Amplification and overexpression of oncogene Mdm2 and orphan receptor gene Nr1h4 in immortal PRKDC knockout cells View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2004-06

AUTHORS

Rong Ai, Ana Sandoval, David J. Chen, Sandeep Burma, Paul Labhart

ABSTRACT

DNA-dependent protein kinase (DNA-PK) is required for the repair of double strand DNA breaks by nonhomologous DNA end joining. The catalytic subunit of DNA-PK, PRKDC, may also be involved in repair-related or separate cell signaling pathways. To learn more about the cellular function of DNA-PK under normal physiological conditions, we identified genes that are differentially expressed between an immortalized wild-type mouse fibroblast cell line and its DNA-PK-deficient counterpart (Prkdc -/-). The proto-oncogene Mdm2 and the farnesoid X receptor gene Nrlh4 were overexpressed in the DNA-PK-deficient cell line. We show that in the DNA-PK-deficient cell line the genes for both Mdm2 and Nrlh4 are amplified to a degree that could account for most, if not all, of their increased expression. Other genes were strongly downregulated in the DNA-PK-deficient cell line, but this opposite expression pattern was not due to gene amplification in the wild-type cells. None of these genes was differentially expressed in DNA-PK-containing and DNA-PK-deficient primary mouse embryo fibroblasts. Our results suggest a model in which DNA-PK indirectly affects the cellular gene expression profile through its caretaker role and by preventing gene amplification. More... »

