Gene expression profiling of RIP2-knockdown in HD11 macrophages — elucidation of potential pathways (gene network) when challenged with avian pathogenic ... View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2022-05-02

AUTHORS

Hongyan Sun, Yexin Yang, Yuxuan Cao, Huan Li, Lujiang Qu, Susan J. Lamont

ABSTRACT

BackgroundReceptor interacting serine/threonine kinase 2 (RIP2), ubiquitous in many tissue/cell types, is the key regulator of immune and inflammatory responses for many diseases, including avian pathogenic E. coli (APEC), which causes a wide variety of localized or systemic infections. However, the molecular mechanisms by which RIP2 drives its transcriptional program to affect immune and inflammatory response upon APEC infection remains poorly understood.ResultsIn this study, RNA-seq and bioinformatics analyses were used to detect gene expression and new direct/indirect RIP2 targets in the treatments of wild type HD11 cells (WT), RIP2 knockdown cells (shRIP2), APEC stimulation cells (APEC), and RIP2 knockdown cells combined with APEC infection (shRIP2 + APEC). The results revealed that a total of 4691 and 2605 differentially expressed genes (DEGs) were screened in shRIP2 + APEC vs. APEC and shRIP2 vs. WT, respectively. Functional annotation analysis showed that apoptosis, MAPK, p53, Toll-like receptor, and Nod-like receptor signaling pathways were involved in APEC-induced RIP2 knockdown HD11 cells. By analyzing the enriched pathway and gene networks, we identified that several DEGs, including HSP90AB1, BID, and CASP9 were targeted by RIP2 upon APEC infection.ConclusionAs a whole, this study can not only provide data support for constructing gene networks of RIP2 knockdown with APEC challenge but also provide new ideas for improving the immune and inflammatory response. More... »

PAGES

341

References to SciGraph publications

  • 2015-05-11. MDM4/HIPK2/p53 cytoplasmic assembly uncovers coordinated repression of molecules with anti-apoptotic activity during early DNA damage response in ONCOGENE
  • 2008-12-18. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources in NATURE PROTOCOLS
  • 1999-11-24. Mechanisms mediating caspase activation in cell death in CELL DEATH & DIFFERENTIATION
  • 2015-03-17. A RIPK2 inhibitor delays NOD signalling events yet prevents inflammatory cytokine production in NATURE COMMUNICATIONS
  • 2002-03. Involvement of receptor-interacting protein 2 in innate and adaptive immune responses in NATURE
  • 2004-12-23. Full-length cDNAs from chicken bursal lymphocytes to facilitate gene function analysis in GENOME BIOLOGY
  • 2014-08-22. RIP kinases: key decision makers in cell death and innate immunity in CELL DEATH & DIFFERENTIATION
  • 2013-06-21. The association of SNPs in Hsp90β gene 5′ flanking region with thermo tolerance traits and tissue mRNA expression in two chicken breeds in MOLECULAR BIOLOGY REPORTS
  • 2015-01-02. Uncovering the novel characteristics of Asian honey bee, Apis cerana, by whole genome sequencing in BMC GENOMICS
  • 2008-12. BCL-2 family antagonists for cancer therapy in NATURE REVIEWS DRUG DISCOVERY
  • 2012-11-01. Senescence Regulation by the p53 Protein Family in CELL SENESCENCE
  • 2018-01-09. Structural absorption by barbule microstructures of super black bird of paradise feathers in NATURE COMMUNICATIONS
  • 2008-10-27. Bcl-2 family proteins and cancer in ONCOGENE
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1186/s12864-022-08595-5

