Publications by authors named "Stefano Monti"

81Publications

β-Catenin/CBP inhibition alters epidermal growth factor receptor fucosylation status in oral squamous cell carcinoma.

Mol Omics 2020 06 23;16(3):195-209. Epub 2020 Mar 23.

Center for Biomedical Mass Spectrometry, Department of Biochemistry, Boston University School of Medicine, 670 Albany Street, rm 511, Boston, MA 02118, USA.

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http://dx.doi.org/10.1039/d0mo00009dDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7299767PMC
June 2020

Yap suppresses T-cell function and infiltration in the tumor microenvironment.

PLoS Biol 2020 01 13;18(1):e3000591. Epub 2020 Jan 13.

Department of Biochemistry, Boston University School of Medicine, Boston, Massachusetts, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.3000591DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6980695PMC
January 2020

Identification of candidate cancer drivers by integrative Epi-DNA and Gene Expression (iEDGE) data analysis.

Sci Rep 2019 11 15;9(1):16904. Epub 2019 Nov 15.

Division of Computational Biomedicine, Boston University School of Medicine, Boston, MA, 02118, USA.

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http://dx.doi.org/10.1038/s41598-019-52886-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6858347PMC
November 2019

hypeR: an R package for geneset enrichment workflows.

Bioinformatics 2020 02;36(4):1307-1308

Bioinformatics Department, Boston University, Boston, MA 02118, USA.

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http://dx.doi.org/10.1093/bioinformatics/btz700DOI Listing
February 2020

A serum protein signature of APOE genotypes in centenarians.

Aging Cell 2019 12 5;18(6):e13023. Epub 2019 Aug 5.

Geriatrics Section, Department of Medicine, School of Medicine and Boston Medical Center, Boston University, Boston, MA.

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http://dx.doi.org/10.1111/acel.13023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6826130PMC
December 2019

CaDrA: A Computational Framework for Performing Candidate Driver Analyses Using Genomic Features.

Front Genet 2019 19;10:121. Epub 2019 Feb 19.

Bioinformatics Program, Boston University, Boston, MA, United States.

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http://dx.doi.org/10.3389/fgene.2019.00121DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6390206PMC
February 2019

Tributyltin induces a transcriptional response without a brite adipocyte signature in adipocyte models.

Arch Toxicol 2018 09 19;92(9):2859-2874. Epub 2018 Jul 19.

Department of Environmental Health, Boston University School of Public Health, 715 Albany Street, R-405, Boston, MA, 02118, USA.

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http://dx.doi.org/10.1007/s00204-018-2268-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6815880PMC
September 2018

Towards Resolving the Pro- and Anti-Tumor Effects of the Aryl Hydrocarbon Receptor.

Int J Mol Sci 2018 May 7;19(5). Epub 2018 May 7.

Department of Environmental Health, Boston University School of Public Health, 72 East Concord St., Boston, MA 02118, USA.

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http://dx.doi.org/10.3390/ijms19051388DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5983651PMC
May 2018

Inhibition of LSD1 epigenetically attenuates oral cancer growth and metastasis.

Oncotarget 2017 Sep 27;8(43):73372-73386. Epub 2017 Jul 27.

Department of Molecular and Cell Biology, Boston University Henry M. Goldman School of Dental Medicine, Boston, MA, USA.

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http://dx.doi.org/10.18632/oncotarget.19637DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5650269PMC
September 2017

PPR polyadenylation factor defines mitochondrial mRNA identity and stability in trypanosomes.

EMBO J 2017 08 6;36(16):2435-2454. Epub 2017 Jul 6.

Department of Molecular and Cell Biology, Boston University School of Dental Medicine, Boston, MA, USA

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http://dx.doi.org/10.15252/embj.201796808DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5556272PMC
August 2017

Network-based analysis of transcriptional profiles from chemical perturbations experiments.

BMC Bioinformatics 2017 Mar 23;18(Suppl 5):130. Epub 2017 Mar 23.

Division of Computational Biomedicine, Boston University School of Medicine, 72 E Concord St, Boston, 02118, USA.

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http://dx.doi.org/10.1186/s12859-017-1536-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5374700PMC
March 2017

Thyroid Progenitors Are Robustly Derived from Embryonic Stem Cells through Transient, Developmental Stage-Specific Overexpression of Nkx2-1.

Stem Cell Reports 2017 02 2;8(2):216-225. Epub 2017 Feb 2.

Center for Regenerative Medicine, Boston Medical Center and Boston University, 670 Albany Street, 2nd Floor CReM, Boston, MA 02118, USA; The Pulmonary Center, Department of Medicine, Boston University School of Medicine, Boston, MA 02118, USA. Electronic address:

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http://dx.doi.org/10.1016/j.stemcr.2016.12.024DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5312259PMC
February 2017

An Aryl Hydrocarbon Receptor-Mediated Amplification Loop That Enforces Cell Migration in ER-/PR-/Her2- Human Breast Cancer Cells.

