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Raman-based machine-learning platform reveals unique metabolic differences between IDH<sup>mut</sup> and IDH<sup>wt</sup> glioma.
Published in:
Neuro-Oncology, 2024, v. 26, n. 11, p. 1994, doi. 10.1093/neuonc/noae101
By:
- Lita, Adrian;
- Sjöberg, Joel;
- Păcioianu, David;
- Siminea, Nicoleta;
- Celiku, Orieta;
- Dowdy, Tyrone;
- Păun, Andrei;
- Gilbert, Mark R;
- Noushmehr, Houtan;
- Petre, Ion;
- Larion, Mioara
Publication type:
Article
SpidermiR: An R/Bioconductor Package for Integrative Analysis with miRNA Data.
Published in:
International Journal of Molecular Sciences, 2017, v. 18, n. 2, p. 274, doi. 10.3390/ijms18020274
By:
- Cava, Claudia;
- Colaprico, Antonio;
- Bertoli, Gloria;
- Graudenzi, Alex;
- Silva, Tiago C.;
- Olsen, Catharina;
- Noushmehr, Houtan;
- Bontempi, Gianluca;
- Mauri, Giancarlo;
- Castiglioni, Isabella
Publication type:
Article
RGBM: regularized gradient boosting machines for identification of the transcriptional regulators of discrete glioma subtypes.
Published in:
Nucleic Acids Research, 2018, v. 46, n. 7, p. 1, doi. 10.1093/nar/gky015
By:
- Mall, Raghvendra;
- Cerulo, Luigi;
- Garofano, Luciano;
- Frattini, Veronique;
- Kunji, Khalid;
- Bensmail, Halima;
- Sabedot, Thais S;
- Noushmehr, Houtan;
- Lasorella, Anna;
- Iavarone, Antonio
Publication type:
Article
TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data.
Published in:
Nucleic Acids Research, 2016, v. 44, n. 8, p. 1, doi. 10.1093/nar/gkv1507
By:
- Colaprico, Antonio;
- Silva, Tiago C.;
- Olsen, Catharina;
- Garofano, Luciano;
- Cava, Claudia;
- Garolini, Davide;
- Sabedot, Thais S.;
- Malta, Tathiane M.;
- Pagnotta, Stefano M.;
- Castiglioni, Isabella;
- Ceccarelli, Michele;
- Bontempi, Gianluca;
- Noushmehr, Houtan
Publication type:
Article
FunciSNP: an R/bioconductor tool integrating functional non-coding data sets with genetic association studies to identify candidate regulatory SNPs.
Published in:
Nucleic Acids Research, 2012, v. 40, n. 18, p. e139, doi. 10.1093/nar/gks542
By:
- Coetzee, Simon G.;
- Rhie, Suhn K.;
- Berman, Benjamin P.;
- Coetzee, Gerhard A.;
- Noushmehr, Houtan
Publication type:
Article
Genome-wide Runx2 occupancy in prostate cancer cells suggests a role in regulating secretion.
Published in:
Nucleic Acids Research, 2012, v. 40, n. 8, p. 3538, doi. 10.1093/nar/gkr1219
By:
- Little, Gillian H.;
- Noushmehr, Houtan;
- Baniwal, Sanjeev K.;
- Berman, Benjamin P.;
- Coetzee, Gerhard A.;
- Frenkel, Baruch
Publication type:
Article
Regions of focal DNA hypermethylation and long-range hypomethylation in colorectal cancer coincide with nuclear lamina-associated domains.
Published in:
Nature Genetics, 2012, v. 44, n. 1, p. 40, doi. 10.1038/ng.969
By:
- Berman, Benjamin P;
- Weisenberger, Daniel J;
- Aman, Joseph F;
- Hinoue, Toshinori;
- Ramjan, Zachary;
- Liu, Yaping;
- Noushmehr, Houtan;
- Lange, Christopher P E;
- van Dijk, Cornelis M;
- Tollenaar, Rob A E M;
- Van Den Berg, David;
- Laird, Peter W
Publication type:
Article
Comprehensive Functional Annotation of Seventy-One Breast Cancer Risk Loci
Published in:
PLoS ONE, 2013, v. 8, n. 5, p. 1, doi. 10.1371/journal.pone.0063925
By:
- Rhie, Suhn Kyong;
- Coetzee, Simon G.;
- Noushmehr, Houtan;
- Yan, Chunli;
- Kim, Jae Mun;
- Haiman, Christopher A.;
- Coetzee, Gerhard A.
