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Hello, I'm
Dr. Ilkay Sakalli

Bioinformatician
Software Engineer &
Data Expert

About

Professional Profile

  • Name: Ilkay Sakalli
  • Email: sakalli@the-developer.de
  • Phone: on demand
  • Date of birth: 05 December 1985
  • Nationality: Germany

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My Skills

Summary of my skills

Software Development

Expert, 10 years

Technical Expertise & Data Analysis

Expert, 8 years

Unix/Linux

Advanced, 5 years

Research & Development

Expert, 12 years

Knowledge

  • C/C++
  • Java, Python, Perl
  • OpenGL
  • Eclipse & Visual Studio
  • Debugging (gdb, valgrind)
  • Linux (Gentoo, Ubuntu)
  • Databases (SQL, noSQL)
  • Big data (Hadoop, MapReduce)
  • Algorithm development
  • Web frameworks & CMS (HTML5, jQuery)
  • PSM I certified (Professional Scrum Master)
  • Bioinformatics & Data analysis
  • Parallelization (CUDA)
  • Machine Learning (interest)
  • Pharmacokinetics
  • Finite-Element Modelling

Language Skills

German Native
100
English Experienced
93
Turkish Fluent
75

Experience

Nearly 10 Years Experience in Software Development and Engineering

Research Scientist & Software Developer

Freie Universität Berlin

2011 - 2015

CTO & Founder

AppConnect GmbH (former LawConnect GmbH)

2009 - 2011

  • www.law-connect.de
  • Project management & Software development
  • BMWi EXIST Founding & Project leading
  • Client communication & requirement

Software Developer

inbion GmbH

2008 - 2010

  • www.inbion.de
  • Development of synchronisationtool for Microsoft Outlook
  • Development of social platform jurcc
  • Training into Cell architecture & programming (Playstation 4)

Research Scientist & Software Developer

DFG Research Center Matheon

2007 - 2009

  • Member of Computational Molecular Biology Group
  • Simulation of biomolecules under different conditions
  • Identification of long-life states
  • Implementation of algorithms for protein-protein interaction and brownian dynamics simulations
  • Development of generic algorithms

Algorithm Developer

Max-Planck-Institut für molekulare Genetik

2007

  • Member of Algorithmics Groups (now Schliep lab)
  • Development and extension of algorithms for efficient computation of tiling arrays

Software Developer Internship

Siemens

2001

  • CMS – System integration and testing into corporate modules

Education

My Education Summary

Freie Universität Berlin

Dr. rer. nat., Molecular Science

2011 - 2015
C/C++ software development in collaboration with TU Vienna, Computational Mathemetics & Engineering Group

Molecular modelling & Geometric processing

Supervised lectures:

  • 2012-2015 – Introduction into Unix
  • 2011-2013 – Mathematics for Chemists I + II
  • 2012 – Computer simulation of biomolecules

Talks and Workshops:

  • 2014 – Electrostatics Meeting, Lissabon
  • 2013 – Collaboration meeting, TU Vienna
  • 2012 – 3rd VW Status Symposium, Potsdam
  • 2011 – Multiscale Simulation for Ion Channels, Berlin
  • 2010 – Computer Simulation and Theory of Macromolecules 2010, Hünfeld
  • 2009 – Methods in Molecular Simulation Summer School 2009, CCP5, Sheffield

Thesis: Robust Finite Element Solver For Molecular Electrostatic Energy Computations

Freie Universität Berlin

Master of Science, Bioinformatics

2008 - 2010

  • Discrete Mathematics
  • Numerics
  • Systems biology & medicine
  • Advances Algorithms in Bioinformatics
  • Sequence analysis & molecular evolution
  • Molecular networks
  • Pathophysiology
  • Modelling
  • Soft skills: Project management, Presentation techniques

Thesis: Solving the Poisson-Boltzmann Equation on Massively Parallel Machines

PharMetrX

Training, Pharmacometrics & Computational Disease Modelling

2011

  • Pharmacokinetics & Pharmacodynamics
  • Physiologically-based Pharmacokinetics
  • Population analytics
  • Statistics & data analysis
  • Trial design- and simulation

Freie Universität Berlin

Bachelor of Science, Bioinformatics

2006 - 2008

  • Algorithmic Bioinformatics
  • Informatics
  • Mathematics & Statistics
  • Chemistry & Biochemistry
  • Molecular biology & Genetics
  • Systemic physiology & Neurobiology
  • Theoretical Biology & Biophysics
  • Ethics & Presentation techniques
  • Soft skills

 

Thesis: Parallelization Strategies for a Brownian dynamics algorithm

Projects

Some of my projects which are interesting

Contact

Let's Keep In Touch

Ilkay Sakalli
10627 Berlin, Germany
Email
sakalli@the-developer.de

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