    DOI

    http://dx.doi.org/10.1186/s12864-022-08595-5

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1147539742

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/35501708


    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/2008/11", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Medical and Health Sciences", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0601", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Biochemistry and Cell Biology", 
            "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/2008/1107", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Immunology", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Animals", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Chickens", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Escherichia coli", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Expression Profiling", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Regulatory Networks", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Macrophages", 
            "type": "DefinedTerm"
          }
        ], 
        "author": [
          {
            "affiliation": {
              "alternateName": "Joint International Research Laboratory of Agriculture & Agri-Product Safety, Ministry of Education, Yangzhou University, 225009, Yangzhou, China", 
              "id": "http://www.grid.ac/institutes/grid.268415.c", 
              "name": [
                "College of Animal Science and Technology, Yangzhou University, 225009, Yangzhou, China", 
                "Joint International Research Laboratory of Agriculture & Agri-Product Safety, Ministry of Education, Yangzhou University, 225009, Yangzhou, China"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Sun", 
            "givenName": "Hongyan", 
            "id": "sg:person.0774272326.99", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0774272326.99"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "College of Animal Science and Technology, Yangzhou University, 225009, Yangzhou, China", 
              "id": "http://www.grid.ac/institutes/grid.268415.c", 
              "name": [
                "College of Animal Science and Technology, Yangzhou University, 225009, Yangzhou, China"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Yang", 
            "givenName": "Yexin", 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "College of Animal Science and Technology, Yangzhou University, 225009, Yangzhou, China", 
              "id": "http://www.grid.ac/institutes/grid.268415.c", 
              "name": [
                "College of Animal Science and Technology, Yangzhou University, 225009, Yangzhou, China"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Cao", 
            "givenName": "Yuxuan", 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "School of Biological and Chemical Engineering, Yangzhou Polytechnic College, 225009, Yangzhou, China", 
              "id": "http://www.grid.ac/institutes/grid.495274.9", 
              "name": [
                "School of Biological and Chemical Engineering, Yangzhou Polytechnic College, 225009, Yangzhou, China"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Li", 
            "givenName": "Huan", 
            "id": "sg:person.013305171757.92", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013305171757.92"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "College of Animal Science and Technology, China Agricultural University, 100091, Beijing, China", 
              "id": "http://www.grid.ac/institutes/grid.22935.3f", 
              "name": [
                "College of Animal Science and Technology, China Agricultural University, 100091, Beijing, China"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Qu", 
            "givenName": "Lujiang", 
            "id": "sg:person.01356475732.11", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01356475732.11"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Department of Animal Science, Iowa State University, 50011, Ames, Iowa, USA", 
              "id": "http://www.grid.ac/institutes/grid.34421.30", 
              "name": [
                "Department of Animal Science, Iowa State University, 50011, Ames, Iowa, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Lamont", 
            "givenName": "Susan J.", 
            "id": "sg:person.0607026424.04", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0607026424.04"
            ], 
            "type": "Person"
          }
        ], 
        "citation": [
          {
            "id": "sg:pub.10.1038/onc.2008.307", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1008538232", 
              "https://doi.org/10.1038/onc.2008.307"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41467-017-02088-w", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1100092794", 
              "https://doi.org/10.1038/s41467-017-02088-w"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nrd2658", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1030857223", 
              "https://doi.org/10.1038/nrd2658"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/416190a", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1025227643", 
              "https://doi.org/10.1038/416190a"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nprot.2008.211", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1039987283", 
              "https://doi.org/10.1038/nprot.2008.211"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/ncomms7442", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1016434672", 
              "https://doi.org/10.1038/ncomms7442"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/gb-2004-6-1-r6", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1038886052", 
              "https://doi.org/10.1186/gb-2004-6-1-r6"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/978-1-62703-239-1_3", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1033362956", 
              "https://doi.org/10.1007/978-1-62703-239-1_3"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/onc.2015.76", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1038375593", 
              "https://doi.org/10.1038/onc.2015.76"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/cdd.2014.126", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1000198075", 
