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He Group Members

He lab members: Yongqun He (Oliver), Jordan Rinder, Omar Tibi, Edison Ong, Noemi Garg, Bingjing Yang, Haihe Wang, Hong Yu.

Note: Picture taken in the UM Medical School, Ann Arbor, MI, on April 7, 2017. Some lab members are not in the picture.

More Hegroup Photos: 2017, 2016, 2015; 2014; 2013; before 2012.

CURRENT HE GROUP MEMBERS:

  • Edison Ong: MS/PhD Bioinformatics student in UM. Initially performed MS rotation research in He lab in Fall 2014, and transferred to become a PhD student starting January 2016. Edison passed his PhD preliminary exam in September 2016.
  • Omar Tibi: Volunteer research during April 2011 - May 2014 and since January 2017. Omar obtained his B.S. from East Michigan Universty, and studied in the Virginia Common Wealth University for two years, and then switched to the John Hopkins University M.S. Bioinformatics online program starting January 9, 2017. Since then Omar has resumed his bioinformatics research in the lab.
  • Noemi Garg, UROP undergraduate student (Sept 2016 - April 2017)
  • Madison George, UROP undergraduate student (Sept 2016 - April 2017)
  • Bingjian Yang, UROP undergraduate student (Sept 2016 - April 2017)
  • Kelly Yang, UROP undergraduate student (Sept 2016 - April 2017)
  • Ningxian Fan, UROP undergraduate student (Sept 2015 - April 2016; volunteer aftwards)
  • Junping Yue: Part time software developer and system administrator (since 2/24/2015).
  • Mei U Wong: Research volunteer. Mei earned her B.S. in Biomchemistry and Cell Biology from University of California, San Diego.
  • Kimberly Berke, UROP undergraduate student (Sept 2013 - April 2015; volunteer aftwards)
  • Peter Sun, undergraduate student (UROP Sept 2014 - April 2015; volunteer after UROP)
  • Yongqun "Oliver" He (何勇群; PI), Associate Professor of Laboratory Animal Medicine, Microbiology & Immunology, and Bioinformatics, University of Michigan Medical School.

PREVIOUS HE GROUP MEMBERS:

