Ontology type: schema:ScholarlyArticle
2019-12
AUTHORSJeannine Diesch, Megan J. Bywater, Elaine Sanij, Donald P. Cameron, William Schierding, Natalie Brajanovski, Jinbae Son, Jirawas Sornkom, Nadine Hein, Maurits Evers, Richard B. Pearson, Grant A. McArthur, Austen R. D. Ganley, Justin M. O’Sullivan, Ross D. Hannan, Gretchen Poortinga
ABSTRACTThe three-dimensional organization of the genome contributes to its maintenance and regulation. While chromosomal regions associate with nucleolar ribosomal RNA genes (rDNA), the biological significance of rDNA-genome interactions and whether they are dynamically regulated during disease remain unclear. rDNA chromatin exists in multiple inactive and active states and their transition is regulated by the RNA polymerase I transcription factor UBTF. Here, using a MYC-driven lymphoma model, we demonstrate that during malignant progression the rDNA chromatin converts to the open state, which is required for tumor cell survival. Moreover, this rDNA transition co-occurs with a reorganization of rDNA-genome contacts which correlate with gene expression changes at associated loci, impacting gene ontologies including B-cell differentiation, cell growth and metabolism. We propose that UBTF-mediated conversion to open rDNA chromatin during malignant transformation contributes to the regulation of specific gene pathways that regulate growth and differentiation through reformed long-range physical interactions with the rDNA. More... »
PAGES39
http://scigraph.springernature.com/pub.10.1038/s42003-019-0284-y
DOIhttp://dx.doi.org/10.1038/s42003-019-0284-y
DIMENSIONShttps://app.dimensions.ai/details/publication/pub.1111671719
PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/30701204
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"
}
],
"author": [
{
"affiliation": {
"alternateName": "Josep Carreras Leukaemia Research Institute",
"id": "https://www.grid.ac/institutes/grid.429289.c",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"Josep Carreras Leukaemia Research Institute, 08021, Barcelona, Spain"
],
"type": "Organization"
},
"familyName": "Diesch",
"givenName": "Jeannine",
"id": "sg:person.01156142050.94",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01156142050.94"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "QIMR Berghofer Medical Research Institute",
"id": "https://www.grid.ac/institutes/grid.1049.c",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"QIMR Berghofer Medical Research Institute, 4029, Brisbane, QLD, Australia"
],
"type": "Organization"
},
"familyName": "Bywater",
"givenName": "Megan J.",
"id": "sg:person.01333340300.97",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01333340300.97"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Melbourne",
"id": "https://www.grid.ac/institutes/grid.1008.9",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"Department of Pathology, University of Melbourne, 3010, Parkville, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Sanij",
"givenName": "Elaine",
"id": "sg:person.01205405703.05",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01205405703.05"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Melbourne",
"id": "https://www.grid.ac/institutes/grid.1008.9",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"ACRF Department of Cancer Biology and Therapeutics, John Curtin School of Medical Research, Australian National University, 2601, Canberra, ACT, Australia",
"Sir Peter MacCallum Department of Oncology, University of Melbourne, 3010, Parkville, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Cameron",
"givenName": "Donald P.",
"id": "sg:person.01334343253.24",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01334343253.24"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Auckland",
"id": "https://www.grid.ac/institutes/grid.9654.e",
"name": [
"Liggins Institute, The University of Auckland, 1023, Auckland, New Zealand"
],
"type": "Organization"
},
"familyName": "Schierding",
"givenName": "William",
"id": "sg:person.014524760077.67",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014524760077.67"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Peter MacCallum Cancer Centre",
"id": "https://www.grid.ac/institutes/grid.1055.1",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Brajanovski",
"givenName": "Natalie",
"id": "sg:person.07663705561.09",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07663705561.09"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Melbourne",
"id": "https://www.grid.ac/institutes/grid.1008.9",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"Sir Peter MacCallum Department of Oncology, University of Melbourne, 3010, Parkville, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Son",
"givenName": "Jinbae",
"id": "sg:person.013610725653.42",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013610725653.42"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Melbourne",
"id": "https://www.grid.ac/institutes/grid.1008.9",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"Sir Peter MacCallum Department of Oncology, University of Melbourne, 3010, Parkville, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Sornkom",
"givenName": "Jirawas",
"id": "sg:person.0632163750.19",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0632163750.19"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Australian National University",
"id": "https://www.grid.ac/institutes/grid.1001.0",
"name": [
"ACRF Department of Cancer Biology and Therapeutics, John Curtin School of Medical Research, Australian National University, 2601, Canberra, ACT, Australia"
],
"type": "Organization"
},
"familyName": "Hein",
"givenName": "Nadine",
"id": "sg:person.01214116241.10",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01214116241.10"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Australian National University",
"id": "https://www.grid.ac/institutes/grid.1001.0",
"name": [
"ACRF Department of Cancer Biology and Therapeutics, John Curtin School of Medical Research, Australian National University, 2601, Canberra, ACT, Australia"
],
"type": "Organization"
},
"familyName": "Evers",
"givenName": "Maurits",
"id": "sg:person.01310473373.23",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01310473373.23"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Melbourne",
"id": "https://www.grid.ac/institutes/grid.1008.9",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"Sir Peter MacCallum Department of Oncology, University of Melbourne, 3010, Parkville, VIC, Australia",
"Department of Biochemistry and Molecular Biology, Monash University, 3800, Clayton, VIC, Australia",
"Department of Biochemistry and Molecular Biology, University of Melbourne, 3010, Parkville, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Pearson",
"givenName": "Richard B.",
"id": "sg:person.012467070532.36",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.012467070532.36"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Melbourne",
"id": "https://www.grid.ac/institutes/grid.1008.9",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"Sir Peter MacCallum Department of Oncology, University of Melbourne, 3010, Parkville, VIC, Australia",
"Department of Medicine, St Vincent\u2019s Hospital, University of Melbourne, 3065, Fitzroy, VIC, Australia"
],
"type": "Organization"
},
"familyName": "McArthur",
"givenName": "Grant A.",