              "https://doi.org/10.1038/cdd.2014.126"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2164-16-1", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1010608153", 
              "https://doi.org/10.1186/1471-2164-16-1"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/sj.cdd.4400600", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1000574949", 
              "https://doi.org/10.1038/sj.cdd.4400600"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/s11033-013-2630-3", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1018908528", 
              "https://doi.org/10.1007/s11033-013-2630-3"
            ], 
            "type": "CreativeWork"
          }
        ], 
        "datePublished": "2022-05-02", 
        "datePublishedReg": "2022-05-02", 
        "description": "BackgroundReceptor interacting serine/threonine kinase 2 (RIP2), ubiquitous in many tissue/cell types, is the key regulator of immune and inflammatory responses for many diseases, including avian pathogenic E. coli (APEC), which causes a wide variety of localized or systemic infections. However, the molecular mechanisms by which RIP2 drives its transcriptional program to affect immune and inflammatory response upon APEC infection remains poorly understood.ResultsIn this study, RNA-seq and bioinformatics analyses were used to detect gene expression and new direct/indirect RIP2 targets in the treatments of wild type HD11 cells (WT), RIP2 knockdown cells (shRIP2), APEC stimulation cells (APEC), and RIP2 knockdown cells combined with APEC infection (shRIP2\u2009+\u2009APEC). The results revealed that a total of 4691 and 2605 differentially expressed genes (DEGs) were screened in shRIP2\u2009+\u2009APEC vs. APEC and shRIP2 vs. WT, respectively. Functional annotation analysis showed that apoptosis, MAPK, p53, Toll-like receptor, and Nod-like receptor signaling pathways were involved in APEC-induced RIP2 knockdown HD11 cells. By analyzing the enriched pathway and gene networks, we identified that several DEGs, including HSP90AB1, BID, and CASP9 were targeted by RIP2 upon APEC infection.ConclusionAs a whole, this study can not only provide data support for constructing gene networks of RIP2 knockdown with APEC challenge but also provide new ideas for improving the immune and inflammatory response.", 
        "genre": "article", 
        "id": "sg:pub.10.1186/s12864-022-08595-5", 
        "inLanguage": "en", 
        "isAccessibleForFree": true, 
        "isFundedItemOf": [
          {
            "id": "sg:grant.8908865", 
            "type": "MonetaryGrant"
          }
        ], 
        "isPartOf": [
          {
            "id": "sg:journal.1023790", 
            "issn": [
              "1471-2164"
            ], 
            "name": "BMC Genomics", 
            "publisher": "Springer Nature", 
            "type": "Periodical"
          }, 
          {
            "issueNumber": "1", 
            "type": "PublicationIssue"
          }, 
          {
            "type": "PublicationVolume", 
            "volumeNumber": "23"
          }
        ], 
        "keywords": [
          "avian pathogenic E. coli", 
          "gene networks", 
          "APEC infection", 
          "knockdown cells", 
          "tissue/cell types", 
          "serine/threonine kinase 2", 
          "HD11 cells", 
          "functional annotation analysis", 
          "gene expression profiling", 
          "inflammatory response", 
          "transcriptional programs", 
          "annotation analysis", 
          "NOD-like receptors", 
          "RNA-seq", 
          "enriched pathways", 
          "bioinformatics analysis", 
          "expression profiling", 
          "key regulator", 
          "gene expression", 
          "RIP2 knockdown", 
          "kinase 2", 
          "molecular mechanisms", 
          "cell types", 
          "pathogenic E. coli", 
          "E. coli", 
          "Toll-like receptors", 
          "pathway", 
          "RIP2", 
          "APEC challenge", 
          "cells", 
          "systemic infection", 
          "infection", 
          "potential pathways", 
          "receptors", 
          "genes", 
          "knockdown", 
          "MAPK", 
          "regulator", 
          "HSP90AB1", 
          "CASP9", 
          "HD11", 
          "coli", 
          "apoptosis", 
          "stimulation cells", 
          "profiling", 
          "wide variety", 
          "p53", 
          "deg", 
          "expression", 
          "response", 
          "data support", 
          "BackgroundReceptor", 
          "disease", 
          "ResultsIn", 
          "target", 
          "ConclusionAs", 
          "treatment", 
          "total", 
          "mechanism", 
          "study", 
          "vs.", 
          "analysis", 
          "variety", 
          "types", 
          "program", 
          "network", 
          "support", 
          "bid", 
          "results", 
          "challenges", 
          "whole", 
          "new ideas", 
          "idea"
        ], 
        "name": "Gene expression profiling of RIP2-knockdown in HD11 macrophages \u2014 elucidation of potential pathways (gene network) when challenged with avian pathogenic E.coli (APEC)", 
        "pagination": "341", 
        "productId": [
          {
            "name": "dimensions_id", 
            "type": "PropertyValue", 
            "value": [
              "pub.1147539742"
            ]
          }, 
          {
            "name": "doi", 
            "type": "PropertyValue", 
            "value": [
              "10.1186/s12864-022-08595-5"
            ]
          }, 
          {
            "name": "pubmed_id", 
            "type": "PropertyValue", 
            "value": [
              "35501708"
            ]
          }
        ], 
        "sameAs": [
          "https://doi.org/10.1186/s12864-022-08595-5", 
          "https://app.dimensions.ai/details/publication/pub.1147539742"
        ], 
        "sdDataset": "articles", 
        "sdDatePublished": "2022-06-01T22:25", 
        "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_926.jsonl", 
        "type": "ScholarlyArticle", 
        "url": "https://doi.org/10.1186/s12864-022-08595-5"
      }
    ]
     