  • Graduate Students:
  • Mentor or co-mentor of graduate students at the University of Michigan:
  • Andrew P. Hodges, PhD student in Bioinformatics (2005-2011) (Note: after graduation, became a postdoc fellow in Dr. Giovanni Paternostro Lab at Sanford Burnham Medical Research Institute)
  • Sirarat Sarntivijai, PhD student in Bioinformatics (10/2009 – 5/2012) (Note: May 2012 - Nov 2014: ORISE postdoctoral fellow at FDA; starting Dec 2014: an EBI bioinformatiican - Ontologist). Oliver He is Sira's PhD thesis co-mentor.
  • Denise Bronner, PhD student in Microbiology and Immunology: Research rotation in He lab: Fall 2010; Joined He lab Summer 2011-April 2012 to conduct Brucella-host interaction research; and then joined Dr. Mary O'Riordan's lab since summer 2012 for research using the same Brucella model. Oliver He is Denise' PhD research co-mentor. Denise defended her PhD thesis on March 27, 2015.
  • Daniel Zinder, PhD student in Bioinformatics (Research rotation: fall 2010)
  • Keerthi Sindhura Sannareddy, M.S. in Bioinformatics, University of Michigan (Research rotation: 1/2010 – 5/2010)
  • Visiting PhD students from abroad:
  • Jiangan (Hardy) Xie (谢江安): Hardy joined the He lab as a visiting PhD student on October 11, 2014. Hardy is a PhD student in the major of Computer Science from Chongqing University in China. He will stay in He lab for two full years for his PhD research. Hardy defended his PhD thesis soon after he returned back to China. In December 2016, he got an offer to join the School of Bio-information at the Chongqing University of Posts and Telecommunications (重庆邮电大学) as an assistant professor.
  • Wenxiao Liu, visiting PhD Candidate in Microbiology and Immunology from China Agricultural University (9/2011 – 8/2012)
  • Raheela Akhtart, visiting PhD student (Aug 2009 - Feb 2010) (Now: Assistant Professor in Department of Pathology, University of Veterinary and Animal Sciences, Lahore-54000, Pakistan)
  • Postdoctoral Research Follows:
  • Asiyah Y u Lin, Research Fellow (Dec 2010 - Sept 2014; Starting 6/22/2015: A FDA ORISE research fellow)
  • Xinna Li, Research Fellow (10/2010 – 10/2012)
  • Fang Chen, Research Fellow (Feb 2007 - July 2010) (Note: July 2010 - June 2013, Internal Medicine resident, Orlando, Florida; starting June 2013, as a MD and hospitalist, in Longview, Washington, USA)
  • Thomas Todd, DVM, Veterinary Resident and Postdoctoral Research Fellow; PhD student in Microbiology & Immunology (Note: as of April 2011, Assistant Director in the Division of Comparative Medicine, University of South Florida, Tampa, FL 33612)
  • Part-time research assistants:
  • Rebecca Leigh Racz, Research assistant (Summer 2012 - April 2016); Becca volunteered as an undergraduate student in the lab from Feb 2011-May 2012; Becca become a Pharmacy student during Fall 2012 and April 2016 in UM. After graduation, Becca became an ORISE fellow in FDA.
  • Daniel Faghihnia, undergraduate student (UROP program Sept 2012 - May 2013; Credit course research Jan 2015 - April 2015; 2015 summer research assistant 2015).
  • Visiting Scholars:
  • Dr. Zhaohui Ni (倪朝辉), an associate professor from Department of Microbiology, School of Basic Medical Sciences, Jilin University, China. Dr. Ni arrived at Ann Arbor on 12/15/2015 and officially joined He lab early January 2016 as a visiting scholar. Dr. Ni returned back to China on 1/14/2017 (Saturday).
  • Dr. Qingping Liu (刘清平), an associate professor from the Guangzhou University of Chinese Medicine, arrived at Ann Arbor and joined He lab as a visiting scholar on 9/10/2015 (Thursday).
  • Dr. Shunzhou Deng (邓舜洲): Dr. Deng joined the He lab as a visiting Scholar from May 27, 2014 to May 14, 2015. Dr. Deng is an associate professor (promoted to full professor in December 2014) of veterinary infectious diseases in Jiangxi Agricultural University, Nanchang, Jiangxi, China. He will conduct research in the He lab for one full year.
  • Dr. Guanghua (Jeff) Hu (傅光华): Jeff joined the He lab as a visiting Scholar for the period of August 23, 2014 to March 7, 2015. Dr. Fu is an associate researcher in the laboratory of avian diseases, Institute of Animal Husbandry and Veterinary Medicine, Fujian Academy of Agricultural Sciences, Fuzhou, Fujiang, China.
  • Hao-Teng Chang, Assistant Professor, China Medical University, Taizhong, Taiwan; Visitor Scholar (5/2012-8/2012)
  • Amal Awad (visiting scholar from Veterinary Medicine, Mansoura University, Egypt) (Feb to August 2012 )
  • Jianguo Zhu (朱建国), Associate Professor (Shanghai Jiaotao University, China), Visitor Scholar (Nov 2007 - April 2008) (Note: as of April 2011,a Full Professor, in Shanghi Jiaotao University, China)
  • DVM Students who Worked in He Lab in Summers:
  • Gerald Hish, DVM resident (Jan 2012 to April 2012)
  • Megan Ramaker, DVM student (School of Veterinary Medicine, University of Wisconsin-Madison), Research intern (May 2010 - Aug 2010)
  • Kimberly Quandt, DVM student (College of Veterinary Medicine, Michigan State University), Research intern (May 2009 - Aug 2009)
  • Jered Wendte, DVM student (Oklahoma State University), Research Intern (May 2008 - Aug 2008)
  • Alicia Diane Cawlfield, DVM student (North Carolina State University), Research Intern (May 2006 - Aug 2006)
  • Undergraduate Students:
  • Christopher Codd, UROP undergraduate student (Sept 2015 - April 2016)
  • Sydni S. Joubran, UROP undergraduate student (Sept 2014 - April 2016)
  • Jessica Wang, UROP undergraduate student (Sept 2015 - April 2016)
  • Sydni Suzanne Joubran, UROP undergraduate student (Sept 2014 - April 2016)
  • Jessica Wang, UROP undergraduate student (Sept 2015 - April 2016)
  • Ningxian Fan, UROP undergraduate student (Sept 2015 - April 2016)
  • Chrostopher Codd, UROP undergraduate student (Sept 2015 - April 2016)
