Murphy Lab

Research
 Projects
 Publications
 Software
 Presentations
 Flow Cytometry

Services
 PSLID
 SLIF
 Waldo

Data
 Download

Affiliations
 Carnegie Mellon University
 Lane Center for Computational Biology
 Center for Bioimage Informatics
 Biological Sciences Department
 Biomedical Engineering Department
 Machine Learning Department
 MBIC

Murphy Lab - Information

The People of Murphy Lab

• Taraz Buck, Joint CMU-Pitt Ph.D. program in Computational Biology
• Armaghan Naik, Joint CMU-Pitt Ph.D. program in Computational Biology
• Aparna Kumar, Joint CMU-Pitt Ph.D. program in Computational Biology
• Devin Sullivan, Joint CMU-Pitt Ph.D. program in Computational Biology
• Gregory Johnson, Joint CMU-Pitt Ph.D. program in Computational Biology
• Santosh Bhavani, Joint CMU-Pitt Ph.D. program in Computational Biology

• Arun Sampath, Biomedical Engineering M.S. program

• Jennifer Bakal
• Ivan Cao-Berg

Post-doctoral Research Associates

Baek-Hwan Cho (2009-2012; supported by Korea Research Foundation) Research Staff, Samsung Advanced Institute of Technology, 2012- Arvind Rao (Lane Fellow, 2008-2011) Assistant Professor, Department of Bioinformatics and Computational Biology, M.D. Anderson Cancer Center, 2011- Russell Wilson Chief Science Officer, Autoimmune Technologies, LLC Peter Kulakosky Autoimmune Technologies, LLC