    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.10.1186/s12864-022-08595-5'

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

    curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1186/s12864-022-08595-5'

    Turtle is a human-readable linked data format.

    curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1186/s12864-022-08595-5'

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

    curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1186/s12864-022-08595-5'


     

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

    268 TRIPLES      22 PREDICATES      121 URIs      97 LITERALS      13 BLANK NODES

    Subject Predicate Object
    1 sg:pub.10.1186/s12864-022-08595-5 schema:about N04927f3fba4f4b658f12622549cae3b8
    2 N0e61f3120385409cbab3609b18079518
    3 N16ca1c981ed84b5aabb7ecea1db11bbb
    4 N1ae0335133c5499b83624102942cee83
    5 Na415c62adab14759b70de426b40a27fb
    6 Nb67b5f3a14b54227b504680ea1500452
    7 anzsrc-for:06
    8 anzsrc-for:0601
    9 anzsrc-for:0604
    10 anzsrc-for:11
    11 anzsrc-for:1107
    12 schema:author N07f0fbd593584f9a89aaedd8e2da3d97
    13 schema:citation sg:pub.10.1007/978-1-62703-239-1_3
    14 sg:pub.10.1007/s11033-013-2630-3
    15 sg:pub.10.1038/416190a
    16 sg:pub.10.1038/cdd.2014.126
    17 sg:pub.10.1038/ncomms7442
    18 sg:pub.10.1038/nprot.2008.211
    19 sg:pub.10.1038/nrd2658
    20 sg:pub.10.1038/onc.2008.307
    21 sg:pub.10.1038/onc.2015.76
    22 sg:pub.10.1038/s41467-017-02088-w
    23 sg:pub.10.1038/sj.cdd.4400600
    24 sg:pub.10.1186/1471-2164-16-1
    25 sg:pub.10.1186/gb-2004-6-1-r6
    26 schema:datePublished 2022-05-02
    27 schema:datePublishedReg 2022-05-02
    28 schema:description BackgroundReceptor interacting serine/threonine kinase 2 (RIP2), ubiquitous in many tissue/cell types, is the key regulator of immune and inflammatory responses for many diseases, including avian pathogenic E. coli (APEC), which causes a wide variety of localized or systemic infections. However, the molecular mechanisms by which RIP2 drives its transcriptional program to affect immune and inflammatory response upon APEC infection remains poorly understood.ResultsIn this study, RNA-seq and bioinformatics analyses were used to detect gene expression and new direct/indirect RIP2 targets in the treatments of wild type HD11 cells (WT), RIP2 knockdown cells (shRIP2), APEC stimulation cells (APEC), and RIP2 knockdown cells combined with APEC infection (shRIP2 + APEC). The results revealed that a total of 4691 and 2605 differentially expressed genes (DEGs) were screened in shRIP2 + APEC vs. APEC and shRIP2 vs. WT, respectively. Functional annotation analysis showed that apoptosis, MAPK, p53, Toll-like receptor, and Nod-like receptor signaling pathways were involved in APEC-induced RIP2 knockdown HD11 cells. By analyzing the enriched pathway and gene networks, we identified that several DEGs, including HSP90AB1, BID, and CASP9 were targeted by RIP2 upon APEC infection.ConclusionAs a whole, this study can not only provide data support for constructing gene networks of RIP2 knockdown with APEC challenge but also provide new ideas for improving the immune and inflammatory response.
    29 schema:genre article
    30 schema:inLanguage en
    31 schema:isAccessibleForFree true
    32 schema:isPartOf N0aa5eb032cad499abe6101a783b38221
    33 N4e9c85ed097d452081f3ba0197d0b85d
    34 sg:journal.1023790
    35 schema:keywords APEC challenge
    36 APEC infection
    37 BackgroundReceptor
    38 CASP9
    39 ConclusionAs
    40 E. coli
    41 HD11
    42 HD11 cells
    43 HSP90AB1
    44 MAPK
    45 NOD-like receptors
