Marc Hafner

Marc Hafner

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Marc Hafner

Marc Hafner

Publications by authors named "Marc Hafner"

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Multiomics Profiling Establishes the Polypharmacology of FDA-Approved CDK4/6 Inhibitors and the Potential for Differential Clinical Activity.

Cell Chem Biol 2019 Aug 6;26(8):1067-1080.e8. Epub 2019 Jun 6.

Laboratory of Systems Pharmacology, Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.chembiol.2019.05.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6936329PMC
August 2019

A multitargeted probe-based strategy to identify signaling vulnerabilities in cancers.

J Biol Chem 2019 05 11;294(21):8664-8673. Epub 2019 Mar 11.

Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115

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http://www.jbc.org/lookup/doi/10.1074/jbc.RA118.006805
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http://dx.doi.org/10.1074/jbc.RA118.006805DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6544847PMC
May 2019

Cheminformatics Tools for Analyzing and Designing Optimized Small-Molecule Collections and Libraries.

Cell Chem Biol 2019 05 4;26(5):765-777.e3. Epub 2019 Apr 4.

HMS LINCS and Druggable Genome Centers, Laboratory of Systems Pharmacology, Harvard Program in Therapeutic Science, Harvard Medical School, Warren Alpert 444, 200 Longwood Avenue, Boston, MA 02115, USA; Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.chembiol.2019.02.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6526536PMC
May 2019

The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.

Authors:
Alexandra B Keenan Sherry L Jenkins Kathleen M Jagodnik Simon Koplev Edward He Denis Torre Zichen Wang Anders B Dohlman Moshe C Silverstein Alexander Lachmann Maxim V Kuleshov Avi Ma'ayan Vasileios Stathias Raymond Terryn Daniel Cooper Michele Forlin Amar Koleti Dusica Vidovic Caty Chung Stephan C Schürer Jouzas Vasiliauskas Marcin Pilarczyk Behrouz Shamsaei Mehdi Fazel Yan Ren Wen Niu Nicholas A Clark Shana White Naim Mahi Lixia Zhang Michal Kouril John F Reichard Siva Sivaganesan Mario Medvedovic Jaroslaw Meller Rick J Koch Marc R Birtwistle Ravi Iyengar Eric A Sobie Evren U Azeloglu Julia Kaye Jeannette Osterloh Kelly Haston Jaslin Kalra Steve Finkbiener Jonathan Li Pamela Milani Miriam Adam Renan Escalante-Chong Karen Sachs Alex Lenail Divya Ramamoorthy Ernest Fraenkel Gavin Daigle Uzma Hussain Alyssa Coye Jeffrey Rothstein Dhruv Sareen Loren Ornelas Maria Banuelos Berhan Mandefro Ritchie Ho Clive N Svendsen Ryan G Lim Jennifer Stocksdale Malcolm S Casale Terri G Thompson Jie Wu Leslie M Thompson Victoria Dardov Vidya Venkatraman Andrea Matlock Jennifer E Van Eyk Jacob D Jaffe Malvina Papanastasiou Aravind Subramanian Todd R Golub Sean D Erickson Mohammad Fallahi-Sichani Marc Hafner Nathanael S Gray Jia-Ren Lin Caitlin E Mills Jeremy L Muhlich Mario Niepel Caroline E Shamu Elizabeth H Williams David Wrobel Peter K Sorger Laura M Heiser Joe W Gray James E Korkola Gordon B Mills Mark LaBarge Heidi S Feiler Mark A Dane Elmar Bucher Michel Nederlof Damir Sudar Sean Gross David F Kilburn Rebecca Smith Kaylyn Devlin Ron Margolis Leslie Derr Albert Lee Ajay Pillai

Cell Syst 2018 01 29;6(1):13-24. Epub 2017 Nov 29.

NIH, Bethesda, MD 20892, USA.

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http://dx.doi.org/10.1016/j.cels.2017.11.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5799026PMC
January 2018

Quantification of sensitivity and resistance of breast cancer cell lines to anti-cancer drugs using GR metrics.

Sci Data 2017 11 7;4:170166. Epub 2017 Nov 7.

HMS LINCS Center, Laboratory of Systems Pharmacology, Department of Systems Biology, Harvard Medical School, Boston, MA 02115 USA.

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http://dx.doi.org/10.1038/sdata.2017.166DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5674849PMC
November 2017

GRcalculator: an online tool for calculating and mining dose-response data.

BMC Cancer 2017 Oct 24;17(1):698. Epub 2017 Oct 24.

LINCS-BD2K DCIC, Division of Biostatistics and Bioinformatics, Department of Environmental Health, University of Cincinnati, Cincinnati, OH, 45221, USA.

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http://dx.doi.org/10.1186/s12885-017-3689-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5655815PMC
October 2017

Common and cell-type specific responses to anti-cancer drugs revealed by high throughput transcript profiling.

Nat Commun 2017 10 30;8(1):1186. Epub 2017 Oct 30.

HMS LINCS Center, Laboratory of Systems Pharmacology, Department of Systems Biology, Harvard Medical School, Boston, MA, 02115, USA.

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http://dx.doi.org/10.1038/s41467-017-01383-wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5662764PMC
October 2017

Alternative drug sensitivity metrics improve preclinical cancer pharmacogenomics.