Graduate Students

• Joshua D. Kangas, Ph.D. Computational Biology (2013)
  • Cofounder and Chief Science Officer, Quantitative Medicine, LLC
• Jieyue Li, Ph.D. Biomedical Enginnering (2012)
  • Machine Learning Expert, ZestFinance, Los Angeles, CA
• Aabid Shariff, Ph.D. Computational Biology (2012) (Jointly advised with Gustavo Rohde)
  • Senior Scientist, Image Analysis and Computational Biology, GrassRoots Biotechnology, Durham, NC
• Luis Pedro Coelho, Ph.D., Computational Biology (2011)
  • Postdoctoral fellow, Musa M. Mhlanga group, Council for Scientific and Industrial Research, South Africa and University of Lisbon, Portugal
• Tao Peng, Ph.D., Biomedical Engineering (2011)
  • Software Engineer, Bing Indexing and Knowledge team, Microsoft, Bellevue, Washington, 2011-
• Tien-ho (Henry) Lin, Ph.D., Language Technologies (2011) (Jointly advised with Ziv Bar-Joseph)
  • Postdoctoral Fellow, eScience group, Microsoft Research, Los Angeles, California, 2011-
• Justin Newberg, Ph.D., Biomedical Engineering (2009)
  • Postdoctoral Fellow, Michael Mancini group, Baylor College of Medicine, 2009-2012
  • Postdoctoral Fellow, Neil Copeland and Nancy Jenkins Lab, Methodist Hospital Research Institute, 2012-
• Ivan Cao-Berg, M.S., Computational Biology (2009)
  • Research Programmer, Ray & Stephanie Lane Center for Computational Biology, 2010-
• Elvira Garcia Osuna, Ph.D. Biomedical Engineering (2007)
  • Special Lecturer, Ray & Stephanie Lane Center for Computational Biology, Carnegie Mellon University, 2007-2009
  • Postdoctoral Fellow, Phil Campbell Group, Carnegie Mellon University, 2009-
• Shann-Ching Chen, Ph.D. Biomedical Engineering (2007)
  • Bioinformatics Associate Research Scientist, St. Jude Children's Research Hospital, 2009-present
  • Postdoctoral Fellow, Gaudenz Danuser group, Scripps Research Institute, 2007-2009
• Ting Zhao, Ph.D. Biomedical Engineering (2007)
  • Postdoctoral Fellow, Eugene W. Myers group, Janelia Farm Research Campus, Howard Hughes Medical Institute, 2007-2009
  • Assistant Professor, Qiushi Academy for Advanced Studies, Zhejiang University
• Yanhua Hu, Ph.D., Biological Sciences (2007)
  • Research Investigator, Applied Biotechnology-Genomics, Bristol-Myers Squibb
• Juchang Hua, Ph.D., Biological Sciences (2007), M.S. Computational and Statistical Learning (2006)
  • Associate, Core Strategies group, Equities Division, Goldman Sachs Group, Inc.
• Amol Shanbhag, M.S. Biomedical Engineering (2006)
  Microsoft
• Xiang Chen, Ph.D. Biological Sciences (2005), M.S. Computational and Statistical Learning (2005)
  • Postdoctoral fellow, Yale Collaborative Center for Statistics in Science
• Kai Huang, Ph.D., Biological Sciences (2004), M.S. Computational and Statistical Learning (2003)
  • Associate, Fixed Income and Derivatives Department, Credit Suisse First Boston, New York
• Meel Velliste, Ph.D., Biomedical Engineering (2002)
  • Postdoctoral fellow, Schwartz lab, Department of Neurobiology, University of Pittsburgh
• Edward J.S. Roques, M.S., Computational Biology (2001)
  • Software Engineer, Atto Bioscience
• E. John Meharra, Ph.D., Biological Sciences (2001, posthumous)
• Michael V. Boland, Ph.D., Biomedical Engineering (1999)
  • Assistant Professor, Wilmer Ophthalmological Institute, Johns Hopkins University
  • Resident, Department of Ophthalmology and Visual Sciences, University of Iowa, 2001-2005
  • MD/PhD Student - University of Pittsburgh School of Medicine and Carnegie Mellon University
• Sheree Rybak, Ph.D., Biological Sciences (1997)
  • Attorney, Klarquist Sparkman Campbell Leigh & Whinston, LLP, Portland, OR
  • Technical Consultant, Klarquist Sparkman Campbell Leigh & Whinston, LLP, Portland, OR
  • Postdoctoral Fellow, Gary Thomas, Vollum Institute, Oregon Health Sciences University
• Sandra Brockman, Ph.D., Biological Sciences (1994)
  • Associate, Proskauer Rose LLP, Boston, MA, 2005-
  • Associate, Hamilton, Brook, Smith & Reynolds, P.C., Boston, MA, 2003-2005
  • Technical Specialist, Hamilton, Brook, Smith & Reynolds, P.C., Boston, MA, 1996-2003
  • Postdoctoral Fellow, Harvey Lodish, Whitehead Institute, MIT
• David Sipe, Ph.D., Biological Sciences (1990)
  • Researcher, Minden lab, Carnegie Mellon University
  • Senior Scientist, Gull Labs, Inc., Salt Lake City, UT
• Cynthia Corley (Cain) Mastick, Ph.D., Biological Sciences (1990)
  • Associate Professor, University of Nevada, Reno, 2003-present
  • Assistant Professor, University of Nevada, Reno
  • Postdoctoral Fellow, Alan Saltiel, Parke-Davis Pharmaceutical Research Division
  • Postdoctoral Fellow, Gus Lienhard, Dartmouth University
• Mario Roederer, Ph.D., Biological Sciences (1988)
  • Director, Flow Cytometry Core Facility, Vaccine Reserch Center, NIAID, NIH, 2000-present
  • Postdoctoral Fellow, then Senior Postdoctoral Fellow, then Research Associate, Herzenberg Laboratory, Stanford University School of Medicine, Palo Alto, CA, 1988-2000