    46 RIP2
    47 RIP2 knockdown
    48 RNA-seq
    49 ResultsIn
    50 Toll-like receptors
    51 analysis
    52 annotation analysis
    53 apoptosis
    54 avian pathogenic E. coli
    55 bid
    56 bioinformatics analysis
    57 cell types
    58 cells
    59 challenges
    60 coli
    61 data support
    62 deg
    63 disease
    64 enriched pathways
    65 expression
    66 expression profiling
    67 functional annotation analysis
    68 gene expression
    69 gene expression profiling
    70 gene networks
    71 genes
    72 idea
    73 infection
    74 inflammatory response
    75 key regulator
    76 kinase 2
    77 knockdown
    78 knockdown cells
    79 mechanism
    80 molecular mechanisms
    81 network
    82 new ideas
    83 p53
    84 pathogenic E. coli
    85 pathway
    86 potential pathways
    87 profiling
    88 program
    89 receptors
    90 regulator
    91 response
    92 results
    93 serine/threonine kinase 2
    94 stimulation cells
    95 study
    96 support
    97 systemic infection
    98 target
    99 tissue/cell types
    100 total
    101 transcriptional programs
    102 treatment
    103 types
    104 variety
    105 vs.
    106 whole
    107 wide variety
    108 schema:name Gene expression profiling of RIP2-knockdown in HD11 macrophages — elucidation of potential pathways (gene network) when challenged with avian pathogenic E.coli (APEC)
    109 schema:pagination 341
    110 schema:productId N10a81c52b41a481380429d33b37038b2
    111 N4ee8382d27294739863e4b36d47dde69
    112 Nd905e4b8ae6b447e999a7755f3d78beb
    113 schema:sameAs https://app.dimensions.ai/details/publication/pub.1147539742
    114 https://doi.org/10.1186/s12864-022-08595-5
    115 schema:sdDatePublished 2022-06-01T22:25
    116 schema:sdLicense https://scigraph.springernature.com/explorer/license/
    117 schema:sdPublisher N43b86928e865405784e188643b8b1be3
    118 schema:url https://doi.org/10.1186/s12864-022-08595-5
    119 sgo:license sg:explorer/license/
    120 sgo:sdDataset articles
    121 rdf:type schema:ScholarlyArticle
    122 N04927f3fba4f4b658f12622549cae3b8 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    123 schema:name Animals
    124 rdf:type schema:DefinedTerm
    125 N07f0fbd593584f9a89aaedd8e2da3d97 rdf:first sg:person.0774272326.99
    126 rdf:rest N13ca7b9561684a9fa5526d8d2bcf4bbd
    127 N0aa5eb032cad499abe6101a783b38221 schema:issueNumber 1
    128 rdf:type schema:PublicationIssue
    129 N0e61f3120385409cbab3609b18079518 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    130 schema:name Gene Expression Profiling
    131 rdf:type schema:DefinedTerm
    132 N10a81c52b41a481380429d33b37038b2 schema:name doi
    133 schema:value 10.1186/s12864-022-08595-5
    134 rdf:type schema:PropertyValue
    135 N13ca7b9561684a9fa5526d8d2bcf4bbd rdf:first N9ea9eb565cb946b792476342e7ac9705
    136 rdf:rest Ne4ce272ba8f74c4ab2602caeacfa0798
    137 N16ca1c981ed84b5aabb7ecea1db11bbb schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    138 schema:name Gene Regulatory Networks
    139 rdf:type schema:DefinedTerm
    140 N1ae0335133c5499b83624102942cee83 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    141 schema:name Escherichia coli
    142 rdf:type schema:DefinedTerm
    143 N371fc3cd3d2749fa931162fa086eb52a rdf:first sg:person.013305171757.92
    144 rdf:rest Nc1dfc35d91574705b1c762e31b3649c2
    145 N3a7216fd9eb54795bd381dbcf3baf163 schema:affiliation grid-institutes:grid.268415.c
    146 schema:familyName Cao
    147 schema:givenName Yuxuan
    148 rdf:type schema:Person
    149 N43b86928e865405784e188643b8b1be3 schema:name Springer Nature - SN SciGraph project