"id": "sg:person.01101164743.35",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01101164743.35"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Auckland",
"id": "https://www.grid.ac/institutes/grid.9654.e",
"name": [
"School of Biological Sciences, The University of Auckland, 1010, Auckland, New Zealand"
],
"type": "Organization"
},
"familyName": "Ganley",
"givenName": "Austen R. D.",
"id": "sg:person.01332516771.45",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01332516771.45"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Auckland",
"id": "https://www.grid.ac/institutes/grid.9654.e",
"name": [
"Liggins Institute, The University of Auckland, 1023, Auckland, New Zealand"
],
"type": "Organization"
},
"familyName": "O\u2019Sullivan",
"givenName": "Justin M.",
"id": "sg:person.011544772302.34",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011544772302.34"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Queensland",
"id": "https://www.grid.ac/institutes/grid.1003.2",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"ACRF Department of Cancer Biology and Therapeutics, John Curtin School of Medical Research, Australian National University, 2601, Canberra, ACT, Australia",
"Sir Peter MacCallum Department of Oncology, University of Melbourne, 3010, Parkville, VIC, Australia",
"Department of Biochemistry and Molecular Biology, Monash University, 3800, Clayton, VIC, Australia",
"Department of Biochemistry and Molecular Biology, University of Melbourne, 3010, Parkville, VIC, Australia",
"School of Biomedical Sciences, University of Queensland, 4072, Brisbane, QLD, Australia"
],
"type": "Organization"
},
"familyName": "Hannan",
"givenName": "Ross D.",
"id": "sg:person.01044252300.38",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01044252300.38"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "University of Melbourne",
"id": "https://www.grid.ac/institutes/grid.1008.9",
"name": [
"Cancer Research Division, Peter MacCallum Cancer Centre, 3000, Melbourne, VIC, Australia",
"Sir Peter MacCallum Department of Oncology, University of Melbourne, 3010, Parkville, VIC, Australia",
"Department of Medicine, St Vincent\u2019s Hospital, University of Melbourne, 3065, Fitzroy, VIC, Australia"
],
"type": "Organization"
},
"familyName": "Poortinga",
"givenName": "Gretchen",
"id": "sg:person.01327477200.47",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01327477200.47"
],
"type": "Person"
}
],
"citation": [
{
"id": "https://doi.org/10.1016/j.molmed.2013.07.005",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1000085352"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.bbagrm.2012.12.007",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1000531995"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1365-2559.2008.03168.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1001295834"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1365-2559.2008.03168.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1001295834"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/onc.2014.13",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1002318019",
"https://doi.org/10.1038/onc.2014.13"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1084/jem.167.2.353",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1002969438"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/318533a0",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005012397",
"https://doi.org/10.1038/318533a0"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/318533a0",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005012397",
"https://doi.org/10.1038/318533a0"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1038/sj.emboj.7600335",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005220704"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1128/mmbr.00006-15",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005334022"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gad.399506",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005411001"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrc1947",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005543387",
"https://doi.org/10.1038/nrc1947"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrc1947",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1005543387",
"https://doi.org/10.1038/nrc1947"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1083/jcb.137.5.965",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1006168289"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nmeth.1923",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1006541515",
"https://doi.org/10.1038/nmeth.1923"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.tig.2011.01.002",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1006756858"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2016.02.007",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1007042188"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2016.02.007",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1007042188"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.1416878112",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1007049863"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/cshperspect.a014241",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1007687362"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrm3965",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1008605170",
"https://doi.org/10.1038/nrm3965"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.0906811106",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1008649415"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2013.02.028",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1008857878"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature13537",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1008877846",
"https://doi.org/10.1038/nature13537"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/1567-1364.12133",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1009977846"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/s1097-2765(01)00317-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1010245057"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1002/(sici)1096-9896(200006)191:2<181::aid-path607>3.0.co;2-v",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1011488641"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gr.6858507",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1012638078"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/onc.2009.21",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1013010143",
"https://doi.org/10.1038/onc.2009.21"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/onc.2009.21",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1013010143",
"https://doi.org/10.1038/onc.2009.21"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/bib/bbs046",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1013843285"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature05690",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014017146",