Mol Pharmacol 2016 Nov 29;90(5):674-688. Epub 2016 Aug 29.

Department of Environmental Health, Boston University School of Public Health, Boston, Massachusetts (O.N., Z.W., E.A.S., A.J.P., A.R.-C., D.H.S.); Boston University Molecular and Translational Medicine Program, Boston, Massachusetts (O.N., E.A.S.); Department of Medicine, Division of Computational Biomedicine, Boston University School of Medicine, Boston, Massachusetts (D.G., A.L., S.Mo.); Department of Pathology and Laboratory Medicine, Boston University School of Medicine, Boston, Massachusetts (E.L., I.L., C.S.-R.); and Department of Chemical and Biological Engineering, Tufts University, Medford, Massachusetts (S.Ma., K.L.)

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http://dx.doi.org/10.1124/mol.116.105361DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5074452PMC
November 2016

Learning Bayesian Networks from Correlated Data.

Sci Rep 2016 05 5;6:25156. Epub 2016 May 5.

Boston University, Department of Biostatistics, Boston, 02118, USA.

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http://dx.doi.org/10.1038/srep25156DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4857179PMC
May 2016

Altered RNA editing in 3' UTR perturbs microRNA-mediated regulation of oncogenes and tumor-suppressors.

Sci Rep 2016 Mar 16;6:23226. Epub 2016 Mar 16.

Computational Biomedicine, Boston University School of Medicine, Boston, 02118, MA, US.

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http://dx.doi.org/10.1038/srep23226DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4793219PMC
March 2016

Pulmonary sarcoidosis presenting with acute respiratory distress syndrome.

Ann Thorac Med 2016 Jan-Mar;11(1):79-81

Division of Pulmonology, Cardiothoracic Department, Spedali Civili Hospital of Brescia, Italy.

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http://dx.doi.org/10.4103/1817-1737.164301DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4748620PMC
March 2016

SimFuse: A Novel Fusion Simulator for RNA Sequencing (RNA-Seq) Data.

Biomed Res Int 2015 29;2015:780519. Epub 2015 Dec 29.

Bioinformatics, Boston University, Boston, MA 02215, USA; Section of Computational Biomedicine, Boston University, MA 02215, USA.

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http://dx.doi.org/10.1155/2015/780519DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4709598PMC
October 2016

Antisense Transcripts Delimit Exonucleolytic Activity of the Mitochondrial 3' Processome to Generate Guide RNAs.

Mol Cell 2016 Feb 28;61(3):364-378. Epub 2016 Jan 28.

Department of Molecular and Cell Biology, Boston University School of Dental Medicine, Boston, MA 02118, USA; Department of Biochemistry, Boston University School of Medicine, Boston, MA 02118, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.01.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4744118PMC
February 2016

ASSIGN: context-specific genomic profiling of multiple heterogeneous biological pathways.

Bioinformatics 2015 Jun 22;31(11):1745-53. Epub 2015 Jan 22.

Division of Computational Biomedicine, Boston University School of Medicine, Boston, MA 02118 USA, Department of Biomedical Informatics and Department of Pharmacology and Toxicology, University of Utah, Salt Lake City, UT 84112 USA Division of Computational Biomedicine, Boston University School of Medicine, Boston, MA 02118 USA, Department of Biomedical Informatics and Department of Pharmacology and Toxicology, University of Utah, Salt Lake City, UT 84112 USA.

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http://dx.doi.org/10.1093/bioinformatics/btv031DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4443674PMC
June 2015

Assessment of microRNA differential expression and detection in multiplexed small RNA sequencing data.

RNA 2015 Feb 17;21(2):164-71. Epub 2014 Dec 17.

Bioinformatics Graduate Program, Boston University, Boston, Massachusetts 02215, USA Section of Computational Biomedicine, Boston University Medical Center, Boston, Massachusetts 02118, USA Department of Pathology and Laboratory Medicine, Boston University School of Medicine, Boston, Massachusetts 02118, USA

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http://dx.doi.org/10.1261/rna.046060.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4338344PMC
February 2015

RNA binding and core complexes constitute the U-insertion/deletion editosome.

Mol Cell Biol 2014 Dec 15;34(23):4329-42. Epub 2014 Sep 15.

Department of Molecular and Cell Biology, Boston University Goldman School of Dental Medicine, Boston, Massachusetts, USA Department of Biochemistry, Boston University School of Medicine, Boston, Massachusetts, USA

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http://dx.doi.org/10.1128/MCB.01075-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4248751PMC
December 2014

Genomic models of short-term exposure accurately predict long-term chemical carcinogenicity and identify putative mechanisms of action.