Publication type:
Article
DNA methylation-based signatures classify sporadic pituitary tumors according to clinicopathological features.
Published in:
Neuro-Oncology, 2021, v. 23, n. 8, p. 1292, doi. 10.1093/neuonc/noab044
By:
- Mosella, Maritza S;
- Sabedot, Thais S;
- Silva, Tiago C;
- Malta, Tathiane M;
- Dezem, Felipe Segato;
- Asmaro, Karam P;
- Wells, Michael;
- Mukherjee, Abir;
- Poisson, Laila M;
- Snyder, James;
- deCarvalho, Ana C;
- Walbert, Tobias;
- Aho, Todd;
- Kalkanis, Steven;
- Elias, Paula C;
- Antonini, Sonir R;
- Rock, Jack;
- Noushmehr, Houtan;
- Castro, Margaret;
- Castro, Ana Valeria
Publication type:
Article
Combined epigenetic signature and gene copy number variations in IDH-mutant glioblastomas showed varied risk stratification.
Published in:
Neuro-Oncology, 2019, v. 21, p. 2, doi. 10.1093/neuonc/noz167.006
By:
- Ng, Ho Keung;
- Li, Kay Ka-Wai;
- Malta, Tathiane M;
- Shi, Zhi-feng;
- Noushmehr, Houtan
Publication type:
Article
DNA methylation profiling to predict recurrence risk in meningioma: development and validation of a nomogram to optimize clinical management.
Published in:
Neuro-Oncology, 2019, v. 21, n. 7, p. 901, doi. 10.1093/neuonc/noz061
By:
- Nassiri, Farshad;
- Mamatjan, Yasin;
- Suppiah, Suganth;
- Badhiwala, Jetan H;
- Mansouri, Sheila;
- Karimi, Shirin;
- Saarela, Olli;
- Poisson, Laila;
- Gepfner-Tuma, Irina;
- Schittenhelm, Jens;
- Ng, Ho-Keung;
- Noushmehr, Houtan;
- Harter, Patrick;
- Baumgarten, Peter;
- Weller, Michael;
- Preusser, Matthias;
- Herold-Mende, Christel;
- Tatagiba, Marcos;
- Tabatabai, Ghazaleh;
- Sahm, Felix
Publication type:
Article
Molecular and translational advances in meningiomas.
Published in:
Neuro-Oncology, 2019, v. 21, p. i4, doi. 10.1093/neuonc/noy178
By:
- Suppiah, Suganth;
- Nassiri, Farshad;
- Bi, Wenya Linda;
- Dunn, Ian F;
- Hanemann, Clemens Oliver;
- Horbinski, Craig M;
- Hashizume, Rintaro;
- James, Charles David;
- Mawrin, Christian;
- Noushmehr, Houtan;
- Perry, Arie;
- Sahm, Felix;
- Sloan, Andrew;
- Deimling, Andreas Von;
- Wen, Patrick Y;
- Aldape, Kenneth;
- Zadeh, Gelareh;
- Meningiomas, International Consortium on
Publication type:
Article
GENE-13. GENOMIC FUNCTIONAL ENHANCERS DEFINE POTENTIAL TUMORIGENESIS OF G-CIMP-LOW (IDH-MUTANT ASTROCYTOMA) TUMORS INDEPENDENT OF PROMOTER METHYLATION.
Published in:
Neuro-Oncology, 2018, v. 20, p. vi105, doi. 10.1093/neuonc/noy148.439
By:
- Sabedot, Thais;
- deCarvalho, Ana;
- Poisson, Laila;
- Snyder, James;
- Walbert, Tobias;
- Lee, Ian;
- Kalkanis, Steven;
- Berman, Benjamin;
- Noushmehr, Houtan
Publication type:
Article
Molecular landscape of IDH‐wild type, pTERT‐wild type adult glioblastomas.
Published in:
Brain Pathology, 2022, v. 32, n. 6, p. 1, doi. 10.1111/bpa.13107
By:
- Liu, Emma Munan;
- Shi, Zhi‐Feng;
- Li, Kay Ka‐Wai;
- Malta, Tathiane M.;
- Chung, Nellie Yuk‐Fei;
- Chen, Hong;
- Chan, Janice Yuen‐Tung;
- Poon, Manix Fung‐Man;
- Kwan, Johnny Sheung‐Him;
- Chan, Danny Tat‐Ming;
- Noushmehr, Houtan;
- Mao, Ying;
- Ng, Ho‐Keung
Publication type:
Article
Expression and regulatory roles of lncRNAs in G-CIMP-low vs G-CIMP-high Glioma: an in-silico analysis.