"https://doi.org/10.1038/nature05690"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/bioinformatics/btv145",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014058643"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.7554/elife.13571",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014468104"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.mito.2016.08.003",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1014953483"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pgen.1002468",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1015060730"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pgen.1004505",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1016946738"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.ccr.2013.12.009",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1016950723"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nmeth823",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1018338839",
"https://doi.org/10.1038/nmeth823"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nmeth823",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1018338839",
"https://doi.org/10.1038/nmeth823"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gad.310705",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1019322791"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ng1010",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1019720796",
"https://doi.org/10.1038/ng1010"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ng1010",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1019720796",
"https://doi.org/10.1038/ng1010"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gr.092759.109",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1020163602"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrm.2016.138",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1020179702",
"https://doi.org/10.1038/nrm.2016.138"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/0092-8674(89)90790-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1020520312"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nprot.2007.243",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021403754",
"https://doi.org/10.1038/nprot.2007.243"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrc3496",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021421962",
"https://doi.org/10.1038/nrc3496"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/978-1-59745-406-3_15",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021685339",
"https://doi.org/10.1007/978-1-59745-406-3_15"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/978-1-59745-406-3_15",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021685339",
"https://doi.org/10.1007/978-1-59745-406-3_15"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pgen.1000889",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1021769795"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/2045-3701-4-43",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1022000628",
"https://doi.org/10.1186/2045-3701-4-43"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nrm2184",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1023910701",
"https://doi.org/10.1038/nrm2184"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ni.2432",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024079325",
"https://doi.org/10.1038/ni.2432"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pone.0026057",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024121600"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.18632/oncotarget.10452",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024744247"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gku183",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1024811645"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gr.176115.114",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1025026699"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/jmcb/mju038",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1025102090"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.celrep.2016.07.016",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1026317757"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1146/annurev.pharmtox.010909.105844",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1026833798"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nbt.1508",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1028515757",
"https://doi.org/10.1038/nbt.1508"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/bib/bbs017",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1029766327"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.molcel.2013.02.011",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1030130704"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/gb-2010-11-10-r106",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1031289083",
"https://doi.org/10.1186/gb-2010-11-10-r106"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/cshperspect.a014217",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1033199896"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1146/annurev.cellbio.24.110707.175259",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1034155807"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkq1156",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1035329581"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkq1205",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1035560140"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/gbe/evw257",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1035962570"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkt218",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1036057158"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/0092-8674(86)90361-2",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1036816751"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.2147/ott.s36627",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1037397262"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1741-7007-9-80",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1038151557",
"https://doi.org/10.1186/1741-7007-9-80"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1091/mbc.e10-06-0508",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1039358360"
],
"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": "https://doi.org/10.1016/j.ccr.2012.05.019",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1040280875"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nprot.2016.117",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1040435923",
"https://doi.org/10.1038/nprot.2016.117"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pgen.1001376",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1040913830"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkq1326",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1041001597"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkn698",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1041764926"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1158/2159-8290.cd-14-0673",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1041974121"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1756-8935-3-19",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1042222741",
"https://doi.org/10.1186/1756-8935-3-19"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ncb1224",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1042866549",
"https://doi.org/10.1038/ncb1224"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ncb1224",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1042866549",