PLoS One 2014 24;9(7):e102579. Epub 2014 Jul 24.

Bioinformatics Program, Boston University, Boston, Massachusetts, United States of America; Department of Computational Biomedicine, Boston University Medical Campus, Boston, Massachusetts, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0102579PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4109923PMC
April 2015

Selective JAK2 inhibition specifically decreases Hodgkin lymphoma and mediastinal large B-cell lymphoma growth in vitro and in vivo.

Clin Cancer Res 2014 May 7;20(10):2674-83. Epub 2014 Mar 7.

Authors' Affiliations: Medical Oncology, Dana-Farber Cancer Institute; Section of Computational Biomedicine, Boston University School of Medicine; and Department of Pathology, Brigham and Women's Hospital, Boston, Massachusetts

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http://clincancerres.aacrjournals.org/cgi/doi/10.1158/1078-0
Publisher Site
http://dx.doi.org/10.1158/1078-0432.CCR-13-3007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4084704PMC
May 2014

Induced pluripotent stem cell modeling of multisystemic, hereditary transthyretin amyloidosis.

Stem Cell Reports 2013 31;1(5):451-63. Epub 2013 Oct 31.

Sections of Hematology-Oncology and Computational Biomedicine, Departments of Medicine, Pathology and Laboratory Medicine, Boston University School of Medicine, Boston, MA 02118, USA ; Center for Regenerative Medicine, Boston University School of Medicine and Boston Medical Center, Boston, MA 02118, USA.

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http://www.cell.com/stem-cell-reports/pdf/S2213-6711(13)0009
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http://linkinghub.elsevier.com/retrieve/pii/S221367111300097
Publisher Site
http://dx.doi.org/10.1016/j.stemcr.2013.10.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3841264PMC
October 2015

The role of the aryl hydrocarbon receptor in normal and malignant B cell development.

Semin Immunopathol 2013 Nov 13;35(6):705-16. Epub 2013 Aug 13.

Department of Environmental Health, Boston University School of Public Health, 72 East Concord Street (R-408), Boston, MA, 02118, USA,

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http://dx.doi.org/10.1007/s00281-013-0390-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3824572PMC
November 2013

Genome-wide translocation sequencing reveals mechanisms of chromosome breaks and rearrangements in B cells.

Cell 2011 Sep;147(1):107-19

Howard Hughes Medical Institute, Immune Disease Institute, Program in Cellular and Molecular Medicine, Children's Hospital Boston and Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.cell.2011.07.049DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3186939PMC
September 2011

Transcriptional signature with differential expression of BCL6 target genes accurately identifies BCL6-dependent diffuse large B cell lymphomas.

Proc Natl Acad Sci U S A 2007 Feb 20;104(9):3207-12. Epub 2007 Feb 20.

Department of Developmental and Molecular Biology, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, NY 10461, USA.

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http://dx.doi.org/10.1073/pnas.0611399104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1805543PMC
February 2007

Comparative gene marker selection suite.

Bioinformatics 2006 Aug 18;22(15):1924-5. Epub 2006 May 18.

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1093/bioinformatics/btl196DOI Listing
August 2006

Inactivation of the PRDM1/BLIMP1 gene in diffuse large B cell lymphoma.

J Exp Med 2006 Feb;203(2):311-7

Institute for Cancer Genetics and 2The Herbert Irving Comprehensive Cancer Center, Columbia University, New York, NY 10032, USA.

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http://dx.doi.org/10.1084/jem.20052204DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2118216PMC
February 2006

Predicting dire outcomes of patients with community acquired pneumonia.

J Biomed Inform 2005 Oct 17;38(5):347-66. Epub 2005 Mar 17.

Center for Biomedical Informatics, University of Pittsburgh, Suite 8084 Forbes Tower, 200 Lothrop Street, Pittsburgh, PA 15213, USA.

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http://dx.doi.org/10.1016/j.jbi.2005.02.005DOI Listing
October 2005

[General practitioner and respiratory medicine specialist. A survey on the management of the asthmatic patient].

Recenti Prog Med 2003 Feb;94(2):57-60

Cattedra di Medicina Interna, Università degli Studi di Brescia, I Medicina, Spedali Civili, Brescia.

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February 2003

Identification of endoglin as a functional marker that defines long-term repopulating hematopoietic stem cells.

Proc Natl Acad Sci U S A 2002 Nov 15;99(24):15468-73. Epub 2002 Nov 15.

Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA.

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http://dx.doi.org/10.1073/pnas.202614899DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC137740PMC
November 2002