, Messenger
    144 rdf:type schema:DefinedTerm
    145 Nc7a25f5c6fc04d7bb1bc10570a4288dd schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    146 schema:name Sequence Analysis, RNA
    147 rdf:type schema:DefinedTerm
    148 Nc9c1bcb1bb60407a8802d6e4e9e57ac3 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    149 schema:name Promoter Regions, Genetic
    150 rdf:type schema:DefinedTerm
    151 Nd1b82da59d5b401bb8e27bc3f696d87c schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    152 schema:name Mice
    153 rdf:type schema:DefinedTerm
    154 Nd7bd263a509348cf9ed0e212dd709986 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    155 schema:name Liver
    156 rdf:type schema:DefinedTerm
    157 Nec691782e7584cf9a38174d22d8e101f schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    158 schema:name Databases, Nucleic Acid
    159 rdf:type schema:DefinedTerm
    160 Nf0ab731e204b4d1fabe26ecadd0d2403 rdf:first sg:person.07460726307.17
    161 rdf:rest Na683e63a76414a94ba2fec67874a5549
    162 Nf54ea63cc990433fa1f2870b869fa5dc schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    163 schema:name Alternative Splicing
    164 rdf:type schema:DefinedTerm
    165 Nf5a5832f395d44748ff737ac54391d98 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    166 schema:name Animals
    167 rdf:type schema:DefinedTerm
    168 Nf63d250937e343e1a4ab993d49540365 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    169 schema:name Sensitivity and Specificity
    170 rdf:type schema:DefinedTerm
    171 Nfaf5e427ec944868bb9bb1acd3f14cf2 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    172 schema:name 3' Untranslated Regions
    173 rdf:type schema:DefinedTerm
    174 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
    175 schema:name Biological Sciences
    176 rdf:type schema:DefinedTerm
    177 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
    178 schema:name Genetics
    179 rdf:type schema:DefinedTerm
    180 anzsrc-for:10 schema:inDefinedTermSet anzsrc-for:
    181 schema:name Technology
    182 rdf:type schema:DefinedTerm
    183 anzsrc-for:1004 schema:inDefinedTermSet anzsrc-for:
    184 schema:name Medical Biotechnology
    185 rdf:type schema:DefinedTerm
    186 sg:grant.2699343 http://pending.schema.org/fundedItem sg:pub.10.1038/nmeth.1226
    187 rdf:type schema:MonetaryGrant
    188 sg:journal.1033763 schema:issn 1548-7091
    189 1548-7105
    190 schema:name Nature Methods
    191 schema:publisher Springer Nature
    192 rdf:type schema:Periodical
    193 sg:person.01026162263.73 schema:affiliation grid-institutes:grid.20861.3d
    194 schema:familyName Wold
    195 schema:givenName Barbara
    196 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01026162263.73
    197 rdf:type schema:Person
    198 sg:person.01055366731.33 schema:affiliation grid-institutes:grid.20861.3d
    199 schema:familyName Schaeffer
    200 schema:givenName Lorian
    201 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01055366731.33
    202 rdf:type schema:Person
    203 sg:person.0673025131.06 schema:affiliation grid-institutes:grid.20861.3d
    204 schema:familyName Mortazavi
    205 schema:givenName Ali
    206 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0673025131.06
    207 rdf:type schema:Person
    208 sg:person.0741140331.06 schema:affiliation grid-institutes:grid.20861.3d
    209 schema:familyName Williams
    210 schema:givenName Brian A
    211 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0741140331.06
    212 rdf:type schema:Person
    213 sg:person.07460726307.17 schema:affiliation grid-institutes:grid.20861.3d
    214 schema:familyName McCue
    215 schema:givenName Kenneth
    216 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07460726307.17
    217 rdf:type schema:Person
    218 sg:pub.10.1038/76469 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028559169
    219 https://doi.org/10.1038/76469
    220 rdf:type schema:CreativeWork
    221 sg:pub.10.1038/nature07002 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044718936
    222 https://doi.org/10.1038/nature07002
    223 rdf:type schema:CreativeWork
    224 sg:pub.10.1038/nbt0906-1071 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037582905
    225 https://doi.org/10.1038/nbt0906-1071
    226 rdf:type schema:CreativeWork
    227 sg:pub.10.1038/nmeth768 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006027429
    228 https://doi.org/10.1038/nmeth768
    229 rdf:type schema:CreativeWork
    230 sg:pub.10.1038/nrg2083 schema:sameAs https://app.dimensions.ai/details/publication/pub.1025632491
    231 https://doi.org/10.1038/nrg2083
    232 rdf:type schema:CreativeWork
    233 sg:pub.10.1186/1471-2105-7-276 schema:sameAs https://app.dimensions.ai/details/publication/pub.1031404240
    234 https://doi.org/10.1186/1471-2105-7-276
    235 rdf:type schema:CreativeWork
    236 sg:pub.10.1186/1471-2105-8-461 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044855683
    237 https://doi.org/10.1186/1471-2105-8-461
    238 rdf:type schema:CreativeWork
    239 sg:pub.10.1186/gb-2004-5-7-231 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045727951
    240 https://doi.org/10.1186/gb-2004-5-7-231
    241 rdf:type schema:CreativeWork
    242 sg:pub.10.1186/gb-2007-8-5-r82 schema:sameAs https://app.dimensions.ai/details/publication/pub.1041442033
    243 https://doi.org/10.1186/gb-2007-8-5-r82
    244 rdf:type schema:CreativeWork
    245 grid-institutes:grid.20861.3d schema:alternateName Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA
    246 schema:name Division of Biology, MC 156-29, California Institute of Technology, 91125, Pasadena, California, USA
    247 rdf:type schema:Organization
     




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


    ...