PAGES

91-96

Identifiers

URI

http://scigraph.springernature.com/pub.10.1023/b:mole.0000031358.71141.78

DOI

http://dx.doi.org/10.1023/b:mole.0000031358.71141.78

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1020706212

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/15293784


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/2008/0604", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Genetics", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Animals", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Cell Line", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA-Activated Protein Kinase", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "DNA-Binding Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Fibroblasts", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Gene Amplification", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Mice", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Mice, Knockout", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Nuclear Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Protein-Serine-Threonine Kinases", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Proto-Oncogene Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Proto-Oncogene Proteins c-mdm2", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Receptors, Cytoplasmic and Nuclear", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Recombination, Genetic", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Sequence Deletion", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Transcription Factors", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Up-Regulation", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Torrey Pines Institute For Molecular Studies", 
          "id": "https://www.grid.ac/institutes/grid.152963.a", 
          "name": [
            "Torrey Pines Institute for Molecular Studies, 3550 General Atomics Court, 92121, San Diego, CA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Ai", 
        "givenName": "Rong", 
        "id": "sg:person.0776163147.33", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0776163147.33"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Torrey Pines Institute For Molecular Studies", 
          "id": "https://www.grid.ac/institutes/grid.152963.a", 
          "name": [
            "Torrey Pines Institute for Molecular Studies, 3550 General Atomics Court, 92121, San Diego, CA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Sandoval", 
        "givenName": "Ana", 
        "id": "sg:person.01222520040.65", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01222520040.65"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Lawrence Berkeley National Laboratory", 
          "id": "https://www.grid.ac/institutes/grid.184769.5", 
          "name": [
            "Lawrence Berkeley National Laboratory, Department of Cell &, Molecular Biology 1 Cyclotron Road, 94720, Berkeley, CA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Chen", 
        "givenName": "David J.", 
        "id": "sg:person.07553741514.44", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07553741514.44"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Lawrence Berkeley National Laboratory", 
          "id": "https://www.grid.ac/institutes/grid.184769.5", 
          "name": [
            "Lawrence Berkeley National Laboratory, Department of Cell &, Molecular Biology 1 Cyclotron Road, 94720, Berkeley, CA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Burma", 
        "givenName": "Sandeep", 
        "id": "sg:person.01142321463.18", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01142321463.18"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Torrey Pines Institute For Molecular Studies", 
          "id": "https://www.grid.ac/institutes/grid.152963.a", 
          "name": [
            "Torrey Pines Institute for Molecular Studies, 3550 General Atomics Court, 92121, San Diego, CA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Labhart", 
        "givenName": "Paul", 
        "id": "sg:person.0646171212.09", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0646171212.09"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.3109/10428199709051772", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1003748216"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/386732a0", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008042972", 
          "https://doi.org/10.1038/386732a0"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1269/jrr.43.223", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008678158"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1101/gad.7.4.605", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1011271840"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/mcb.18.5.3089", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1011593652"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3727/000000003783992306", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1015186844"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/29343", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016163271", 
          "https://doi.org/10.1038/29343"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/29343", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016163271", 
          "https://doi.org/10.1038/29343"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1128/mcb.19.5.3877", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017597749"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s1097-2765(01)00425-7", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1022590714"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.87.8.3132", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1026161593"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.96.4.1403", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1030892041"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1101/gad.5.2.160", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1034689651"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/35006670", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037723518", 
          "https://doi.org/10.1038/35006670"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/35006670", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037723518", 
          "https://doi.org/10.1038/35006670"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1074/jbc.275.14.10638", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037788292"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1667/0033-7587(2000)154[0609:ceaaod]2.0.co;2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1038837830"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/20.19.4965", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1040951474"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0092-8674(02)00770-5", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1041575602"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.92.1.320", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1049454574"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.87.5.1791", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1050623205"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s1535-6108(02)00236-2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1052375367"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/s0960-9822(00)80123-2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1052857094"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.7855601", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1062649925"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1126/science.7855602", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1062649926"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1210/mend.9.1.7760852", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1064333485"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1667/0033-7587(2001)156[0167:aogtic]2.0.co;2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1068194587"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1074507193", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1074829602", 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/j.1460-2075.1991.tb07676.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1078081548"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/j.1460-2075.1985.tb02328.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1080084537"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://app.dimensions.ai/details/publication/pub.1082466683", 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2004-06", 
    "datePublishedReg": "2004-06-01", 
    "description": "DNA-dependent protein kinase (DNA-PK) is required for the repair of double strand DNA breaks by nonhomologous DNA end joining. The catalytic subunit of DNA-PK, PRKDC, may also be involved in repair-related or separate cell signaling pathways. To learn more about the cellular function of DNA-PK under normal physiological conditions, we identified genes that are differentially expressed between an immortalized wild-type mouse fibroblast cell line and its DNA-PK-deficient counterpart (Prkdc -/-). The proto-oncogene Mdm2 and the farnesoid X receptor gene Nrlh4 were overexpressed in the DNA-PK-deficient cell line. We show that in the DNA-PK-deficient cell line the genes for both Mdm2 and Nrlh4 are amplified to a degree that could account for most, if not all, of their increased expression. Other genes were strongly downregulated in the DNA-PK-deficient cell line, but this opposite expression pattern was not due to gene amplification in the wild-type cells. None of these genes was differentially expressed in DNA-PK-containing and DNA-PK-deficient primary mouse embryo fibroblasts. Our results suggest a model in which DNA-PK indirectly affects the cellular gene expression profile through its caretaker role and by preventing gene amplification.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1023/b:mole.0000031358.71141.78", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isFundedItemOf": [
      {
        "id": "sg:grant.2516777", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.2474990", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.2634350", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.2470282", 
        "type": "MonetaryGrant"
      }
    ], 
    "isPartOf": [
      {
        "id": "sg:journal.1018503", 
        "issn": [
          "0301-4851", 
          "1573-4978"
        ], 
        "name": "Molecular Biology Reports", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "2", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "31"
      }
    ], 
    "name": "Amplification and overexpression of oncogene Mdm2 and orphan receptor gene Nr1h4 in immortal PRKDC knockout cells", 
    "pagination": "91-96", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "62a90e017e122f95caad8393a1dca41b9bccd837cd3c50f8b32459830405cc9a"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "15293784"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "0403234"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1023/b:mole.0000031358.71141.78"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1020706212"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1023/b:mole.0000031358.71141.78", 
      "https://app.dimensions.ai/details/publication/pub.1020706212"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-10T22:26", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000001_0000000264/records_8690_00000488.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "http://link.springer.com/10.1023/B:MOLE.0000031358.71141.78"
  }
]
 

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.10.1023/b:mole.0000031358.71141.78'

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

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1023/b:mole.0000031358.71141.78'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1023/b:mole.0000031358.71141.78'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1023/b:mole.0000031358.71141.78'


 