Nat Biotechnol 2017 06;35(6):500-502

HMS LINCS Center, Laboratory of Systems Pharmacology, Department of Systems Biology, Harvard Medical School, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nbt.3882DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5668135PMC
June 2017

Measuring Cancer Drug Sensitivity and Resistance in Cultured Cells.

Curr Protoc Chem Biol 2017 Jun 19;9(2):55-74. Epub 2017 Jun 19.

HMS LINCS Center, Laboratory of Systems Pharmacology, Department of Systems Biology, Harvard Medical School, Boston, Massachusetts.

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http://dx.doi.org/10.1002/cpch.21DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5538315PMC
June 2017

Designing Drug-Response Experiments and Quantifying their Results.

Curr Protoc Chem Biol 2017 Jun 19;9(2):96-116. Epub 2017 Jun 19.

HMS LINCS Center, Laboratory of Systems Pharmacology, Department of Systems Biology, Harvard Medical School, Boston, Massachusetts.

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http://dx.doi.org/10.1002/cpch.19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5729909PMC
June 2017

Systems Approaches to Cancer Biology.

Cancer Res 2016 12 18;76(23):6774-6777. Epub 2016 Nov 18.

Lombardi Comprehensive Cancer Center, Georgetown University Medical Center, Washington, District of Columbia.

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http://dx.doi.org/10.1158/0008-5472.CAN-16-1580DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5135591PMC
December 2016

Growth rate inhibition metrics correct for confounders in measuring sensitivity to cancer drugs.

Nat Methods 2016 06 2;13(6):521-7. Epub 2016 May 2.

HMS LINCS Center Laboratory of Systems Pharmacology, Department of Systems Biology, Harvard Medical School, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nmeth.3853DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4887336PMC
June 2016

A Quantitative Approach to Screen for Nephrotoxic Compounds In Vitro.

J Am Soc Nephrol 2016 Apr 10;27(4):1015-28. Epub 2015 Aug 10.

Laboratory of Systems Pharmacology, Harvard Program in Therapeutic Sciences, Harvard Medical School, Boston, Massachusetts; Renal Division, Department of Medicine, Brigham and Women's Hospital, Boston, Massachusetts; Department of Environmental Health, Harvard T.H. Chan School of Public Health, Boston, Massachusetts

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http://dx.doi.org/10.1681/ASN.2015010060DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4814182PMC
April 2016

Fractional killing arises from cell-to-cell variability in overcoming a caspase activity threshold.

Mol Syst Biol 2015 May 7;11(5):803. Epub 2015 May 7.

Department of Systems Biology, Harvard Medical School, Boston, MA, USA

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4461398PMC
http://dx.doi.org/10.15252/msb.20145584DOI Listing
May 2015

LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures.

Nucleic Acids Res 2014 Jul 6;42(Web Server issue):W449-60. Epub 2014 Jun 6.

Department of Pharmacology and Systems Therapeutics, Icahn School of Medicine at Mount Sinai, Systems Biology Center New York (SBCNY), One Gustave L. Levy Place, New York, NY 10029, USA

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http://dx.doi.org/10.1093/nar/gku476DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086130PMC
July 2014

Analysis of growth factor signaling in genetically diverse breast cancer lines.

BMC Biol 2014 Mar 21;12:20. Epub 2014 Mar 21.

HMS LINCS Center, Department of Systems Biology, Harvard Medical School, 200 Longwood Ave, WAB 444, Boston, MA 02115, USA.

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http://dx.doi.org/10.1186/1741-7007-12-20DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4234128PMC
March 2014

Profiles of Basal and stimulated receptor signaling networks predict drug response in breast cancer lines.

Sci Signal 2013 Sep 24;6(294):ra84. Epub 2013 Sep 24.

HMS LINCS Center Department of Systems Biology Harvard Medical School Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1126/scisignal.2004379DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3845839PMC
September 2013

Modular design of artificial tissue homeostasis: robust control through synthetic cellular heterogeneity.

PLoS Comput Biol 2012 19;8(7):e1002579. Epub 2012 Jul 19.

Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States of America.

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http://dx.doi.org/10.1371/journal.pcbi.1002579DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3400602PMC
January 2013

Effect of network architecture on synchronization and entrainment properties of the circadian oscillations in the suprachiasmatic nucleus.

PLoS Comput Biol 2012 8;8(3):e1002419. Epub 2012 Mar 8.

Laboratory of Nonlinear Systems, School of Computer and Communication Sciences, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1371/journal.pcbi.1002419DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3297560PMC
June 2012

Explaining the length threshold of polyglutamine aggregation.

J Phys Condens Matter 2012 Jun 18;24(24):244105. Epub 2012 May 18.

Laboratory of Statistical Biophysics, ITP SB EPFL, Lausanne, Switzerland.

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http://dx.doi.org/10.1088/0953-8984/24/24/244105DOI Listing
June 2012

Efficient characterization of high-dimensional parameter spaces for systems biology.

BMC Syst Biol 2011 Sep 15;5:142. Epub 2011 Sep 15.

Department of Biochemistry, University of Zurich, Zurich, Switzerland.

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http://dx.doi.org/10.1186/1752-0509-5-142DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3201035PMC
September 2011

'Glocal' robustness analysis and model discrimination for circadian oscillators.

PLoS Comput Biol 2009 Oct 16;5(10):e1000534. Epub 2009 Oct 16.

School of Computer and Communication Sciences, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.

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http://dx.doi.org/10.1371/journal.pcbi.1000534DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2758577PMC
October 2009