Florian P Breitwieser

Florian P Breitwieser

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Florian P Breitwieser

Florian P Breitwieser

Publications by authors named "Florian P Breitwieser"

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30Publications

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Pavian: interactive analysis of metagenomics data for microbiome studies and pathogen identification.

Bioinformatics 2020 Feb;36(4):1303-1304

Departments of Biomedical Engineering, Computer Science and Biostatistics, Johns Hopkins University, Baltimore, MD, USA.

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http://dx.doi.org/10.1093/bioinformatics/btz715DOI Listing
February 2020

Human contamination in bacterial genomes has created thousands of spurious proteins.

Genome Res 2019 06 7;29(6):954-960. Epub 2019 May 7.

Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins School of Medicine, Baltimore, Maryland 21205, USA.

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http://dx.doi.org/10.1101/gr.245373.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6581058PMC
June 2019

CHESS: a new human gene catalog curated from thousands of large-scale RNA sequencing experiments reveals extensive transcriptional noise.

Genome Biol 2018 11 28;19(1):208. Epub 2018 Nov 28.

Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD, USA.

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http://dx.doi.org/10.1186/s13059-018-1590-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6260756PMC
November 2018

Identifying Corneal Infections in Formalin-Fixed Specimens Using Next Generation Sequencing.

Invest Ophthalmol Vis Sci 2018 01;59(1):280-288

Department of Pathology, Johns Hopkins University, Baltimore, Maryland, United States.

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http://dx.doi.org/10.1167/iovs.17-21617DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5770184PMC
January 2018

Presence of Human Hepegivirus-1 in a Cohort of People Who Inject Drugs.

Ann Intern Med 2017 Jul 6;167(1):1-7. Epub 2017 Jun 6.

From Johns Hopkins University and Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland.

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http://dx.doi.org/10.7326/M17-0085DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5721525PMC
July 2017

Intracellular HIV-1 RNA and CD4+ T-cell activation in patients starting antiretrovirals.

AIDS 2017 06;31(10):1405-1414

aDepartment of Medicine bMcKusick-Nathans Institute of Genetic Medicine,Center for Computational Biology cDepartment of Oncology, Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA.

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http://dx.doi.org/10.1097/QAD.0000000000001480DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5572749PMC
June 2017

Centrifuge: rapid and sensitive classification of metagenomic sequences.

Genome Res 2016 12 17;26(12):1721-1729. Epub 2016 Oct 17.

Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.

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http://dx.doi.org/10.1101/gr.210641.116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5131823PMC
December 2016

Next-generation sequencing in neuropathologic diagnosis of infections of the nervous system.

Neurol Neuroimmunol Neuroinflamm 2016 Aug 13;3(4):e251. Epub 2016 Jun 13.

Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine (S.L.S., F.P.B.), Department of Neurology (A.K., C.A.P.), Deep Sequencing and Microarray Core (H.H.), and Departments of Pathology (P.B., F.J.R., C.A.P.), Neurosurgery (M.L., A.Q.-H., G.L.G.), and Medicine (J.A.T., M.T.M., C.L.S.), School of Medicine, and Departments of Biomedical Engineering, Computer Science, and Biostatistics (S.L.S.), Johns Hopkins University, Baltimore, MD.

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http://dx.doi.org/10.1212/NXI.0000000000000251DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4907805PMC
August 2016

Re-analysis of metagenomic sequences from acute flaccid myelitis patients reveals alternatives to enterovirus D68 infection.

F1000Res 2015 2;4:180. Epub 2015 Jul 2.

Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins School of Medicine, Baltimore, MD, 21205, USA ; Departments of Biomedical Engineering, Computer Science, and Biostatistics, Johns Hopkins University, Baltimore, MD, 21218, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4536609PMC
http://dx.doi.org/10.12688/f1000research.6743.2DOI Listing
August 2015

The Lipid-Modifying Enzyme SMPDL3B Negatively Regulates Innate Immunity.