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

266 TRIPLES      21 PREDICATES      76 URIs      38 LITERALS      26 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1023/b:mole.0000031358.71141.78 schema:about N00cb02255be04810b1b35387df9b8b12
2 N05454a8df12d40509a0088d236f65419
3 N1eb4a93caca347c58dffbe89d5abace3
4 N2a8526b08771424fb59dec89c1329b42
5 N2bd6b8d5c3144fc5bf5ccea4c88c102b
6 N3299ab9fda724effbf9b99609725cf8d
7 N6396d84705804b90a5f80f52b888ee72
8 N681f88d17b514c948c07de2b9dfcc889
9 N690d242002e349059fcf8130819527ae
10 N78da56ab819145c1ad1c082abbd77e37
11 N8155189b32df44978fe56209c378c35d
12 N89d1a17330bb40328268fe8efaaf0bf1
13 N9576bde404064b05b572a22efc2dcaf0
14 N966e15e564da427cbcedb57e0b0ddf92
15 N9bce0546b4dc4746a1f6007e37fdb7a4
16 Ncb860f1ee61a4c3d89bb72bd447215ae
17 Nef4bc5621c3d42deb22b500bd60aa085
18 anzsrc-for:06
19 anzsrc-for:0604
20 schema:author Nb6863ab094d74754b080eaa61e4cb79b
21 schema:citation sg:pub.10.1038/29343
22 sg:pub.10.1038/35006670
23 sg:pub.10.1038/386732a0
24 https://app.dimensions.ai/details/publication/pub.1074507193
25 https://app.dimensions.ai/details/publication/pub.1074829602
26 https://app.dimensions.ai/details/publication/pub.1082466683
27 https://doi.org/10.1002/j.1460-2075.1985.tb02328.x
28 https://doi.org/10.1002/j.1460-2075.1991.tb07676.x
29 https://doi.org/10.1016/s0092-8674(02)00770-5
30 https://doi.org/10.1016/s0960-9822(00)80123-2
31 https://doi.org/10.1016/s1097-2765(01)00425-7
32 https://doi.org/10.1016/s1535-6108(02)00236-2
33 https://doi.org/10.1073/pnas.87.5.1791
34 https://doi.org/10.1073/pnas.87.8.3132
35 https://doi.org/10.1073/pnas.92.1.320
36 https://doi.org/10.1073/pnas.96.4.1403
37 https://doi.org/10.1074/jbc.275.14.10638
38 https://doi.org/10.1093/nar/20.19.4965
39 https://doi.org/10.1101/gad.5.2.160
40 https://doi.org/10.1101/gad.7.4.605
41 https://doi.org/10.1126/science.7855601
42 https://doi.org/10.1126/science.7855602
43 https://doi.org/10.1128/mcb.18.5.3089
44 https://doi.org/10.1128/mcb.19.5.3877
45 https://doi.org/10.1210/mend.9.1.7760852
46 https://doi.org/10.1269/jrr.43.223
47 https://doi.org/10.1667/0033-7587(2000)154[0609:ceaaod]2.0.co;2
48 https://doi.org/10.1667/0033-7587(2001)156[0167:aogtic]2.0.co;2
49 https://doi.org/10.3109/10428199709051772
50 https://doi.org/10.3727/000000003783992306
51 schema:datePublished 2004-06
52 schema:datePublishedReg 2004-06-01
53 schema:description DNA-dependent protein kinase (DNA-PK) is required for the repair of double strand DNA breaks by nonhomologous DNA end joining. The catalytic subunit of DNA-PK, PRKDC, may also be involved in repair-related or separate cell signaling pathways. To learn more about the cellular function of DNA-PK under normal physiological conditions, we identified genes that are differentially expressed between an immortalized wild-type mouse fibroblast cell line and its DNA-PK-deficient counterpart (Prkdc -/-). The proto-oncogene Mdm2 and the farnesoid X receptor gene Nrlh4 were overexpressed in the DNA-PK-deficient cell line. We show that in the DNA-PK-deficient cell line the genes for both Mdm2 and Nrlh4 are amplified to a degree that could account for most, if not all, of their increased expression. Other genes were strongly downregulated in the DNA-PK-deficient cell line, but this opposite expression pattern was not due to gene amplification in the wild-type cells. None of these genes was differentially expressed in DNA-PK-containing and DNA-PK-deficient primary mouse embryo fibroblasts. Our results suggest a model in which DNA-PK indirectly affects the cellular gene expression profile through its caretaker role and by preventing gene amplification.
54 schema:genre research_article
55 schema:inLanguage en
56 schema:isAccessibleForFree false
57 schema:isPartOf Naf61b3418f4347ef9d1bf4a77b01e9fe
58 Nd07937c5bc1744729c174b8f87aa4f11
59 sg:journal.1018503
60 schema:name Amplification and overexpression of oncogene Mdm2 and orphan receptor gene Nr1h4 in immortal PRKDC knockout cells
