Search Results - "Sønderby, Casper"

SignalP 5.0 improves signal peptide predictions using deep neural networks by Almagro Armenteros, José Juan, Tsirigos, Konstantinos D., Sønderby, Casper Kaae, Petersen, Thomas Nordahl, Winther, Ole, Brunak, Søren, von Heijne, Gunnar, Nielsen, Henrik

“…Signal peptides (SPs) are short amino acid sequences in the amino terminus of many newly synthesized proteins that target proteins into, or across, membranes…”
Get full text

DeepLoc: prediction of protein subcellular localization using deep learning by Almagro Armenteros, José Juan, Sønderby, Casper Kaae, Sønderby, Søren Kaae, Nielsen, Henrik, Winther, Ole

“…The prediction of eukaryotic protein subcellular localization is a well-studied topic in bioinformatics due to its relevance in proteomics research. Many…”
Get full text

Improved metagenome binning and assembly using deep variational autoencoders by Nissen, Jakob Nybo, Johansen, Joachim, Allesøe, Rosa Lundbye, Sønderby, Casper Kaae, Armenteros, Jose Juan Almagro, Grønbech, Christopher Heje, Jensen, Lars Juhl, Nielsen, Henrik Bjørn, Petersen, Thomas Nordahl, Winther, Ole, Rasmussen, Simon

“…Despite recent advances in metagenomic binning, reconstruction of microbial species from metagenomics data remains challenging. Here we develop variational…”
Get full text

NetSurfP‐2.0: Improved prediction of protein structural features by integrated deep learning by Klausen, Michael Schantz, Jespersen, Martin Closter, Nielsen, Henrik, Jensen, Kamilla Kjærgaard, Jurtz, Vanessa Isabell, Sønderby, Casper Kaae, Sommer, Morten Otto Alexander, Winther, Ole, Nielsen, Morten, Petersen, Bent, Marcatili, Paolo

“…The ability to predict local structural features of a protein from the primary sequence is of paramount importance for unraveling its function in absence of…”
Get full text

scVAE: variational auto-encoders for single-cell gene expression data by Grønbech, Christopher Heje, Vording, Maximillian Fornitz, Timshel, Pascal N, Sønderby, Casper Kaae, Pers, Tune H, Winther, Ole

“…Abstract Motivation Models for analysing and making relevant biological inferences from massive amounts of complex single-cell transcriptomic data typically…”
Get full text

BloodSpot: a database of gene expression profiles and transcriptional programs for healthy and malignant haematopoiesis by Bagger, Frederik Otzen, Sasivarevic, Damir, Sohi, Sina Hadi, Laursen, Linea Gøricke, Pundhir, Sachin, Sønderby, Casper Kaae, Winther, Ole, Rapin, Nicolas, Porse, Bo T

“…Research on human and murine haematopoiesis has resulted in a vast number of gene-expression data sets that can potentially answer questions regarding normal…”
Get full text

An introduction to deep learning on biological sequence data: examples and solutions by Jurtz, Vanessa Isabell, Johansen, Alexander Rosenberg, Nielsen, Morten, Almagro Armenteros, Jose Juan, Nielsen, Henrik, Sønderby, Casper Kaae, Winther, Ole, Sønderby, Søren Kaae

“…Deep neural network architectures such as convolutional and long short-term memory networks have become increasingly popular as machine learning tools during…”
Get full text

Orientationally invariant metrics of apparent compartment eccentricity from double pulsed field gradient diffusion experiments by Jespersen, Sune Nørhøj, Lundell, Henrik, Sønderby, Casper Kaae, Dyrby, Tim B.

“…Pulsed field gradient diffusion sequences (PFG) with multiple diffusion encoding blocks have been indicated to offer new microstructural tissue information,…”
Get full text

DeepLoc: prediction of protein subcellular localization using deep learning by Almagro Armenteros, Jose Juan, Sønderby, Casper Kaae, Sønderby, Søren Kaae, Nielsen, Henrik, Winther, Ole

Get full text

Diffusion weighted imaging with circularly polarized oscillating gradients by Lundell, Henrik, Sønderby, Casper Kaae, Dyrby, Tim B.