    150 rdf:type schema:Organization
    151 N4e9c85ed097d452081f3ba0197d0b85d schema:volumeNumber 23
    152 rdf:type schema:PublicationVolume
    153 N4ee8382d27294739863e4b36d47dde69 schema:name dimensions_id
    154 schema:value pub.1147539742
    155 rdf:type schema:PropertyValue
    156 N9ea9eb565cb946b792476342e7ac9705 schema:affiliation grid-institutes:grid.268415.c
    157 schema:familyName Yang
    158 schema:givenName Yexin
    159 rdf:type schema:Person
    160 Na415c62adab14759b70de426b40a27fb schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    161 schema:name Chickens
    162 rdf:type schema:DefinedTerm
    163 Nb67b5f3a14b54227b504680ea1500452 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    164 schema:name Macrophages
    165 rdf:type schema:DefinedTerm
    166 Nc1dfc35d91574705b1c762e31b3649c2 rdf:first sg:person.01356475732.11
    167 rdf:rest Ncafa2c9d72cb42aa847b31a79564c0e1
    168 Ncafa2c9d72cb42aa847b31a79564c0e1 rdf:first sg:person.0607026424.04
    169 rdf:rest rdf:nil
    170 Nd905e4b8ae6b447e999a7755f3d78beb schema:name pubmed_id
    171 schema:value 35501708
    172 rdf:type schema:PropertyValue
    173 Ne4ce272ba8f74c4ab2602caeacfa0798 rdf:first N3a7216fd9eb54795bd381dbcf3baf163
    174 rdf:rest N371fc3cd3d2749fa931162fa086eb52a
    175 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
    176 schema:name Biological Sciences
    177 rdf:type schema:DefinedTerm
    178 anzsrc-for:0601 schema:inDefinedTermSet anzsrc-for:
    179 schema:name Biochemistry and Cell Biology
    180 rdf:type schema:DefinedTerm
    181 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
    182 schema:name Genetics
    183 rdf:type schema:DefinedTerm
    184 anzsrc-for:11 schema:inDefinedTermSet anzsrc-for:
    185 schema:name Medical and Health Sciences
    186 rdf:type schema:DefinedTerm
    187 anzsrc-for:1107 schema:inDefinedTermSet anzsrc-for:
    188 schema:name Immunology
    189 rdf:type schema:DefinedTerm
    190 sg:grant.8908865 http://pending.schema.org/fundedItem sg:pub.10.1186/s12864-022-08595-5
    191 rdf:type schema:MonetaryGrant
    192 sg:journal.1023790 schema:issn 1471-2164
    193 schema:name BMC Genomics
    194 schema:publisher Springer Nature
    195 rdf:type schema:Periodical
    196 sg:person.013305171757.92 schema:affiliation grid-institutes:grid.495274.9
    197 schema:familyName Li
    198 schema:givenName Huan
    199 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013305171757.92
    200 rdf:type schema:Person
    201 sg:person.01356475732.11 schema:affiliation grid-institutes:grid.22935.3f
    202 schema:familyName Qu
    203 schema:givenName Lujiang
    204 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01356475732.11
    205 rdf:type schema:Person
    206 sg:person.0607026424.04 schema:affiliation grid-institutes:grid.34421.30
    207 schema:familyName Lamont
    208 schema:givenName Susan J.
    209 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0607026424.04
    210 rdf:type schema:Person
    211 sg:person.0774272326.99 schema:affiliation grid-institutes:grid.268415.c
    212 schema:familyName Sun
    213 schema:givenName Hongyan
    214 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0774272326.99
    215 rdf:type schema:Person
    216 sg:pub.10.1007/978-1-62703-239-1_3 schema:sameAs https://app.dimensions.ai/details/publication/pub.1033362956
    217 https://doi.org/10.1007/978-1-62703-239-1_3
    218 rdf:type schema:CreativeWork
    219 sg:pub.10.1007/s11033-013-2630-3 schema:sameAs https://app.dimensions.ai/details/publication/pub.1018908528
    220 https://doi.org/10.1007/s11033-013-2630-3