Visiting Graduate Students

• Johannes Schmid, February 1993-March 1993, Dept. General & Experimental Pathology, University Vienna (Dr. Renate Fuchs)
  • Ao. Univ. Prof. DI., Dept. Vascular Biology & Thrombosis Research, University of Vienna
• Daniela Schober, Dept. General & Experimental Pathology, University Vienna (Dr. Renate Fuchs)

Undergraduate Students

2014 Stephanie Luck Vilcya Wirantana Isaac Jones
2013 Xuexia Jiang Ling-Yi Kung John Sexton Patrick Im	2009 Brian Granger
2007 Alex Hu Kyle Chang	2006 Eva Goellner Andy Hsieh
2004 Esther Kieserman	2003 Batul Merchant Richard Wang
2002 Jennifer Lin Grad. School - Duke Univ, Biochemistry	2001 James Gajnak
1999 Lindsay Jorgensen Grad. School - Johns Hopkins Univ Pairadeau Mars Mark Roden Intelligent Imaging Innovations, Inc.	1998 Eric Holowka Mia Markey, Ph.D. Assistant Professor, Biomedical Engineering, Univ Texas Austin Ph.D., Biomedical Engineering, 2002, Duke Univ Tanya Teslovich Mary Yang
1997 Bryan Lewis The Peace Corps Sarah Pacocha Julie Park Niraj Patel	1996 Jennifer Schwartz Grad. School - Columbia Sarah Broadley Grad. School - Cornell
1995 Jennifer Wightman	1994 Mirella Bucci, Ph.D. Associate Editor, Nature, 2002-present Postdoctoral fellow, 1999-2002, Kopito lab, Stanford Univ Ph.D., Biology, 1999, Wente lab, Washington Univ
1993 Andrea Dent, M.S. President, 1-800-CTO M.S., Computer Science, Villanova Univ	1987 Robert Bowser, Ph.D. Associate Professor, Department of Pathology, University of Pittsburgh Post Doc, Albert Einstein College of Medicine Ph.D., Section of Cell Biology, Yale University Robert Mays, Ph.D. Director of Cell Biology, Athersys, Inc. Ph.D., Stanford University Kevin Ryan Senior Project Manager, MediaCybernetics
1986 Neal Gliksman, Ph.D. Senior Application Scientist, Screening Division, Universal Imaging Corp Post Doc - Duke Univ, Dept Cell Biology Grad School - Univ North Carolina, Chapel Hill (Salmon lab) Michele Keane-Moore Senior Consultant, Biologics Consulting Group, Inc. (2003-present) Post Doc - Johns Hopkins School of Medicine, Department of Medicine, Division of Rheumatology (1994-1997) Grad School - Johns Hopkins School of Hygiene and Public Health, Department of Immunology and Infectious Disease (1988-1994)
SURP Students Evan Cesanek (2012) Orhan Ayasli (2005) Eva Goellner (2005) Andy Hsieh (2005) Alexander Hu (2005) John Sheridan (2005) Ajay Surie (2004) Julianna Conde-Adorno (2003) Stalia Soto (2002) Gregory Porreca (2001) Adrienne Wells (2000) Carlos De-Juan Ruffin (1999) Bill Dirks (1997, 1998) Mia Markey (1996) Heather O'Hagan (1996) Jennifer Slack (1994)	SUREBET Students Ivan Cao Berg, Universidad Metropolitana (2005) Jesus Carmona, Universidad Metroplitana (2005) Lori Dansie, California State University San Bernadino (2005) Verleen McSween, University of the Virgin Islands (2005) Amber Reed, University of California Irvine (2005) Stalia Soto, Universidad Metropolitana (2005) Julianna Conde-Adorno, Universidad Metropolitana (2004) Alexander David, University of the Virgin Islands (2004) Danielle Izaak, University of the Virgin Islands (2004) Yenixsa Rivera-Sierra, Universidad Metropolitana (2004)

Technicians and Staff

Heather Bourdeau Clark Brown Mathew Joffe Amy Kennedy Greg LaRocca Julie Scott Saboor Sheikh Suzanne Spilsbury