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DCM_HongKong

Daniel Morgan

Doktorand

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Works at Department of Biochemistry and Biophysics
Email daniel.morgan@dbb.su.se
Visiting address Svante Arrhenius väg 16
Room Tomtebodavägen 23
Postal address Institutionen för biokemi och biofysik 106 91 Stockholm

About me

I am a Systems Biologist focusing on Networks. More than that though, I see myself as a problem solver who seeks out and jumps at opportunity.

Research

Research group: Erik Sonnhammer

Publications

A selection from Stockholm University publication database
  • 2017. Andreas Tjarnberg (et al.). Molecular Biosystems 13 (7), 1304-1312

    A key question in network inference, that has not been properly answered, is what accuracy can be expected for a given biological dataset and inference method. We present GeneSPIDER - a Matlab package for tuning, running, and evaluating inference algorithms that allows independent control of network and data properties to enable data-driven benchmarking. GeneSPIDER is uniquely suited to address this question by first extracting salient properties from the experimental data and then generating simulated networks and data that closely match these properties. It enables data-driven algorithm selection, estimation of inference accuracy from biological data, and a more multifaceted benchmarking. Included are generic pipelines for the design of perturbation experiments, bootstrapping, analysis of linear dependence, sample selection, scaling of SNR, and performance evaluation. With GeneSPIDER we aim to move the goal of network inference benchmarks from simple performance measurement to a deeper understanding of how the accuracy of an algorithm is determined by different combinations of network and data properties.

Show all publications by Daniel Morgan at Stockholm University

Last updated: September 13, 2018

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