61 schema:pagination 91-96
62 schema:productId N15346ea5512740478e541c359cfd4f07
63 N2323509bbb53411d91fc38faa1515a1e
64 N7fc25112edaf4934982b7bae52d217c1
65 Ndad24362a2144a40b91fe961e8345580
66 Ne4bccb6f85264572b14f8222ca58f699
67 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020706212
68 https://doi.org/10.1023/b:mole.0000031358.71141.78
69 schema:sdDatePublished 2019-04-10T22:26
70 schema:sdLicense https://scigraph.springernature.com/explorer/license/
71 schema:sdPublisher N9dc228f26f6a43e5a9262290e1181e39
72 schema:url http://link.springer.com/10.1023/B:MOLE.0000031358.71141.78
73 sgo:license sg:explorer/license/
74 sgo:sdDataset articles
75 rdf:type schema:ScholarlyArticle
76 N00cb02255be04810b1b35387df9b8b12 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
77 schema:name Sequence Deletion
78 rdf:type schema:DefinedTerm
79 N0520be92826d47efba9bf91063da8c22 rdf:first sg:person.01222520040.65
80 rdf:rest N8f9799e451bf49768120a67c206bdb91
81 N05454a8df12d40509a0088d236f65419 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
82 schema:name Proto-Oncogene Proteins c-mdm2
83 rdf:type schema:DefinedTerm
84 N15346ea5512740478e541c359cfd4f07 schema:name dimensions_id
85 schema:value pub.1020706212
86 rdf:type schema:PropertyValue
87 N1eb4a93caca347c58dffbe89d5abace3 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
88 schema:name Cell Line
89 rdf:type schema:DefinedTerm
90 N2323509bbb53411d91fc38faa1515a1e schema:name pubmed_id
91 schema:value 15293784
92 rdf:type schema:PropertyValue
93 N2a8526b08771424fb59dec89c1329b42 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
94 schema:name Recombination, Genetic
95 rdf:type schema:DefinedTerm
96 N2bd6b8d5c3144fc5bf5ccea4c88c102b schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
97 schema:name Protein-Serine-Threonine Kinases
98 rdf:type schema:DefinedTerm
99 N3299ab9fda724effbf9b99609725cf8d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
100 schema:name DNA-Binding Proteins
101 rdf:type schema:DefinedTerm
102 N6396d84705804b90a5f80f52b888ee72 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
103 schema:name Receptors, Cytoplasmic and Nuclear
104 rdf:type schema:DefinedTerm
105 N66849c24dfee4cddac6389bee2cb43ed rdf:first sg:person.0646171212.09
106 rdf:rest rdf:nil
107 N681f88d17b514c948c07de2b9dfcc889 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
108 schema:name Animals
109 rdf:type schema:DefinedTerm
110 N690d242002e349059fcf8130819527ae schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
111 schema:name Proto-Oncogene Proteins
112 rdf:type schema:DefinedTerm
113 N78da56ab819145c1ad1c082abbd77e37 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
114 schema:name Mice, Knockout
115 rdf:type schema:DefinedTerm
116 N7fc25112edaf4934982b7bae52d217c1 schema:name nlm_unique_id
117 schema:value 0403234
118 rdf:type schema:PropertyValue
119 N8155189b32df44978fe56209c378c35d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
120 schema:name Fibroblasts
121 rdf:type schema:DefinedTerm
122 N89d1a17330bb40328268fe8efaaf0bf1 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
123 schema:name Gene Amplification
124 rdf:type schema:DefinedTerm
125 N8f9799e451bf49768120a67c206bdb91 rdf:first sg:person.07553741514.44
126 rdf:rest Na87b9c6be3ad463ea7576ecd430a36e1
127 N9576bde404064b05b572a22efc2dcaf0 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
128 schema:name DNA-Activated Protein Kinase
129 rdf:type schema:DefinedTerm
130 N966e15e564da427cbcedb57e0b0ddf92 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
131 schema:name Up-Regulation
132 rdf:type schema:DefinedTerm
133 N9bce0546b4dc4746a1f6007e37fdb7a4 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
134 schema:name Nuclear Proteins
135 rdf:type schema:DefinedTerm
136 N9dc228f26f6a43e5a9262290e1181e39 schema:name Springer Nature - SN SciGraph project
137 rdf:type schema:Organization
138 Na87b9c6be3ad463ea7576ecd430a36e1 rdf:first sg:person.01142321463.18
