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DC Field | Value | Language |
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dc.contributor | Sistema FMUSP-HC: Faculdade de Medicina da Universidade de São Paulo (FMUSP) e Hospital das Clínicas da FMUSP | |
dc.contributor.author | MALTA, Tathiane M. | |
dc.contributor.author | SOKOLOV, Artem | |
dc.contributor.author | GENTLES, Andrew J. | |
dc.contributor.author | BURZYKOWSKI, Tomasz | |
dc.contributor.author | POISSON, Laila | |
dc.contributor.author | WEINSTEIN, John N. | |
dc.contributor.author | KAMINSKA, Bozena | |
dc.contributor.author | HUELSKEN, Joerg | |
dc.contributor.author | OMBERG, Larsson | |
dc.contributor.author | GEVAERT, Olivier | |
dc.contributor.author | COLAPRICO, Antonio | |
dc.contributor.author | CZERWINSKA, Patrycja | |
dc.contributor.author | MAZUREK, Sylwia | |
dc.contributor.author | MISHRA, Lopa | |
dc.contributor.author | HEYN, Holger | |
dc.contributor.author | KRASNITZ, Alex | |
dc.contributor.author | GODWIN, Andrew K. | |
dc.contributor.author | LAZAR, Alexander J. | |
dc.contributor.author | STUART, Joshua M. | |
dc.contributor.author | HOADLEY, Katherine A. | |
dc.contributor.author | LAIRD, Peter W. | |
dc.contributor.author | NOUSHMEHR, Houtan | |
dc.contributor.author | WIZNEROWICZ, Maciej | |
dc.date.accessioned | 2019-01-17T13:37:09Z | |
dc.date.available | 2019-01-17T13:37:09Z | |
dc.date.issued | 2018 | |
dc.identifier.citation | CELL, v.173, n.2, p.338-354.e15, 2018 | |
dc.identifier.issn | 0092-8674 | |
dc.identifier.uri | https://observatorio.fm.usp.br/handle/OPI/30105 | |
dc.description.abstract | Cancer progression involves the gradual loss of a differentiated phenotype and acquisition of progenitor and stem-cell-like features. Here, we provide novel stemness indices for assessing the degree of oncogenic dedifferentiation. We used an innovative one-class logistic regression (OCLR) machine-learning algorithm to extract transcriptomic and epigenetic feature sets derived from non-transformed pluripotent stem cells and their differentiated progeny. Using OCLR, we were able to identify previously undiscovered biological mechanisms associated with the dedifferentiated oncogenic state. Analyses of the tumor microenvironment revealed unanticipated correlation of cancer stemness with immune checkpoint expression and infiltrating immune cells. We found that the dedifferentiated oncogenic phenotype was generally most prominent in metastatic tumors. Application of our stemness indices to single-cell data revealed patterns of intra-tumor molecular heterogeneity. Finally, the indices allowed for the identification of novel targets and possible targeted therapies aimed at tumor differentiation. | eng |
dc.description.sponsorship | NIH [U54 HG003273, U54 HG003067, U54 HG003079, U24 CA143799, U24 CA143835, U24 CA143840, U24 CA143843, U24 CA143845, U24 CA143848, U24 CA143858, U24 CA143866, U24 CA143867, U24 CA143882, U24 CA143883, U24 CA144025, P30 CA016672] | |
dc.description.sponsorship | NCI [5R01CA180778, 3U24CA143858, 1U24CA210990, 5U54HG006097, 1U24CA210949, 1U24CA210950] | |
dc.description.sponsorship | NIGMS [5R01GM109031] | |
dc.description.sponsorship | Henry Ford Cancer Institute's Early Career Investigator Award [A20054] | |
dc.description.sponsorship | Sao Paulo Research Foundation (FAPESP) [2014/02245-3, 2016/01975-3] | |
dc.description.sponsorship | FAPESP [2014/08321-3, 2015/07925-5, 2016/01389-7, 2016/10436-9, 2016/06488-3, 2016/12329-5, 2016/15485-8] | |
dc.description.sponsorship | Henry Ford Hospital [A30935] | |
dc.description.sponsorship | Spanish Institute of Health Carlos III [CP14/00229] | |
dc.description.sponsorship | CPRIT [RP13039] | |
dc.description.sponsorship | Michael & Susan Dell Foundation grant ""The Lorraine Dell Program in Bioinformatics'' | |
dc.description.sponsorship | Polish Science Foundation Welcome grant [2010/3-3] | |
dc.description.sponsorship | Mary K. Chapman Foundation gift ""Chapman Foundation Fund for Bioinformatics'' | |
dc.language.iso | eng | |
dc.publisher | CELL PRESS | eng |
dc.relation.ispartof | Cell | |