“…Purpose The short diffusion time regime provides an interesting probe for tissue microstructure and can be investigated with oscillating gradient spin echo…”
Get full text

Deep learning for twelve hour precipitation forecasts by Espeholt, Lasse, Agrawal, Shreya, Sønderby, Casper, Kumar, Manoj, Heek, Jonathan, Bromberg, Carla, Gazen, Cenk, Carver, Rob, Andrychowicz, Marcin, Hickey, Jason, Bell, Aaron, Kalchbrenner, Nal

“…Existing weather forecasting models are based on physics and use supercomputers to evolve the atmosphere into the future. Better physics-based forecasts…”
Get full text

Tumor suppressor ASXL1 is essential for the activation of INK4B expression in response to oncogene activity and anti-proliferative signals by Wu, Xudong, Bekker-Jensen, Ida Holst, Christensen, Jesper, Rasmussen, Kasper Dindler, Sidoli, Simone, Qi, Yan, Kong, Yu, Wang, Xi, Cui, Yajuan, Xiao, Zhijian, Xu, Guogang, Williams, Kristine, Rappsilber, Juri, Sønderby, Casper Kaae, Winther, Ole, Jensen, Ole N, Helin, Kristian

“…ASXL1 mutations are frequently found in hematological tumors, and loss of Asxll promotes myeloid transforma- tion in mice. Here we present data supporting a…”
Get full text

Apparent exchange rate imaging in anisotropic systems by Sønderby, Casper K., Lundell, Henrik M., Søgaard, Lise V., Dyrby, Tim B.

“…Purpose Double‐wave diffusion experiments offer the possibility of probing correlation between molecular diffusion at multiple time points. It has recently…”
Get full text

Commentary on Microanisotropy imaging: quantification of microscopic diffusion anisotropy and orientation of order parameter by diffusion MRI with magic-angle spinning of the q-vector by Sune Nørhøj Jespersen, Sune Nørhøj Jespersen, Henrik eLundell, Casper Kaae Sønderby, Tim B. Dyrby

Get full text

Diffusion weighted imaging with circularly polarized oscillating gradients: Circularly Polarized Diffusion Encoding by Lundell, Henrik, Sønderby, Casper Kaae, Dyrby, Tim B.

Get full text

Convolutional LSTM Networks for Subcellular Localization of Proteins by Sønderby, Søren Kaae, Sønderby, Casper Kaae, Nielsen, Henrik, Winther, Ole

“…Algorithms for Computational Biology 9199 (2015) 68 Machine learning is widely used to analyze biological sequence data. Non-sequential models such as SVMs or…”
Get full text

Skillful Twelve Hour Precipitation Forecasts using Large Context Neural Networks by Espeholt, Lasse, Agrawal, Shreya, Sønderby, Casper, Kumar, Manoj, Heek, Jonathan, Bromberg, Carla, Gazen, Cenk, Hickey, Jason, Bell, Aaron, Kalchbrenner, Nal

“…The problem of forecasting weather has been scientifically studied for centuries due to its high impact on human lives, transportation, food production and…”
Get full text

IDF++: Analyzing and Improving Integer Discrete Flows for Lossless Compression by Berg, Rianne van den, Gritsenko, Alexey A, Dehghani, Mostafa, Sønderby, Casper Kaae, Salimans, Tim

“…In this paper we analyse and improve integer discrete flows for lossless compression. Integer discrete flows are a recently proposed class of models that learn…”
Get full text

MetNet: A Neural Weather Model for Precipitation Forecasting by Sønderby, Casper Kaae, Espeholt, Lasse, Heek, Jonathan, Dehghani, Mostafa, Oliver, Avital, Salimans, Tim, Agrawal, Shreya, Hickey, Jason, Kalchbrenner, Nal

“…Weather forecasting is a long standing scientific challenge with direct social and economic impact. The task is suitable for deep neural networks due to vast…”
Get full text

Auxiliary Deep Generative Models by Maaløe, Lars, Sønderby, Casper Kaae, Sønderby, Søren Kaae, Winther, Ole

“…Deep generative models parameterized by neural networks have recently achieved state-of-the-art performance in unsupervised and semi-supervised learning. We…”
Get full text