139 rdf:rest N66849c24dfee4cddac6389bee2cb43ed
140 Naf61b3418f4347ef9d1bf4a77b01e9fe schema:volumeNumber 31
141 rdf:type schema:PublicationVolume
142 Nb6863ab094d74754b080eaa61e4cb79b rdf:first sg:person.0776163147.33
143 rdf:rest N0520be92826d47efba9bf91063da8c22
144 Ncb860f1ee61a4c3d89bb72bd447215ae schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
145 schema:name Transcription Factors
146 rdf:type schema:DefinedTerm
147 Nd07937c5bc1744729c174b8f87aa4f11 schema:issueNumber 2
148 rdf:type schema:PublicationIssue
149 Ndad24362a2144a40b91fe961e8345580 schema:name readcube_id
150 schema:value 62a90e017e122f95caad8393a1dca41b9bccd837cd3c50f8b32459830405cc9a
151 rdf:type schema:PropertyValue
152 Ne4bccb6f85264572b14f8222ca58f699 schema:name doi
153 schema:value 10.1023/b:mole.0000031358.71141.78
154 rdf:type schema:PropertyValue
155 Nef4bc5621c3d42deb22b500bd60aa085 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
156 schema:name Mice
157 rdf:type schema:DefinedTerm
158 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
159 schema:name Biological Sciences
160 rdf:type schema:DefinedTerm
161 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
162 schema:name Genetics
163 rdf:type schema:DefinedTerm
164 sg:grant.2470282 http://pending.schema.org/fundedItem sg:pub.10.1023/b:mole.0000031358.71141.78
165 rdf:type schema:MonetaryGrant
166 sg:grant.2474990 http://pending.schema.org/fundedItem sg:pub.10.1023/b:mole.0000031358.71141.78
167 rdf:type schema:MonetaryGrant
168 sg:grant.2516777 http://pending.schema.org/fundedItem sg:pub.10.1023/b:mole.0000031358.71141.78
169 rdf:type schema:MonetaryGrant
170 sg:grant.2634350 http://pending.schema.org/fundedItem sg:pub.10.1023/b:mole.0000031358.71141.78
171 rdf:type schema:MonetaryGrant
172 sg:journal.1018503 schema:issn 0301-4851
173 1573-4978
174 schema:name Molecular Biology Reports
175 rdf:type schema:Periodical
176 sg:person.01142321463.18 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
177 schema:familyName Burma
178 schema:givenName Sandeep
179 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01142321463.18
180 rdf:type schema:Person
181 sg:person.01222520040.65 schema:affiliation https://www.grid.ac/institutes/grid.152963.a
182 schema:familyName Sandoval
183 schema:givenName Ana
184 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01222520040.65
185 rdf:type schema:Person
186 sg:person.0646171212.09 schema:affiliation https://www.grid.ac/institutes/grid.152963.a
187 schema:familyName Labhart
188 schema:givenName Paul
189 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0646171212.09
190 rdf:type schema:Person
191 sg:person.07553741514.44 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
192 schema:familyName Chen
193 schema:givenName David J.
194 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07553741514.44
195 rdf:type schema:Person
196 sg:person.0776163147.33 schema:affiliation https://www.grid.ac/institutes/grid.152963.a
197 schema:familyName Ai
198 schema:givenName Rong
199 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0776163147.33
200 rdf:type schema:Person
201 sg:pub.10.1038/29343 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016163271
202 https://doi.org/10.1038/29343
203 rdf:type schema:CreativeWork
204 sg:pub.10.1038/35006670 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037723518
205 https://doi.org/10.1038/35006670
206 rdf:type schema:CreativeWork
207 sg:pub.10.1038/386732a0 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008042972
208 https://doi.org/10.1038/386732a0
209 rdf:type schema:CreativeWork
210 https://app.dimensions.ai/details/publication/pub.1074507193 schema:CreativeWork
211 https://app.dimensions.ai/details/publication/pub.1074829602 schema:CreativeWork
212 https://app.dimensions.ai/details/publication/pub.1082466683 schema:CreativeWork
213 https://doi.org/10.1002/j.1460-2075.1985.tb02328.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1080084537
214 rdf:type schema:CreativeWork
