About

I am a PhD student at the University of Copenhagen supervised by professor Ole Winther. I'm currently visiting DeepMind technologies in London. Previously I have been at a research stay with Twitter Cortex VX in London. I'm interested in Bayesian inference, Variational inference and Deep Learning in general.

casperkaae@gmail.com Google Scholar Profile CV GitHub LinkedIn Twitter

Publications

Deep Recurrent Conditional Random Field Network for Protein Secondary Prediction
A.R. Johansen, C.K. Sønderby, S.K. Sønderby, O. Winther
ACM-BCB 2017, 2017
PDF Abstract Bibtex

DeepLoc - Prediction of protein subcellular localization using deep learning
J.A. Armenteros, C.K. Sønderby, S.K. Sønderby, H. Nielsen, O. Winther
Oxford Bioinformatics, 2017
Abstract Bibtex Code Website

Amortised MAP Inference for Image Super-resolution
C.K. Sønderby, J. Caballero, L. Theis, W Shi, F. Huszár
ICLR (Oral presentation), 2017
PDF Abstract Bibtex Blog

Ladder Variational Autoencoders
C.K. Sønderby, T. Raiko, L. Maaløe, S.K. Sønderby, O. Winther
Neural Information Processing Systems (NIPS), 2016
PDF Abstract Bibtex Code

Auxiliary Deep Generative Models
L. Maaløe, C.K. Sønderby, S.K. Sønderby, O. Winther
International Conference on Machine Learning (ICML), 2016
PDF Abstract Bibtex Code

BloodSpot - a database of gene expression profiles and transcriptional programs for healthy and malignant haematopoiesis
F.O. Bagger, D. Sasivarevic, S.H. Sohi, L.G. Laursen, S. Pundhir, C.K. Sønderby, O. Winther, N. Rapin, B.T. Porse
Nucleic acids research, 2016
PDF Abstract Bibtex Website

Convolutional LSTM networks for subcellular localization of proteins
S.K. Sønderby, C.K. Sønderby, H. Nielsen, O. Winther
International Conference on Algorithms for Computational Biology, 2015
PDF Abstract Bibtex

Tumor suppressor ASXL1 is essential for the activation of INK4B expression in response to oncogene activity and anti-proliferative signals
X. Wu, I.H. Bekker-Jensen, J. Christensen, K.D. Rasmussen, S. Sidoli, Y. Qi, Y. Kong, X. Wang, Y. Cui, Z. Xiao, G. Xu, K. Williams, J. Rappsilber, C.K. Sønderby, O. Winther, O.N. Jensen, K. Helin
Cell research, 2015
Abstract Bibtex

Recurrent Spatial Transformer Networks
S.K. Sønderby, C.K. Sønderby, L. Maaløe, O. Winther
ArXiv Preprint, 2015
PDF Abstract Bibtex

Diffusion weighted imaging with circularly polarized oscillating gradients
H. Lundell, C.K. Sønderby, T.B Dyrby
Magnetic resonance in medicine, 2015
Abstract Bibtex

Apparent exchange rate imaging in anisotropic systems
C.K. Sønderby, H. Lundell, L.V. Søgaard, T.B Dyrby
Magnetic resonance in medicine, 2014
Abstract Bibtex

Orientationally invariant metrics of apparent compartment eccentricity from double pulsed field gradient diffusion experiments
S.N. Jespersen, H. Lundell, C.K. Sønderby, T.B Dyrby
NMR in Biomedicine, 2013
Abstract Bibtex


Teaching

Below you can find some of the material I used for courses and workshops where I have teached.

DTU course 02456 Deep learning
Programming Exercises (Theano/Lasagne) for the Deep Learning Graduate Course at the Technical University of Denmark running in the Fall of 2016
Code

Nvidia Deep Learning Summercamp 2016
Programming Exercises (Theano/Lasagne) for the 2016 Nvidia Deep Learning Summercamp in London.
Code

Deep Learning DTU summer school 2015
Programming Exercises (Theano/Lasagne) for the 2015 Deep Learning Summer school at the Technical University of Denmark. Exercises for low level implementation of a ConvNet in Numpy and high level Theano/Lasagne exercises.
Code