  • Peter Sun, UROP undergraduate student (Sept 2015 - April 2016)
  • Kimberly Berke, UROP undergraduate student (Sept 2013 - April 2015)
  • Mukti Patel, UM undergraduate student (Sept 2012 - April 2015; volunteer or for research credit hours)
  • Nancy Tran, undergraduate student (UROP program Sept 2012 - May 2013; Credit course research Sept 2014 - April 2015)
  • Natalie Dunn, LSA Undergraduate Student (starting October 2013 as aa voluteer; Credit course research Sept 2014 - April 2015)
  • Kevin Mo, UROP undergraduate student (Sept 2014 - April 2015)
  • Rasika Patil, UROP undergraduate student (Sept 2013 - April 2014)
  • Carly Martin, UROP undergraduate student (Sept 2013 - April 2014)
  • Daniel A. Faghihnia, UROP undergraduate student (mentored by Asiyah; Sept 2013 - April 2014)
  • Elyse M. Fleck, UROP undergraduate student (mentored by Asiyah; Sept 2013 - April 2014)
  • Nancy H. Tran, UROP undergraduate student (mentored by Asiyah; Sept 2013 - April 2014)
  • Izabela Birsanescu, UROP undergraduate student (Sept 2013 - April 2014)
  • Rebecca Racz, Undergraduate, University of Michigan (Feb 2011 - 2012; Becca graduated in May 2012 and joined the Pharmacy in UM. Since then, Becca has continued to work on VIOLIN until now 2014.)
  • Abra Guo, Undergraduate Student (Sept 2011-May 2013)
  • Shelley Zhang, Undergraduate Student (Sept 2012-May 2014)
  • Erica Marcos, Undergraduate Student (January to May 2013)
  • Joseph Ostrow, UROP undergraduate student (Sept 2012 - May 2013)
  • Desikan Jagannathan (DJ), UROP undergraduate student (Sept 2012 - May 2013)
  • Monica Chung, Undergraduate, University of Michigan (Jan 2012 - November 2012)
  • Andrew Sylora, UROP undergraduate student (Sept 2011 - May 2012)
  • Ryan Yucha, UROP undergraduate student (Sept 2011 - May 2012)
  • Sabian Hasani, Undergraduate Student (9/2011 5/2012 )
  • Andrew Sylora, UROP undergraduate student (9/2011 5/2012)
  • Ryan Evan Yucha, UROP undergraduate student (9/2011 5/2012 )
  • Mark Fan Yang, Undergraduate Student (1/2012 5/2012 ) (Update: to join Pharmacy school in UM in fall 2013.)
  • Mital Patel, UROP and then part time research undergraduate student (9/2008  5/2011) (Update: to join medical school after graduation.)
  • Guerlain Ulysse, UROP undergraduate student (Sept 2010 - May 2011)
  • Priya Dungarani, UROP undergraduate student (Sept 2010 - May 2011) (Update: to join Pharmacy school in UM in fall 2013.)
  • Brian Yang, Harvard University (May 2010 - August 2010) (Update: now a research associate at the Department of Neurology in UCSF)
  • Boyang Zhao, Undergraduate Student (Fall 2008 - May 2010) (update: joined MIT for PhD research)
  • Kanika Kochhar, UROP Undergraduate Student (Sept 2009 - May 2010)
  • Samantha Sayers, UROP undergraduate student (Sept 2009 - May 2010) (updated: joined UM School of Public Health for graduate study after staying in working as a research assistant for a year May 2010-Aug 2011)
  • Kelsey Strait, UROP Undergraduate Student (Sept 2008 - May 2009)
  • Tianyu Tang (Helen), UROP Undergraduate Student (Sept 2008 - May 2009) (Update: to join Harvard School of Public Health for graduate study in Epidemiology in fall 2013.)
  • Boris Vidri, UROP Undergraduate Student (Jan 2009 - May 2009) (updated: joined Wayne State University Medical School after graduation)
  • Bryant Yee, School of Art & Design, BFA Class of 2011, University of Michigan (Summer 2008)
  • Jennifer L. Smith, UROP Undergraduate Student (Sept 2007 - May 2008) (Update: joined Pharmacy school in UM after graduation)
  • Grace G. Zhu, UROP Undergraduate Student (9/2007 12/2007) (Update: joined Waybes State School of Medicine after graduation)
  • Elizabeth A. Olenzek, UROP Undergraduate Student (Sept 2007 - May 2008)
  • Kimberly Ku, UROP Undergraduate Student (Sept 2006 - May 2008) (Update: graduated from Wayne State University School of Medicine, and now internal medical resident at Indiana University School of Medicine)
  • Bethany L. Kovacic, UROP Undergraduate Student (Sept 2006 - May 2007)
  • Charles B. Larson, UROP Undergraduate Student (Sept 2006 - May 2007) (Update: now a PhD student in UCSD)
  • Mijung Park, Universit of Michigan School of Art and Design (Summer 2006)
  • Highshool Students:
  • Shelley Zhang, Pioneer High School senior, research volunteer (2010-2011) (now: an undergraduate student in UM)
  • Staff Research Assistants:
  • Charles B. Larson, Research assistant (May 2010-April 2012), Undergraduate Student (Sept 2006 - May 2010, first year as UROP undergraduate student) (Status: since fall 2012, PhD student in UCSD)
  • Samantha Sayers, Research Assistant (May 2010-Aug 2011), UROP undergraduate student (Sept 2009 - May 2010)
  • Angelica Lin, Research Assistant (2010)
  • Sankari Arumugarajah, Lab Technician (Jan 2006 - Dec 2006)
  • Staff Bioinformatician (Computer Specialist):
  • Bin Zhao, Bioinformatician. Bin joined He lab as a bioinformatics research internal as a MS student in UM School of Information (May 2013 to May 2014) and then as bioinformatician from May 20014 to 1/31/2015.
  • Zuoshuang "Allen" Xiang, Bioinformatician (2005-2013)
  • Collaborator and mentor:
  • George W. Jourdian, Professor Emeritus of Internal Medicine and Professor Emeritus of Biological Chemistry, Medical School. Since Dr. He joined the UM, they had become very good friends, colleagues, and collaborars. The original He lab in the Kresge building was indeed part of Dr. Bill Jourdian's lab space before his retirement. Dr. Jourdian and Dr. He had been collaborating until 2015. They shared the same lab space, and Dr. Jourdian had helped Dr. He and He lab members with mentoring, lab skills, and discussions. Dr. Jourdian died on November 28, 2015.

