Annie P. Yim

Bioinformatician/Data Scientist

PhD in Computational Biology with 5+ years experience in analysing large volumes of biological data.
Motivated and independent person committed to identifying and solving problems.
Deeply in love with data visualisation and the nature

Experience and Education
(Hover over the maps!)

PhD Candidate (Computational Biology)

Ludwig-Maximilians-Universität München
Max Planck Institute for Biochemistry

Munich, Germany
2014 - Present
Python R SQL Javascript Data Analysis Data Visualisation Machine Learning
  • Analysed high volumes of sequencing data from online databases and for collaborating groups
  • Launched and maintained a web-based analysis platform with interactive visualisations for expression data
  • Designed analysis workflows for an online cancer database
  • Organised a 2-day symposium for life scientists in Munich

Research Intern

Aix-Marseille University

Marseille, France
2018-01 - 2018-04
R Data Analysis
  • Analysed expression and methylation data of human liver cancer and a mouse cancer model
  • Performed clustering analysis to identify groups of cancer

MSc in Bioinformatics

University of Edinburgh

Edinburgh, United Kingdom
2013 - 2014
Python R Java Javascript Statistics Data Analysis Data Visualisation
  • Graduated with Distinction
  • Created a visualisation plug-in for ChIP-seq Data in an enterprise-scale data resource

MPhil in Medicine/Research Assistant

The Chinese University of Hong Kong

Hong Kong
2009 - 2013
qPCR Western Blotting & ELISA micro-CT Animal research Clinical Research Data Analysis
  • Gained expertise in molecular biology and imaging techniques
  • Designed and conducted multiple experimental, animal and clinical research projects
  • Performed statistical analysis on experimental and clinical research data

Exchange Student

Nanjing University

Nanjing, China
2010-07 - 2010-09
Cell Culture Clinical Research Data Collection
  • Coordinated with local medical staff to collect patients' sample
  • Cultured cells for molecular biology experiments

Europe

Asia

Skills and Languages

Programming

Python
Advanced
SQL
Advanced
Javascript
Intermediate
R
Advanced

Languages

English
Fluent
Chinese
Fluent
German
Intermediate (B1/B2)

Other Skills

Exploratory Data Analysis Data Visualization d3.js Tableau
Machine Learning scikit-learn keras
Hadoop Spark Scala
HTML/CSS PHP R Bioconductor

Courses Attended

MOOCs

Specialization in Deep Learning (5 courses)
deeplearning.ai, on Coursera
  • Neural Networks and Deep Learning
  • Improving Deep Neural Networks: Hyperparameter tuning, Regularization and Optimization
  • Structuring Machine Learning Projects
  • Convolutional Neural Networks
  • Sequence Models
Link to Certificate
Big Data Analysis with Scala and Spark
École Polytechnique Fédérale de Lausanne, on Coursera
Link to Certificate
Visual Analytics with Tableau
University of California, Davis, on Coursera
Link to Certificate

Workshops

Data Analysis with R (3-day Workshop)
Science Craft
Scientific Writing (3-day Workshop)
Science Craft

Portfolio

3D Visualization of Clustering Cancer Samples

Python scikit-learn Javascript d3.js three.js Data Analysis Data Visualization
View on Github

Analysing World Climate Data from Observatory

Scala Spark Data Analysis Distributed System
View on Github

Artwork Created by Neural Style Transfer

Python Tensorflow Machine Learning Convolutional Neural Network
View on Github

Publications and Awards

Publications

MitoXplorer - A Visualization Approach to Investigate Mitochondrial Functions in Aneuploidy Cells with RNA-seq Data
Yim, A. P.; Koti, P.; Dürrbaum, M. et al. (Manuscript in preparation)
Hypermethylation of gene body CpG islands predicts high dosage of functional oncogenes in liver cancer.
Arechederra, M.; Daian, F.; Yim, A. P. et al. Nature Commun. (Publication in process)
Integrative analysis and machine learning on cancer genomics data using the Cancer Systems Biology Database (CancerSysDB).
Krempel, R.; Kulkarni, P.; Yim, A. P. et al. BMC Bioinformatics. 2018; 19 (1): pp.156
Abnormal Skeletal Growth in Adolescent Idiopathic Scoliosis Is Associated with Abnormal Quantitative Expression of Melatonin Receptor, MT2.
Yim, A. P.; Yeung, H. Y.; Sun, G. et al. Int J Mol Sci. 2013; 14 (3): pp.6345-58
Abnormal skeletal growth patterns in adolescent idiopathic scoliosis-a longitudinal study until skeletal maturity.
Yim, A. P.; Yeung, H. Y.; Hung, V. W. et al. Spine (Phila Pa 1976). 2012; 37 (18): pp.E1148-54

Fellowships and Awards

Best Poster Award at 16th Asia Pacific Bioinformatics Conference, Yokohama, Japan (2018)
ERAMUS+ Internship Program for Higher Education Students, Marseille, France (2018)
PhD Program of International Max Planck Research School for Molecular Life Sciences, Munich, Germany (2014 - 2018)
Postgraduate Studentship from The Chinese University of Hong Kong, Hong Kong (2009 - 2011)

Interests

Hiking

Snowboarding

Cycling

Get in Touch

I'm currently seeking opportunities to leverage my skills and challenge myself with some really exciting projects! Feel like we could be a good match?

Drop me a line at anniepyim@gmail.com or send me message on LinkedIn!