Published in:
2021
By:
- Datta, Indrani;
- Noushmehr, Houtan;
- Brodie, Chaya;
- Poisson, Laila M.
Publication type:
journal article
Noninvasive approaches to detect methylation-based markers to monitor gliomas.
Published in:
Neuro-Oncology Advances, 2022, v. 4, p. 22, doi. 10.1093/noajnl/vdac021
By:
- Noushmehr, Houtan;
- Herrgott, Grayson;
- Morosini, Natalia S.;
- Castro, Ana Valeria
Publication type:
Article
Unmet need for liquid biomarkers and the Brain-Liquid Biopsy Consortium.
Published in:
Neuro-Oncology Advances, 2022, v. 4, p. 1, doi. 10.1093/noajnl/vdac020
By:
- Short, Susan C.;
- Noushmehr, Houtan
Publication type:
Article
Cell-type-specific enrichment of risk-associated regulatory elements at ovarian cancer susceptibility loci.
Published in:
Human Molecular Genetics, 2015, v. 24, n. 13, p. 3595, doi. 10.1093/hmg/ddv101
By:
- Coetzee, Simon G.;
- Shen, Howard C.;
- Hazelett, Dennis J.;
- Lawrenson, Kate;
- Kuchenbaecker, Karoline;
- Tyrer, Jonathan;
- Rhie, Suhn K.;
- Levanon, Keren;
- Karst, Alison;
- Drapkin, Ronny;
- Ramus, Susan J.;
- Couch, Fergus J.;
- Offit, Kenneth;
- Chenevix-Trench, Georgia;
- Monteiro, Alvaro N. A.;
- Antoniou, Antonis;
- Freedman, Matthew;
- Coetzee, Gerhard A.;
- Pharoah, Paul D. P.;
- Noushmehr, Houtan
Publication type:
Article
Identification and characterization of functional risk variants for colorectal cancer mapping to chromosome 11q23.1.
Published in:
Human Molecular Genetics, 2014, v. 23, n. 8, p. 2198, doi. 10.1093/hmg/ddt584
By:
- Biancolella, Michela;
- Fortini, Barbara K.;
- Tring, Stephanie;
- Plummer, Sarah J.;
- Mendoza-Fandino, Gustavo A.;
- Hartiala, Jaana;
- Hitchler, Michael J.;
- Yan, Chunli;
- Schumacher, Fredrick R.;
- Conti, David V.;
- Edlund, Christopher K.;
- Noushmehr, Houtan;
- Coetzee, Simon G.;
- Bresalier, Robert S.;
- Ahnen, Dennis J.;
- Barry, Elizabeth L.;
- Berman, Benjamin P.;
- Rice, Judd C.;
- Coetzee, Gerhard A.;
- Casey, Graham
Publication type:
Article
Machine Learning Applications in the Neuro ICU: A Solution to Big Data Mayhem?
Published in:
Frontiers in Neurology, 2020, v. 11, p. N.PAG, doi. 10.3389/fneur.2020.554633
By:
- Chaudhry, Farhan;
- Hunt, Rachel J.;
- Hariharan, Prashant;
- Anand, Sharath Kumar;
- Sanjay, Surya;
- Kjoller, Ellen E.;
- Bartlett, Connor M.;
- Johnson, Kipp W.;
- Levy, Phillip D.;
- Noushmehr, Houtan;
- Lee, Ian Y.
Publication type:
Article
Fatty acid translocase (FAT/CD36) is localized on insulin-containing granules in human pancreatic beta-cells and mediates fatty acid effects on insulin secretion.
Published in:
2005
By:
- Noushmehr, Houtan;
- D'Amico, Eugenio;
- Farilla, Loredana;
- Hui, Hongxiang;
- Wawrowsky, Kolja A.;
- Mlynarski, Wojciech;
- Doria, Alessandro;
- Abumrad, Nada A.;
- Perfetti, Riccardo
Publication type:
journal article
Exploring the cancer methylome.
Published in:
2012
By:
- Berman, Benjamin P.;
- Weisenberger, Daniel J.;
- Hinoue, Toshinori;
- Noushmehr, Houtan;
- Liu, Yaping;
- Aman, Joseph F.;
- Hui Shen;
- Malik, Simeen;
- Mahurkar, Swapna;
- Triche Jr, Timothy;
- Ramjan, Zachary;
- Nicolet, Charles M.;
- Den Berg, David Van;
- Cope, Leslie;
- Herman, James G.;
- Baylin, Stephen B.;
- Laird, Peter W.