Cell Rep 2015 Jun 18;11(12):1919-28. Epub 2015 Jun 18.

CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, 1090 Vienna, Austria; Center for Physiology and Pharmacology, Medical University of Vienna, 1090 Vienna, Austria. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2015.05.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4508342PMC
June 2015

Identification of kinase inhibitor targets in the lung cancer microenvironment by chemical and phosphoproteomics.

Mol Cancer Ther 2014 Nov 4;13(11):2751-62. Epub 2014 Sep 4.

Research Center for Molecular Medicine of the Austrian Academy of Sciences (CeMM), Vienna, Austria. Department of Drug Discovery, H. Lee Moffitt Cancer Center & Research Institute, Tampa, Florida.

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http://mct.aacrjournals.org/cgi/doi/10.1158/1535-7163.MCT-14
Publisher Site
http://dx.doi.org/10.1158/1535-7163.MCT-14-0152DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4221415PMC
November 2014

Building and exploring an integrated human kinase network: global organization and medical entry points.

J Proteomics 2014 Jul 3;107:113-27. Epub 2014 Apr 3.

CeMM-Research Center for Molecular Medicine of the Austrian Academy of Sciences, Lazarettgasse 14, AKH-BT 25.3, 1090, Vienna, Austria. Electronic address:

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http://dx.doi.org/10.1016/j.jprot.2014.03.028DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4115268PMC
July 2014

Comprehensive comparative and semiquantitative proteome of a very low number of native and matched epstein-barr-virus-transformed B lymphocytes infiltrating human melanoma.

J Proteome Res 2014 Jun 6;13(6):2830-45. Epub 2014 May 6.

Division of Immunology, Allergy and Infectious Diseases, Department of Dermatology, Medical University of Vienna , Waehringer Guertel 18-20, A-1090 Vienna, Austria.

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http://dx.doi.org/10.1021/pr401270yDOI Listing
June 2014

Isobar(PTM): a software tool for the quantitative analysis of post-translationally modified proteins.

J Proteomics 2013 Sep 5;90:77-84. Epub 2013 Mar 5.

CeMM - Research Center for Molecular Medicine of the Austrian Academy of Sciences, Lazarettgasse 14, AKH-BT. 25.3, 1090 Vienna, Austria.

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http://dx.doi.org/10.1016/j.jprot.2013.02.022DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3759844PMC
September 2013

General statistical modeling of data from protein relative expression isobaric tags.

J Proteome Res 2011 Jun 11;10(6):2758-66. Epub 2011 May 11.

CeMM , Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria.

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http://dx.doi.org/10.1021/pr1012784DOI Listing
June 2011

Initial characterization of the human central proteome.

BMC Syst Biol 2011 Jan 26;5:17. Epub 2011 Jan 26.

CeMM - Center for Molecular Medicine of the Austrian Academy of Sciences, Lazarettgasse 19/3, A-1090 Vienna, Austria.

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http://dx.doi.org/10.1186/1752-0509-5-17DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3039570PMC
January 2011

A computational approach to analyze the mechanism of action of the kinase inhibitor bafetinib.

PLoS Comput Biol 2010 Nov 18;6(11):e1001001. Epub 2010 Nov 18.

Research Center for Molecular Medicine of the Austrian Academy of Science, Vienna, Austria.

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http://dx.doi.org/10.1371/journal.pcbi.1001001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2987840PMC
November 2010

Acid elution and one-dimensional shotgun analysis on an Orbitrap mass spectrometer: an application to drug affinity chromatography.

J Proteome Res 2009 Oct;8(10):4753-65

Center for Molecular Medicine of the Austrian Academy of Sciences (CeMM), Lazarettgasse 19, 1090 Vienna, Austria.

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http://pubs.acs.org/doi/abs/10.1021/pr900455x
Publisher Site
http://dx.doi.org/10.1021/pr900455xDOI Listing
October 2009