"https://doi.org/10.1038/ncb1224"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1101/gad.273755.115",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043795184"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1083/jcb.200805146",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1044800858"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1158/0008-5472.can-10-1728",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045180438"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.bbagrm.2012.10.004",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045753847"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ncb1223",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045765783",
"https://doi.org/10.1038/ncb1223"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/ncb1223",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045765783",
"https://doi.org/10.1038/ncb1223"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkg794",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047131984"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2012.03.003",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047284773"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/nar/gkn923",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1047610281"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1742-9994-5-12",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1048900105",
"https://doi.org/10.1186/1742-9994-5-12"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.stem.2014.05.017",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1049496085"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1074/jbc.m113.486175",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1050079301"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.18632/oncotarget.2020",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1050574322"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/bioinformatics/btu638",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1053282140"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1246384",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1053622797"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2016.04.047",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1053688201"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pone.0029267",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1053737517"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1214/11-aoas466",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1064392153"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.4161/epi.4.6.9449",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1072302925"
],
"type": "CreativeWork"
},
{
"id": "https://app.dimensions.ai/details/publication/pub.1082065047",
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/s41467-016-0009-6",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1083776852",
"https://doi.org/10.1038/s41467-016-0009-6"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1200/jco.2016.70.7836",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1083830609"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1182/blood-2016-05-718171",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1084249512"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature22989",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1086106384",
"https://doi.org/10.1038/nature22989"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1038/nature22989",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1086106384",
"https://doi.org/10.1038/nature22989"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pgen.1006899",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1090739094"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pgen.1007258",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1101730680"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2018.05.024",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1104465844"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2018.05.024",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1104465844"
],
"type": "CreativeWork"
}
],
"datePublished": "2019-12",
"datePublishedReg": "2019-12-01",
"description": "The three-dimensional organization of the genome contributes to its maintenance and regulation. While chromosomal regions associate with nucleolar ribosomal RNA genes (rDNA), the biological significance of rDNA-genome interactions and whether they are dynamically regulated during disease remain unclear. rDNA chromatin exists in multiple inactive and active states and their transition is regulated by the RNA polymerase I transcription factor UBTF. Here, using a MYC-driven lymphoma model, we demonstrate that during malignant progression the rDNA chromatin converts to the open state, which is required for tumor cell survival. Moreover, this rDNA transition co-occurs with a reorganization of rDNA-genome contacts which correlate with gene expression changes at associated loci, impacting gene ontologies including B-cell differentiation, cell growth and metabolism. We propose that UBTF-mediated conversion to open rDNA chromatin during malignant transformation contributes to the regulation of specific gene pathways that regulate growth and differentiation through reformed long-range physical interactions with the rDNA.",
"genre": "research_article",
"id": "sg:pub.10.1038/s42003-019-0284-y",
"inLanguage": [
"en"
],
"isAccessibleForFree": false,
"isFundedItemOf": [
{
"id": "sg:grant.6736355",
"type": "MonetaryGrant"
}
],
"isPartOf": [
{
"id": "sg:journal.1300829",
"issn": [
"2399-3642"
],
"name": "Communications Biology",
"type": "Periodical"
},
{
"issueNumber": "1",
"type": "PublicationIssue"
},
{
"type": "PublicationVolume",
"volumeNumber": "2"
}
],
"name": "Changes in long-range rDNA-genomic interactions associate with altered RNA polymerase II gene programs during malignant transformation",
"pagination": "39",
"productId": [
{
"name": "readcube_id",
"type": "PropertyValue",
"value": [
"4c4b08f9e37badb908224e579b303360d34dbf5e2b0cc3eb1d7fe2e7d6149d04"
]
},
{
"name": "pubmed_id",
"type": "PropertyValue",
"value": [
"30701204"
]
},
{
"name": "nlm_unique_id",
"type": "PropertyValue",
"value": [
"101719179"
]
},
{
"name": "doi",
"type": "PropertyValue",
"value": [
"10.1038/s42003-019-0284-y"
]
},
{
"name": "dimensions_id",
"type": "PropertyValue",
"value": [
"pub.1111671719"
]
}
],
"sameAs": [
"https://doi.org/10.1038/s42003-019-0284-y",
"https://app.dimensions.ai/details/publication/pub.1111671719"
],
"sdDataset": "articles",
"sdDatePublished": "2019-04-11T08:58",
"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/v90/0000000326_0000000326/records_68457_00000000.jsonl",
"type": "ScholarlyArticle",
"url": "https://www.nature.com/articles/s42003-019-0284-y"
}
]Download the RDF metadata as: json-ld nt turtle xml License info
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/s42003-019-0284-y'
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/s42003-019-0284-y'
Turtle is a human-readable linked data format.
curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/s42003-019-0284-y'
RDF/XML is a standard XML format for linked data.
curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/s42003-019-0284-y'
This table displays all metadata directly associated to this object as RDF triples.
540 TRIPLES
21 PREDICATES
131 URIs
21 LITERALS
9 BLANK NODES