    221 rdf:type schema:CreativeWork
    222 sg:pub.10.1038/416190a schema:sameAs https://app.dimensions.ai/details/publication/pub.1025227643
    223 https://doi.org/10.1038/416190a
    224 rdf:type schema:CreativeWork
    225 sg:pub.10.1038/cdd.2014.126 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000198075
    226 https://doi.org/10.1038/cdd.2014.126
    227 rdf:type schema:CreativeWork
    228 sg:pub.10.1038/ncomms7442 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016434672
    229 https://doi.org/10.1038/ncomms7442
    230 rdf:type schema:CreativeWork
    231 sg:pub.10.1038/nprot.2008.211 schema:sameAs https://app.dimensions.ai/details/publication/pub.1039987283
    232 https://doi.org/10.1038/nprot.2008.211
    233 rdf:type schema:CreativeWork
    234 sg:pub.10.1038/nrd2658 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030857223
    235 https://doi.org/10.1038/nrd2658
    236 rdf:type schema:CreativeWork
    237 sg:pub.10.1038/onc.2008.307 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008538232
    238 https://doi.org/10.1038/onc.2008.307
    239 rdf:type schema:CreativeWork
    240 sg:pub.10.1038/onc.2015.76 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038375593
    241 https://doi.org/10.1038/onc.2015.76
    242 rdf:type schema:CreativeWork
    243 sg:pub.10.1038/s41467-017-02088-w schema:sameAs https://app.dimensions.ai/details/publication/pub.1100092794
    244 https://doi.org/10.1038/s41467-017-02088-w
    245 rdf:type schema:CreativeWork
    246 sg:pub.10.1038/sj.cdd.4400600 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000574949
    247 https://doi.org/10.1038/sj.cdd.4400600
    248 rdf:type schema:CreativeWork
    249 sg:pub.10.1186/1471-2164-16-1 schema:sameAs https://app.dimensions.ai/details/publication/pub.1010608153
    250 https://doi.org/10.1186/1471-2164-16-1
    251 rdf:type schema:CreativeWork
    252 sg:pub.10.1186/gb-2004-6-1-r6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038886052
    253 https://doi.org/10.1186/gb-2004-6-1-r6
    254 rdf:type schema:CreativeWork
    255 grid-institutes:grid.22935.3f schema:alternateName College of Animal Science and Technology, China Agricultural University, 100091, Beijing, China
    256 schema:name College of Animal Science and Technology, China Agricultural University, 100091, Beijing, China
    257 rdf:type schema:Organization
    258 grid-institutes:grid.268415.c schema:alternateName College of Animal Science and Technology, Yangzhou University, 225009, Yangzhou, China
    259 Joint International Research Laboratory of Agriculture & Agri-Product Safety, Ministry of Education, Yangzhou University, 225009, Yangzhou, China
    260 schema:name College of Animal Science and Technology, Yangzhou University, 225009, Yangzhou, China
    261 Joint International Research Laboratory of Agriculture & Agri-Product Safety, Ministry of Education, Yangzhou University, 225009, Yangzhou, China
    262 rdf:type schema:Organization
    263 grid-institutes:grid.34421.30 schema:alternateName Department of Animal Science, Iowa State University, 50011, Ames, Iowa, USA
    264 schema:name Department of Animal Science, Iowa State University, 50011, Ames, Iowa, USA
    265 rdf:type schema:Organization
    266 grid-institutes:grid.495274.9 schema:alternateName School of Biological and Chemical Engineering, Yangzhou Polytechnic College, 225009, Yangzhou, China
    267 schema:name School of Biological and Chemical Engineering, Yangzhou Polytechnic College, 225009, Yangzhou, China
    268 rdf:type schema:Organization
     




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


    ...