Publication type:
Abstract
Comprehensive Functional Annotation of 77 Prostate Cancer Risk Loci.
Published in:
PLoS Genetics, 2014, v. 10, n. 1, p. 1, doi. 10.1371/journal.pgen.1004102
By:
- Hazelett, Dennis J.;
- Rhie, Suhn Kyong;
- Gaddis, Malaina;
- Yan, Chunli;
- Lakeland, Daniel L.;
- Coetzee, Simon G.;
- Henderson, Brian E.;
- Noushmehr, Houtan;
- Cozen, Wendy;
- Kote-Jarai, Zsofia;
- Eeles, Rosalind A.;
- Easton, Douglas F.;
- Haiman, Christopher A.;
- Lu, Wange;
- Farnham, Peggy J.;
- Coetzee, Gerhard A.
Publication type:
Article
Gene Reactivation by 5-Aza-2'-Deoxycytidine--Induced Demethylation Requires SRCAP--Mediated H2A.Z Insertion to Establish Nucleosome Depleted Regions.
Published in:
PLoS Genetics, 2012, v. 8, n. 3, p. 1, doi. 10.1371/journal.pgen.1002604
By:
- Xiaojing Yang;
- Noushmehr, Houtan;
- Han Han;
- Andreu-Vieyra, Claudia;
- Gangning Liang;
- Jones, Peter A.
Publication type:
Article
Hemizygous CDKN2A deletion confers worse survival outcomes in IDHmut-noncodel gliomas.
Published in:
Neuro-Oncology, 2023, v. 25, n. 9, p. 1721, doi. 10.1093/neuonc/noad095
By:
- Kocakavuk, Emre;
- Johnson, Kevin C;
- Sabedot, Thais S;
- Reinhardt, Hans Christian;
- Noushmehr, Houtan;
- Verhaak, Roel G W
Publication type:
Article
Nucleosome positioning and histone modifications define relationships between regulatory elements and nearby gene expression in breast epithelial cells.
Published in:
BMC Genomics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2164-15-331
By:
- Suhn Kyong Rhie;
- Hazelett, Dennis J.;
- Coetzee, Simon G.;
- Yan, Chunli;
- Noushmehr, Houtan;
- Coetzee, Gerhard A.
Publication type:
Article
New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx.
Published in:
PLoS Computational Biology, 2019, v. 15, n. 3, p. 1, doi. 10.1371/journal.pcbi.1006701
By:
- Mounir, Mohamed;
- Lucchetta, Marta;
- Silva, Tiago C.;
- Olsen, Catharina;
- Bontempi, Gianluca;
- Chen, Xi;
- Noushmehr, Houtan;
- Colaprico, Antonio;
- Papaleo, Elena
Publication type:
Article
ELMER v.2: an R/Bioconductor package to reconstruct gene regulatory networks from DNA methylation and transcriptome profiles.
Published in:
Bioinformatics, 2019, v. 35, n. 11, p. 1974, doi. 10.1093/bioinformatics/bty902
By:
- Silva, Tiago C;
- Coetzee, Simon G;
- Gull, Nicole;
- Yao, Lijing;
- Hazelett, Dennis J;
- Noushmehr, Houtan;
- Lin, De-Chen;
- Berman, Benjamin P
Publication type:
Article
Interpreting pathways to discover cancer driver genes with Moonlight.
Published in:
Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-019-13803-0
By:
- Colaprico, Antonio;
- Olsen, Catharina;
- Bailey, Matthew H.;
- Odom, Gabriel J.;
- Terkelsen, Thilde;
- Silva, Tiago C.;
- Olsen, André V.;
- Cantini, Laura;
- Zinovyev, Andrei;
- Barillot, Emmanuel;
- Noushmehr, Houtan;
- Bertoli, Gloria;
- Castiglioni, Isabella;
- Cava, Claudia;
- Bontempi, Gianluca;
- Chen, Xi Steven;
- Papaleo, Elena
Publication type:
Article
Optimizing exosomal RNA isolation for RNA-Seq analyses of archival sera specimens.
Published in:
PLoS ONE, 2018, v. 13, n. 5, p. 1, doi. 10.1371/journal.pone.0196913
By:
- Prendergast, Emily N.;
- de Souza Fonseca, Marcos Abraão;
- Dezem, Felipe Segato;
- Lester, Jenny;
- Karlan, Beth Y.;
- Noushmehr, Houtan;
- Lin, Xianzhi;
- Lawrenson, Kate
Publication type:
Article

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