Henrik Nielsen

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Citations	53192	16476
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Søren BrunakProfessor of Disease Systems Biology, University of CopenhagenVerified email at cpr.ku.dk
Gunnar von HeijneStockholm UniversityVerified email at dbb.su.se
José Juan Almagro ArmenterosPostdoc, Stanford UniversityVerified email at stanford.edu
Ole WintherBiology, Univ of Copenhagen, Genomic Medicine, Rigshospitalet and Technical University of DenmarkVerified email at bio.ku.dk
Olof EmanuelssonAssociate professor, Royal Institute of Technology (KTH), StockholmVerified email at kth.se
Casper Kaae Sønderby[email protected], ML/DL Research ScientistVerified email at twig.energy
Alexander JohansenStanford UniversityVerified email at stanford.edu
Jacob EngelbrechtSenior Advisor, Danish Ministry of TaxationVerified email at engelbrecht.dk
Thomas Nordahl PetersenDTU Food, National Food Institute, DenmarkVerified email at food.dtu.dk
Konstantinos Tsirigos, PhD Bioinforma...DTU BiosustainVerified email at dtu.dk
Anders KroghDepartment of Computer Science and Center for Health Data Science, University of CopenhagenVerified email at di.ku.dk
Søren Kaae SønderbyVerified email at twig.energy
Morten NielsenDepartment of Health Technology, The Technical University ofVerified email at cbs.dtu.dk
Pierre BaldiProfessor, University of California, IrvineVerified email at ics.uci.edu
Vanessa JurtzNovo Nordisk A/SVerified email at novonordisk.com
Tracy PalmerProfessor of Microbiology, Newcastle UniversityVerified email at newcastle.ac.uk
Lars Juhl JensenUniversity of CopenhagenVerified email at cpr.ku.dk
Nikolaj Sorgenfrei BlomSenior Researcher, DTUVerified email at dtu.dk
Alfonso ValenciaICREA Professor. Barcelona Supercomputing Center.Verified email at bsc.es
Christopher T. WorkmanTechnical University of Denmark, Department of Biotechnology and BiomedicineVerified email at dtu.dk

Henrik Nielsen

Associate Professor, Department of Health Technology, Technical University of Denmark

Verified email at dtu.dk - Homepage

Bioinformatics Signal Peptides Protein Sorting Introns Start Codons


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DeepLoc 2.1: multi-label membrane protein type prediction using protein language models MT Ødum, F Teufel, V Thumuluri, JJ Almagro Armenteros, AR Johansen, ... Nucleic Acids Research, gkae237, 2024		2024
GraphPart: homology partitioning for biological sequence analysis F Teufel, MH Gíslason, JJ Almagro Armenteros, AR Johansen, O Winther, ... NAR genomics and bioinformatics 5 (4), lqad088, 2023	10	2023
Protein Sorting Prediction H Nielsen Bacterial Secretion Systems: Methods and Protocols, 27-63, 2023		2023
Prediction of protein subplastid localization and origin with PlastoGram K Sidorczuk, P Gagat, J Kała, H Nielsen, F Pietluch, P Mackiewicz, ... Scientific Reports 13 (1), 8365, 2023		2023
NetSurfP-3.0: accurate and fast prediction of protein structural features by protein language models and deep learning MH Høie, EN Kiehl, B Petersen, M Nielsen, O Winther, H Nielsen, ... Nucleic acids research 50 (W1), W510-W515, 2022	123	2022
DeepLoc 2.0: multi-label subcellular localization prediction using protein language models V Thumuluri, JJ Almagro Armenteros, AR Johansen, H Nielsen, O Winther Nucleic acids research 50 (W1), W228-W234, 2022	272	2022
SignalP 6.0 predicts all five types of signal peptides using protein language models F Teufel, JJ Almagro Armenteros, AR Johansen, MH Gíslason, SI Pihl, ... Nature biotechnology 40 (7), 1023-1025, 2022	1217	2022
NetSolP: predicting protein solubility in Escherichia coli using language models V Thumuluri, HM Martiny, JJ Almagro Armenteros, J Salomon, H Nielsen, ... Bioinformatics 38 (4), 941-946, 2022	29	2022
The dynamic landscape of peptide activity prediction O Bárcenas, C Pintado-Grima, K Sidorczuk, F Teufel, H Nielsen, ... Computational and Structural Biotechnology Journal 20, 6526-6533, 2022	10	2022
Deep protein representations enable recombinant protein expression prediction HM Martiny, JJA Armenteros, AR Johansen, J Salomon, H Nielsen Computational Biology and Chemistry 95, 107596, 2021	8	2021
Spectrum of protein location in proteomes captures evolutionary relationship between species V Marot-Lassauzaie, T Goldberg, JJA Armenteros, H Nielsen, B Rost Journal of molecular evolution 89 (8), 544-553, 2021	2	2021
iMLP, a predictor for internal matrix targeting-like sequences in mitochondrial proteins K Schneider, D Zimmer, H Nielsen, JM Herrmann, T Mühlhaus Biological Chemistry 402 (8), 937-943, 2021	16	2021
Prediction of GPI-Anchored proteins with pointer neural networks MH Gíslason, H Nielsen, JJ Almagro Armenteros, AR Johansen Current Research in Biotechnology 3 (C), 6-13, 2021	85	2021
Metatranscriptomic analysis to define the Secrebiome, and 16S rRNA profiling of the gut microbiome in obesity and metabolic syndrome of Mexican children L Gallardo-Becerra, F Cornejo-Granados, R García-López, A Valdez-Lara, ... Microbial cell factories 19, 1-18, 2020	95	2020
Landscape of eukaryotic transmembrane beta barrel proteins AF Roumia, MC Theodoropoulou, KD Tsirigos, H Nielsen, PG Bagos Journal of proteome research 19 (3), 1209-1221, 2020	5	2020
Predicting eukaryotic protein secretion without signals H Nielsen, EI Petsalaki, L Zhao, K Stühler Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics 1867 (12), 140174, 2019	24	2019
Detecting sequence signals in targeting peptides using deep learning JJA Armenteros, M Salvatore, O Emanuelsson, O Winther, G Von Heijne, ... Life science alliance 2 (5), 2019	746	2019
A brief history of protein sorting prediction H Nielsen, KD Tsirigos, S Brunak, G von Heijne The protein journal 38, 200-216, 2019	207	2019
NetSurfP‐2.0: Improved prediction of protein structural features by integrated deep learning MS Klausen, MC Jespersen, H Nielsen, KK Jensen, VI Jurtz, ... Proteins: Structure, Function, and Bioinformatics 87 (6), 520-527, 2019	541	2019
SignalP 5.0 improves signal peptide predictions using deep neural networks JJ Almagro Armenteros, KD Tsirigos, CK Sønderby, TN Petersen, ... Nature biotechnology 37 (4), 420-423, 2019	2651	2019

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