dc.rights | openAccess | eng |
dc.subject.other | gene-expression signature | eng |
dc.subject.other | embryonic stem | eng |
dc.subject.other | breast-cancer | eng |
dc.subject.other | mesenchymal transition | eng |
dc.subject.other | connectivity map | eng |
dc.subject.other | next-generation | eng |
dc.subject.other | self-renewal | eng |
dc.subject.other | annexin 1 | eng |
dc.subject.other | cells | eng |
dc.subject.other | tumor | eng |
dc.title | Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation | eng |
dc.type | article | eng |
dc.rights.holder | Copyright CELL PRESS | eng |
dc.contributor.groupauthor | Cancer Genome Atlas Res Network | |
dc.contributor.groupauthor | LONGATTO-FILHO, Adhemar | |
dc.identifier.doi | 10.1016/j.cell.2018.03.034 | |
dc.identifier.pmid | 29625051 | |
dc.subject.wos | Biochemistry & Molecular Biology | eng |
dc.subject.wos | Cell Biology | eng |
dc.type.category | original article | eng |
dc.type.version | publishedVersion | eng |
hcfmusp.author.external | MALTA, Tathiane M.:Henry Ford Hlth Syst, Detroit, MI 48202 USA; Univ Sao Paulo, BR-14049 Ribeirao Preto, SP, Brazil | |
hcfmusp.author.external | SOKOLOV, Artem:Harvard Med Sch, Boston, MA 02115 USA | |
hcfmusp.author.external | GENTLES, Andrew J.:Stanford Univ, Palo Alto, CA 94305 USA | |
hcfmusp.author.external | BURZYKOWSKI, Tomasz:Hasselt Univ, B-3590 Diepenbeek, Belgium | |
hcfmusp.author.external | POISSON, Laila:Henry Ford Hlth Syst, Detroit, MI 48202 USA | |
hcfmusp.author.external | WEINSTEIN, John N.:Univ Texas MD Anderson Canc Ctr, Houston, TX 77030 USA | |
hcfmusp.author.external | KAMINSKA, Bozena:PAS, Nencki Inst Expt Biol, PL-02093 Warsaw, Poland | |
hcfmusp.author.external | HUELSKEN, Joerg:Swiss Fed Inst Technol Lausanne, EPFL, CH-1015 Lausanne, Switzerland | |
hcfmusp.author.external | OMBERG, Larsson:Sage Bionetworks, Seattle, WA 98109 USA | |
hcfmusp.author.external | GEVAERT, Olivier:Stanford Univ, Palo Alto, CA 94305 USA | |
hcfmusp.author.external | COLAPRICO, Antonio:Univ Libre Bruxelles, B-1050 Brussels, Belgium; Interuniv Inst Bioinformat Brussels IB2, B-1050 Brussels, Belgium | |
hcfmusp.author.external | CZERWINSKA, Patrycja:Poznan Univ Med Sci, PL-61701 Poznan, Poland | |
hcfmusp.author.external | MAZUREK, Sylwia:Poznan Univ Med Sci, PL-61701 Poznan, Poland; Med Univ Warsaw, Postgrad Sch Mol Med, PL-02109 Warsaw, Poland | |
hcfmusp.author.external | MISHRA, Lopa:George Washington Univ, Washington, DC USA | |
hcfmusp.author.external | HEYN, Holger:Ctr Genom Regulat CNAG CRG, Barcelona 08003, Spain | |
hcfmusp.author.external | KRASNITZ, Alex:Cold Spring Harbor Lab, Cold Spring Harbor, NY 11724 USA | |
hcfmusp.author.external | GODWIN, Andrew K.:Univ Kansas, Med Ctr, Kansas City, KS 66160 USA | |
hcfmusp.author.external | LAZAR, Alexander J.:Univ Texas MD Anderson Canc Ctr, Houston, TX 77030 USA | |
hcfmusp.author.external | STUART, Joshua M.:Univ Calif Santa Cruz, Santa Cruz, CA 95064 USA | |
hcfmusp.author.external | HOADLEY, Katherine A.:Univ N Carolina, Chapel Hill, NC 27599 USA | |
hcfmusp.author.external | LAIRD, Peter W.:Van Andel Res Inst, Grand Rapids, MI 49503 USA | |
hcfmusp.author.external | NOUSHMEHR, Houtan:Henry Ford Hlth Syst, Detroit, MI 48202 USA; Univ Sao Paulo, BR-14049 Ribeirao Preto, SP, Brazil | |
hcfmusp.author.external | WIZNEROWICZ, Maciej:Henry Ford Hlth Syst, Detroit, MI 48202 USA; Poznan Univ Med Sci, PL-61701 Poznan, Poland; Greater Poland Canc Ctr, PL-61866 Poznan, Poland; Int Inst Mol Oncol, PL-60203 Poznan, Poland | |
hcfmusp.description.beginpage | 338 | |
hcfmusp.description.endpage | 354.e15 | |
hcfmusp.description.issue | 2 | |
hcfmusp.description.volume | 173 | |
hcfmusp.origem | WOS | |
hcfmusp.origem.id | WOS:000429320200010 | |
hcfmusp.origem.id | 2-s2.0-85044967234 | |
hcfmusp.publisher.city | CAMBRIDGE | eng |
hcfmusp.publisher.country | USA | eng |
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dc.description.index | MEDLINE | eng |
dc.identifier.eissn | 1097-4172 | |
hcfmusp.citation.scopus | 1154 | - |
hcfmusp.scopus.lastupdate | 2024-03-29 | - |
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