Welcome to Miten's Website

Miten Jain



  • PhD Candidate, Bioinformatics, University of California, Santa Cruz
  • M.S. Bioinformatics, 2013, University of California, Santa Cruz GPA: 3.91/4.0
  • M.S. Biotechnology, 2008, University at Buffalo, The State University of New York GPA: 3.77/4.0
  • B.E. Biotechnology Engineering, 2006, University of Rajasthan, India GPA: 81% Honors

Research/Work Experience:

  • PhD Candidate, Bioinformatics; Graduate Researcher, Nanopore Group, UC Santa Cruz, CA [June 2012 – Present]
    Current projects include: developing bioinformatics software to perform computational analysis nanopore data from the MinION nanopore sequencer; developing novel experimental strategies for improving nanopore sequencing performance; modeling nanopore data corresponding to biological polymers (DNA, RNA, and protein) using hidden Markov models, and making predictions using machine learning; analyzing bacterial and human epigenomes from nanopore and sequence data. Previous projects include: classification and pattern analysis of human centromeric sequences; developing metagenome assembly pipelines.

  • Research Assistant at Nanoprobes Inc., Yaphank, NY [Jan. 2009 - July 2011]
    Research and development of biomedical imaging and therapeutic applications of metal nanoparticles.

  • Teaching Assistant; Student Assistant, University at Buffalo, The State University of New York
    • Department of Biotechnical and Clinical Laboratory Sciences [Aug. 2007 - May 2008]
      Subjects: Clinical Chemistry, Methods of Analysis, Technical Communication for Scientific Professionals, Statistics Methods for Oral Science
      Taught undergraduate and graduate labs; graded and corrected papers.
    • Center for Excellence in Data Analysis and Recognition (CEDAR) [May 2007 - Aug. 2007]
      Project involved verifying machine read data from United States Postal Service.
    • Department of Physiology and Biophysics [Dec. 2006 - Aug. 2007]
      Prepared food for Drosophila flies, maintained normal and mutant Drosophila lines, which are used in research for Huntington disease, and managed the laboratory. Also did purchasing inventory for the lab, and filing details into lab records for future reference.
  • Industrial Intern at Ranbaxy Research Laboratories Ltd. Gurgaon, India [Feb. 2006 - June 2006]
    Research Project: Cloning of gene A and gene B using pGene/v5HisA and protein isolation, purification and expression analysis
    Work involved gene cloning, transformation, transfection, protein expression, isolation, and purification.
  • Industrial Intern at Cadila Pharmaceuticals Limited, Ahmedabad, India [Summer 2005]
    Produced a summary report on the company’s various divisions.
  • Research Intern at Birla Institute of Scientific Research, Jaipur, India [Summer 2004]
    Research Project: Isolation, study, and biochemical characterization of proteases producing micro-organisms
    Work involved isolating proteases producing bacterial cultures from various soil samples using microbiological techniques. The colonies were characterized using various biochemical assays.
    Participated in modules on plant tissue culture (media preparation and culturing), fermentation technology (basic functioning of a batch fermenter), bioinformatics (basic analysis tools), and molecular biology.

Technical Skills:

  • Computer skills: Python, MATLAB, R, Bash, Cython, Mac OSX, Linux, Windows (all versions), MS Office, HTML, Statistical Package for Social Sciences (SPSS), C, C++, DBMS (Oracle)
  • Life Sciences: Molecular and cell biology techniques, handling analytical instruments, microbiology techniques, Laboratory animals' certification program


  • Laboratory Animals' Certification Program from University at Buffalo, New York


  • Miten Jain, Ian T. Fiddes, Karen H. Miga, Hugh E. Olsen, Benedict Paten and Mark Akeson. (2015). Improved data analysis for the MinION nanopore sequencer. Nature Methods, (ePub: 16 Feb. 2015).
  • Karen H. Miga, Yulia Newton, Miten Jain, Nicolas F. Altemose, Huntington F. Willard and W. James Kent. (2014). Complete sequence representation across human X and Y centromeric regions. Genome Research, 24:697-707.
  • Michelle M. Maalouf, Miten Jain, Paolo Actis, Nader Pourmand. (2012). Single-cell manipulation using Nanopipettes. Nanotech, 2:384–7.
  • Jamie Heimburg-Molinaro, Michelle Lum, Geraldine Vijay, Miten Jain, Adel Almogren, Kate Rittenhouse-Olson. (2011). Cancer vaccines and carbohydrate epitopes. Vaccine, 48:8802-26.
  • Vishwas N. Joshi, Miten Jain, Frederic R. Furuya, Richard D. Powell, James F. Hainfeld, Marc C. Llaguno, and Donald W. Hilgemann. (2011). HaloTag® Protein-Mediated Live Cell Imaging with Bigger FluoroNanogold™. Microscopy and Microanalysis, 17:150-1.
  • Vishwas N. Joshi, Miten Jain, Frederic R. Furuya, Richard D. Powell, J. F. Hainfeld, Johanna Nelson, Chris Jacobsen, James Quinn, Aaron M. Neiman. (2011). Combined Texas Red and 1.8 nm FluoroNanogold™ for Multimodal Imaging. Microscopy and Microanalysis, 17:152-3.
  • Miten Jain. (2008). Cloning of a sialyltransferase gene to analyze surface sialic acid effects on metastasis. M.S. Thesis @ State University of New York at Buffalo.


  • Awarded Keck/QB3 fellowship for graduate studies in bioinformatics at University of California Santa Cruz.
  • Department Representative for Biomolecular Engineering and Bioinformatics, Graduate Student Association (GSA) at University of California, Santa Cruz [2011 - Present].
  • Internal Vice PresidentGraduate Student Association (GSA) at University of California, Santa Cruz [2013 - 2014].
  • Awarded the Mark Diamond Research Fund Grant for Master's Thesis Research at University at Buffalo, New York [2008].
  • Founder and President, Biotechnology Graduate Student Association at University at Buffalo, New York [2008].
  • Vice-President, Graduate Indian Student Association at University at Buffalo, New York [2007 - 2008].
  • President, Tantraa, an intercultural club at University at Buffalo, New York, [2007-2008].
  • Consistently ranked amongst top 3 in various Singing and Debate Contests, General Knowledge, Cultural and Corporate Business Quizzes, at School and College levels.