OLIVER HE's MENTORS:

  • Gerhardt G. Schurig (PhD Advisor, 1996-2000), Immunology, Virginia Tech, Blacksburg, VA, USA
  • Pedro Mendes (M.S. research advisor, 2001-2002), Computational Biology, Virginia Bioinformatics Institute, Blacksburg, VA, USA
  • Hanchun Yang (杨汉春 ) & Zhongzhi Zhang (张中直) (M.S. co-advisors, 1993-1996), Infectious Diseases & Veterinary Preventive Medicine, China Agricultural Univeristy, Beijing, China
  • Bruno Sobral (Postdoc Advisor, 2002-2005), Bioinformatics and Genetics, Virginia Bioinformatics Institute, Blacksburg, VA, USA

ACTIVE COLLABORATORS:

  • Ontology Development and Applications:
  • Sirarat (Sira) Sarntivijai, ORISE Postdoctoral Fellow at FDA (Note: Sira's PhD research was co-mentored by Dr. Brian Athey and Dr. He)
  • OBI Consortium and OBO Foundry members, including:
  • Barry Smith, University at Baffulo, NY, USA
  • Jie Zheng, University of Pennsylvania, PA, USA
  • Chris Stoeckert, University of Pennsylvania, USA
  • Helen Parkinson, European Bioinformatics Institute (EBI)
  • Bjoern Peters, La Jolla Institute for Allergy & Immunology, CA, USA
  • Alexander Diehl, University at Baffulo, NY, USA
  • Melanie Courtot, University of British Columbia, Canada
  • many more ...
  • University of Michigan (UM) Collaborators for ontology development:
  • Marcelline (Marcy) Harris, School of Nursing, UM
  • Alla Karnovsky, Department of Computational Medicine & Bioinformatics, UM
  • Frank J. Manion, Comprehensive Cancer Center, UM
  • UM Collaborators for ontology applications:
  • Janet R. Gilsdorf, University of Michigan Medical Center
  • Beth Tarini, Child Health Evaluation & Research (CHEAR) Unit, Division of General Pediatrics
  • More ontology and semantics collaborators:
  • Cui Tao, University of Texas Health Science Center at Houston
  • Literature Mining:
  • Arzucan Ozgur, Department of Computer Engineering, Bogazici University, Turkey.
  • Junguk Hur, Dept. of Neurology, University of Michigan.
  • Dragomir R. Radev, the Computational Linguistics And Information Retrieval research group, University of Michigan.
  • Statistics:
  • Peter Woolf, Previously a faculty member in UM, now a founder and CEO of Foodwiki.
  • Alfred Hero, Department of Electrical Engineering and Computer Science (EECS), University of Michigan.
  • Zhaohui Steve Qin, Rollins School of Public Health, Emory University.
  • Brucella Research:
  • Qingmin Wu (吴清民), College of Veterinary Medicine, China Agricultural University, Beijing, China
  • Bioinformatics research collaborations:
  • Gary Huffnagle, Division of Pulmonary & Critical Care Medicine, University of Michigan Medical School.
  • Jeffrey L. Curtis, Division of Pulmonary & Critical Care Medicine, University of Michigan Medical School.
  • Michal Olszewski, Division of Pulmonary and Critical Care Medicine, Department of Internal Medicine University of Michigan Medical School & VA Medical Center Ann Arbor Research Service.
  • Fan Meng, Department of Psychiatry, Molecular and Behavioral Neuroscience Institute, and Center for Computational Medicine and Bioinforamtics, University of Michigan Medical School.
  • Note: We have been collaborating with many researchers and scientists on campus, in the USA, in China, and in many other countries around the world. The above list does not include all our collaborators (sorry).

 

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