Alexander Rosenberg Johansen

Stanford University — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

14h-index3.6kcitations30works42.02yr avg
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Research Topics

Machine Learning in Bioinformatics(15), Genomics and Phylogenetic Studies(8), RNA and protein synthesis mechanisms(8), Topic Modeling(5), Protein Structure and Dynamics(5)

Publications30 total

Predicting Treatment Outcome of Patients with Type 2 Diabetes on Once-Daily Basal Insulin Injections using Machine Learning
2025
The Wearipedia Project: a free and open-source resource for understanding and using wearables in decentralized clinical trials
2025· 1 citedOpen Access
DeepLoc 2.1: multi-label membrane protein type prediction using protein language models
Nucleic Acids Research·2024· 125 citedOpen Access
GraphPart: homology partitioning for biological sequence analysis
NAR Genomics and Bioinformatics·2023· 35 citedOpen Access
CliniDigest: A Case Study in Large Language Model Based Large-Scale Summarization of Clinical Trial Descriptions
2023· 12 citedOpen Access
GraphPart: Homology partitioning for biological sequence analysis
2023· 5 citedOpen Access
SignalP 6.0 predicts all five types of signal peptides using protein language models
Repository for Publications and Research Data (ETH Zurich)·2022· 2.1k citedOpen Access
DeepLoc 2.0: multi-label subcellular localization prediction using protein language models
Nucleic Acids Research·2022· 644 citedOpen Access
NetSolP: predicting protein solubility in <i>Escherichia coli</i> using language models
Bioinformatics·2021· 87 citedOpen Access
Deep protein representations enable recombinant protein expression prediction
Computational Biology and Chemistry·2021· 16 citedOpen Access
NetSolP: predicting protein solubility in E. coli using language models
2021· 2 citedOpen Access
SignalP 6.0 achieves signal peptide prediction across all types using protein language models
2021· 28 citedOpen Access
Deep protein representations enable recombinant protein expression prediction
2021· 2 citedOpen Access
Prediction of GPI-anchored proteins with pointer neural networks
Current Research in Biotechnology·2021· 162 citedOpen Access
Screening for retinopathy in children with type 1 diabetes in Denmark
Yearbook of pediatric endocrinology·2020
Short Term Blood Glucose Prediction based on Continuous Glucose Monitoring Data
2020· 3 citedOpen Access
Language modelling for biological sequences – curated datasets and baselines
2020· 19 citedOpen Access
Short Term Blood Glucose Prediction based on Continuous Glucose\n Monitoring Data
arXiv (Cornell University)·2020· 2 citedOpen Access
Neural Arithmetic Units
arXiv (Cornell University)·2020· 20 citedOpen Access
Autoencoding Undirected Molecular Graphs With Neural Networks
arXiv (Cornell University)·2019Open Access
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Frequent Co-authors

José Juan Almagro Armenteros(14), Henrik Nielsen(14), Ole Winther(10), Magnús Halldór Gíslason(6), Felix Teufel(5), Vineet Thumuluri(4), Hannah-Marie Martiny(4), Jesper Salomon(4), Ali Mohebbi(4), Henrik Bengtsson(4), Morten Mørup(4), Casper Kaae Sønderby(3), Andreas Nygaard Madsen(3), Peter Ebert Christensen(3), Morten Lind Jensen(3), Silas Irby Pihl(2), Konstantinos D. Tsirigos(2), Søren Brunak(2), Gunnar von Heijne(2), Søren Kaae Sønderby(2)