215 https://doi.org/10.1002/j.1460-2075.1991.tb07676.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1078081548
216 rdf:type schema:CreativeWork
217 https://doi.org/10.1016/s0092-8674(02)00770-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1041575602
218 rdf:type schema:CreativeWork
219 https://doi.org/10.1016/s0960-9822(00)80123-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1052857094
220 rdf:type schema:CreativeWork
221 https://doi.org/10.1016/s1097-2765(01)00425-7 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022590714
222 rdf:type schema:CreativeWork
223 https://doi.org/10.1016/s1535-6108(02)00236-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1052375367
224 rdf:type schema:CreativeWork
225 https://doi.org/10.1073/pnas.87.5.1791 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050623205
226 rdf:type schema:CreativeWork
227 https://doi.org/10.1073/pnas.87.8.3132 schema:sameAs https://app.dimensions.ai/details/publication/pub.1026161593
228 rdf:type schema:CreativeWork
229 https://doi.org/10.1073/pnas.92.1.320 schema:sameAs https://app.dimensions.ai/details/publication/pub.1049454574
230 rdf:type schema:CreativeWork
231 https://doi.org/10.1073/pnas.96.4.1403 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030892041
232 rdf:type schema:CreativeWork
233 https://doi.org/10.1074/jbc.275.14.10638 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037788292
234 rdf:type schema:CreativeWork
235 https://doi.org/10.1093/nar/20.19.4965 schema:sameAs https://app.dimensions.ai/details/publication/pub.1040951474
236 rdf:type schema:CreativeWork
237 https://doi.org/10.1101/gad.5.2.160 schema:sameAs https://app.dimensions.ai/details/publication/pub.1034689651
238 rdf:type schema:CreativeWork
239 https://doi.org/10.1101/gad.7.4.605 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011271840
240 rdf:type schema:CreativeWork
241 https://doi.org/10.1126/science.7855601 schema:sameAs https://app.dimensions.ai/details/publication/pub.1062649925
242 rdf:type schema:CreativeWork
243 https://doi.org/10.1126/science.7855602 schema:sameAs https://app.dimensions.ai/details/publication/pub.1062649926
244 rdf:type schema:CreativeWork
245 https://doi.org/10.1128/mcb.18.5.3089 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011593652
246 rdf:type schema:CreativeWork
247 https://doi.org/10.1128/mcb.19.5.3877 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017597749
248 rdf:type schema:CreativeWork
249 https://doi.org/10.1210/mend.9.1.7760852 schema:sameAs https://app.dimensions.ai/details/publication/pub.1064333485
250 rdf:type schema:CreativeWork
251 https://doi.org/10.1269/jrr.43.223 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008678158
252 rdf:type schema:CreativeWork
253 https://doi.org/10.1667/0033-7587(2000)154[0609:ceaaod]2.0.co;2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038837830
254 rdf:type schema:CreativeWork
255 https://doi.org/10.1667/0033-7587(2001)156[0167:aogtic]2.0.co;2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1068194587
256 rdf:type schema:CreativeWork
257 https://doi.org/10.3109/10428199709051772 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003748216
258 rdf:type schema:CreativeWork
259 https://doi.org/10.3727/000000003783992306 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015186844
260 rdf:type schema:CreativeWork
261 https://www.grid.ac/institutes/grid.152963.a schema:alternateName Torrey Pines Institute For Molecular Studies
262 schema:name Torrey Pines Institute for Molecular Studies, 3550 General Atomics Court, 92121, San Diego, CA, USA
263 rdf:type schema:Organization
264 https://www.grid.ac/institutes/grid.184769.5 schema:alternateName Lawrence Berkeley National Laboratory
265 schema:name Lawrence Berkeley National Laboratory, Department of Cell &, Molecular Biology 1 Cyclotron Road, 94720, Berkeley, CA, USA
266 rdf:type schema:Organization
 




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


...