View as PDF

Frank Cleary

E: frank at frankcleary dot com

University of California, Berkeley, Berkeley, CA
NSF Fellow, Ph.D. in Biophysics, May 2014

Cornell University, College of Arts and Sciences, Ithaca, NY
B.A. in Physics, cum laude with distinction in all subjects, May 2006
3.96 G.P.A. in Math and Physics courses

Data Science Bytes – Data Science tips, tutorials and news.
IPython Notebooks Singular Value Decomposition, Image Compression, NYC School Data
Java Microservices, Machine Learning, Implementing Query Engines and Languages
Python Pandas (minor contributor), Numpy, Matplotlib, nltk, gensim
Big Data Spark, Elasticsearch, AWS, Hadoop, Hive
Other ANTLR, MongoDB, SQL, R
Tools Git, Remote machines, Linux command line

Software Engineer in Analytics, AppDynamics, San Francisco, CA
January 2016-Present

  • Technical lead for query language and data processing service development
  • Implemented query support for math operators, aggregation input filtering, and sorting for Business iQ, launched during CEO’s keynote at AppDynamics’ annual user conference
  • Organized team and presented demo for the 2016 AppDynaimcs hackathon (50 teams total), won the infrastructure category

Machine Learning Engineer (Member Technical Staff), Index, San Francisco, CA
June 2014-November 2015

  • Implemented production recommender systems and big data pipelines leveraging Spark and the AWS cloud
  • Designed and extended server side Java code to meet evolving data needs and increase analytics capabilities
  • Delivered data analysis projects using hadoop based tools and the python data science stack
  • Developed monitoring and alerting of production services

Data Scientist Intern, SEVEN Networks, San Carlos, CA
June 2013-August 2013

  • Developed new data analysis and visualization software for mobile network data in python
  • Analyzed data to provide recommendations on A/B testing design, outlier detection, and targeted areas for product improvement
  • Developed new web interfaces in python using django allowing nimble data analysis and report generation for executives and developers to examine details of product performance
  • Automated tasks with shell scripts and manipulated data using the linux command line

Science Teacher, Teach for America, New York City DOE, Bronx, NY
August 2006-June 2008

  • Taught classes of 30 middle school students at PS/MS 95 in Bronx, NY
  • Designed experiments that students could conduct in a school with no lab facilities
  • Developed daily lesson plans for three science curricula
  • Selected and trained as part of the Teach for America program

Graduate Student Researcher and NSF Fellow, Biophysics Graduate Group, University of California, Berkeley, Berkeley, CA
August 2008-May 2014

  • Created models and customized data analysis tools in Python and MATLAB
  • Analyzed and visualized diverse data sets in R and Python
  • Developed a quantitative Monte Carlo model to explain and tie together experimental results
  • Mentored and trained an undergraduate and a graduate student to complete publishable projects
  • Studied the motor protein dynein using biophysical tools including super-resolution microscopy and optical trapping, allowing comparison of experiment and model
  • Designed and carried out a project, now two completed manuscripts, using engineered mutants to investigate dynein’s mechanism of directed transport along microtubules

NNIN REU Intern, University of California, Santa Barbara, Santa Barbara, CA
Summer 2005

  • Simulated electric fields in microfluidic devices for use as a cell type detection method
  • Developed microfluidic devices and tested them for use in cell sorting applications

Undergraduate Researcher, Cornell University, Ithaca, NY
May 2003 – December 2005

  • Created recombinant baculovirus constructs to express immune response pathway proteins
  • Generated unilamellar vesicles to study lipid phase separation using fluorescence microscopy
  • National Science Foundation Graduate Research Fellowship, 2009
  • Cleary, et al. Tension on the linker gates the ​ATP-dependent release of ​dynein from microtubules Nat. Commun. 2014
  • Dogan, et al. Kinesin’s Front Head Is Gated by the Backward Orientation of Its Neck Linker Cell Reports 2015.
  • The mechanism of dynein’s minus end directionality and an engineered plus end directed dynein motor, Poster presentation, Biophysical Society Annual Meeting 2014
  • A force dependent gating mechanism inhibits ATP dependent release of dynein from microtubules, Platform talk, Biophysical Society Annual Meeting 2013
  • The minimal requirements for dynein processivity and a force-dependent gating mechanism, Poster presentation, ASCB Annual Meeting 2012
  • Engineered dynein mutants reveal minimal structural and catalytic requirements for processive motility, Platform talk, Biophysical Society Annual Meeting 2012

Research Mentor for High School Students
December 2010-April 2012

  • Designed novel research projects for high school students from Oakland, CA
  • Supervised two groups of students as they carried projects in the Yildiz Lab at UC Berkeley
  • Projects won awards at international science fairs, including a silver medal and cash prizes

Biophysics Graduate Group
August 2009-May 2014

  • Lead initiatives within the program, such as recruitment, social events, and new student advising

Bay Area Scientists In Schools
May 2009-May 2013

  • Developed a science lesson with other graduate students that we have taught in a local middle school each year as part of the Bay Area Scientists In Schools (BASIS) program

View as PDF