About Me

I recently graduated from the joint CMU-Pitt PhD Program in Computational Biology, in March 2015. I am currently seeking research positions in Academia as well as industry. I am looking for oppotunities as postdoctoral research fellow, data scientist, bioinformatician, machine learning researcher or developer.

I have solid background in Comparative Genomics, Molecular Evolution, Phylogenomics, Machine Learning, Algorithm Design, Data Science, and Software Development. I am also familiar with Natural Language Processing, Social Network Analysis, and Human Genetics and Molecular Anthropology

Contact Details

Minli Xu
4400 Fifth Ave
Pittsburgh, PA 15213

(412)390-7807
minli1985@gmail.com

Education

Carnegie Mellon University

PhD in Computational Biology School of Computer Science Feb 2015

Featured courses

  • 10-701   Machine Learning
  • 10-702   Statistical Machine Learning
  • 10-725   Optimization
  • 15-863   Algorithm in Read World
  • 02-710   Computational Genomics

Chinese University of Hong Kong

BSc in Biotechnology, Computer Science July 2007

Featured courses

  • CSC3100   Software Engineering
  • INE2720   Web Application Developmen
  • CSC3230   Artificial Intelligence
  • CSC2220   Algorithms for Bioinformatics
  • MAT4250   Game Theory
  • BIO4330   Bioinformatics and Proteomics

Skills

I am an experienced bioinformatics researcher, highly familiar with several scientific computing platforms (MatLab, R, SAS), and scripting languages (Perl,Phython,Ruby). I am also very familiar with commonly used machine learning and data mining algorithms such as Regression, Clustering, SVM, Neural Network, Graphical Models, Lasso,SVD, PCA, etc. In addtion, I am an amateur web developer, with solid knowlege and practice on HTML5, CSS, JavaScript, Node.js, SQL, PHP, Ruby on Rails, and Wordpress.

  • Software Development (Java C Python Perl)
  • Scientific Computing (Matlab R SAS)
  • Machine Learning
  • Web Development (HTML5 JS Rails PHP)
  • Slay Dragons

Publications


Maureen Stolzer, Katherine Siewert, Han Lai, Minli Xu, and Dannie Durand (2015) Event inference in multidomain families with phylogenetic reconciliation , BMC Bioinformatics, 2015, 16(Suppl 14),S8

Maureen Stolzer, Han Lai, Minli Xu, Deepa Sathaye, Benjamin Vernot and Dannie Durand (2012) Inferring duplications, losses, transfers and incomplete lineage sorting with nonbinary species trees, Bioinformatics, 2012, 28(18),i409-i415 (ECCB 2012)

Shan Li, Minli Xu and Zhengchang Su (2010) Computational analysis of LexA regulons in Cyanobacteria, BMC Genomics, 2010,11(1),572

Minli Xu and Zhengchang Su (2010) A novel metric for comparing TFBS motif profiles, PLoS ONE, 2010,5(1),e8797

Ka Hou Chu, Minli Xu, Chi Pang Li (2009) Rapid DNA barcoding analysis of large datasets using the composition vector method , BMC Bioinformatics, 2009, 10(Suppl 14):S8

Shaoqiang Zhang, Minli Xu, Shan Li, Zhengchang Su (2009) de novo Genome-wide Prediction of cis-regulatory Binding Sites in Prokaryotes, Nucleic Acids Research, 2009, 37(10),e72

Minli Xu, Zhengchang Su (2009) Computational prediction of cAMP receptor protein (CRP) binding sites in cyanobacterial genomes, BMC Genomics, 2009, 10, 23

James M. Mottonen, Minli Xu, Donald J. Jacobs, Dennis R. Livesay (2009) Unifying mechanical and thermodynamic descriptions across the thioredoxin protein family, PROTEINS: Structure, Function, and Bioinformatics.75:610- 627