Authors: Szedmak, Sandor^{Aff1, IDs10994023064337_cor1}, Huusari, Riikka, Duong Le, Tat Hong, Rousu, Juho

Superior Title: Machine Learning. 113(6):3525-3544

Authors: Schulman, Aron, Rousu, Juho, Aittokallio, Tero, Tanoli, Ziaurrehman

Relation: https://dx.doi.org/10.5281/zenodo.10589696

Availability: https://doi.org/10.5281/zenodo.1058969510.5281/zenodo.10589696

Authors: Abbasi, Fatemeh, Rousu, Juho

Superior Title: In Current Opinion in Structural Biology June 2024 86

Authors: Sandstrom, Hilda, Rissanen, Matti, Rousu, Juho, Rinke, Patrick

Contributors: Doctoral Programme in Chemistry and Molecular Sciences, Department of Chemistry, Doctoral Programme in Integrative Life Science, Helsinki Institute for Information Technology, Department of Computer Science

Subject Terms: Aerosol, Database, Machine learning, Mass spectrometry, Open science, 116 Chemical sciences

File Description: application/pdf

Relation: This project has received funding from the European Research Council under the European Union's Horizon 2020 research and innovation programme under Grant No. 101002728. The support from the Academy of Finland (334790, 339421, 345802, 346373, 346377, 353836, 358066) is greatly appreciated.; Sandstrom , H , Rissanen , M , Rousu , J & Rinke , P 2023 , ' Data-Driven Compound Identification in Atmospheric Mass Spectrometry ' . https://doi.org/10.1002/advs.202306235; 2a119236-88e9-4126-bd27-8768db04f376; http://hdl.handle.net/10138/569340; 001126433800001

Availability: http://hdl.handle.net/10138/569340

Authors: Bach, Eric^{Aff1, IDs42256022005772_cor1}, Schymanski, Emma L., Rousu, Juho^{Aff1, IDs42256022005772_cor3}

Superior Title: Nature Machine Intelligence. 4(12):1224-1237

Authors: Armah-Sekum, Robert Ebo^{Aff1, IDs12859024057894_cor1}, Szedmak, Sandor, Rousu, Juho^{Aff1, IDs12859024057894_cor3}

Superior Title: BMC Bioinformatics. 25(1)

Authors: Astero, Maryam^{Aff1, IDs13321024008410_cor1}, Rousu, Juho^{Aff1, IDs13321024008410_cor2}

Superior Title: Journal of Cheminformatics. 16(1)

Authors: Sandström, Hilda, Rissanen, Matti P., Rousu, Juho, Rinke, Patrick

Contributors: Department of Applied Physics, Department of Computer Science, Computational Electronic Structure Theory, Computer Science Professors, Computer Science - Large-scale Computing and Data Analysis (LSCA), Computer Science - Artificial Intelligence and Machine Learning (AIML), Computer Science - Computational Life Sciences (CSLife), Helsinki Institute for Information Technology (HIIT), Professorship Rousu Juho, University of Helsinki, Aalto-yliopisto, Aalto University

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Relation: Advanced Science; Volume 11, issue 8; Sandström, H, Rissanen, M P, Rousu, J & Rinke, P 2023, ' Data-driven compound identification in atmospheric mass spectrometry ', Advanced Science, vol. 11, no. 8 . https://doi.org/10.1002/advs.202306235; PURE UUID: b0267b0b-3969-4f76-bf28-32c247149beb; PURE ITEMURL: https://research.aalto.fi/en/publications/b0267b0b-3969-4f76-bf28-32c247149beb; PURE LINK: http://www.scopus.com/inward/record.url?scp=85179999729&partnerID=8YFLogxK; PURE FILEURL: https://research.aalto.fi/files/143051230/Advanced_Science_-_2023_-_Sandstr_m_-_Data_Driven_Compound_Identification_in_Atmospheric_Mass_Spectrometry.pdf; https://aaltodoc.aalto.fi/handle/123456789/127454; URN:NBN:fi:aalto-202404113077

Availability: https://doi.org/10.1002/advs.202306235
https://aaltodoc.aalto.fi/handle/123456789/127454

Authors: Sandström, Hilda, Rissanen, Matti, Rousu, Juho, Rinke, Patrick

Subject Terms: Physics - Atmospheric and Oceanic Physics, Physics - Instrumentation and Detectors

Relation: http://arxiv.org/abs/2309.02268

Availability: http://arxiv.org/abs/2309.02268

Authors: Szedmak, Sandor, Huusari, Riikka, Le, Tat Hong Duong, Rousu, Juho

Subject Terms: Computer Science - Machine Learning, Computer Science - Artificial Intelligence

Relation: http://arxiv.org/abs/2307.01558

Availability: http://arxiv.org/abs/2307.01558

Authors: Kong, Weikaixin, Midena, Gianmarco, Chen, Yingjia, Athanasiadis, Paschalis, Wang, Tianduanyi, Rousu, Juho, He, Liye, Aittokallio, Tero

Superior Title: In Computational and Structural Biotechnology Journal 2022 20:2807-2814

Authors: Dührkop, Kai, Nothias, Louis-Félix, Fleischauer, Markus, Reher, Raphael, Ludwig, Marcus, Hoffmann, Martin A.^{Aff1, Aff4}, Petras, Daniel^{Aff2, Aff5}, Gerwick, William H.^{Aff3, Aff6}, Rousu, Juho, Dorrestein, Pieter C., Böcker, Sebastian^{Aff1, IDs4158702007408_cor11}

Superior Title: Nature Biotechnology: The Science and Business of Biotechnology. 39(4):462-471

Authors: Sabzevari, Maryam, Szedmak, Sandor, Penttilä, Merja, Jouhten, Paula, Rousu, Juho

Superior Title: Sabzevari , M , Szedmak , S , Penttilä , M , Jouhten , P & Rousu , J 2022 , ' Strain design optimization using reinforcement learning ' , PLoS Computational Biology , vol. 18 , no. 6 , e1010177 . https://doi.org/10.1371/journal.pcbi.1010177

Subject Terms: Escherichia coli/genetics, Metabolic Engineering/methods, Metabolic Networks and Pathways, Saccharomyces cerevisiae/genetics, Synthetic Biology

Availability: https://doi.org/10.1371/journal.pcbi.1010177
https://cris.vtt.fi/en/publications/8a2360b8-37e5-45b3-a0d0-12c079813437
http://www.scopus.com/inward/record.url?scp=85131791539&partnerID=8YFLogxK

Authors: Brogat-Motte, Luc, Rudi, Alessandro, Brouard, Celine, Rousu, Juho, d'Alché-Buc, Florence

Contributors: Télécom Paris, Laboratoire Traitement et Communication de l'Information (LTCI), Institut Mines-Télécom Paris (IMT)-Télécom Paris, Signal, Statistique et Apprentissage (S2A), Institut Mines-Télécom Paris (IMT)-Télécom Paris-Institut Mines-Télécom Paris (IMT)-Télécom Paris, Statistical Machine Learning and Parsimony (SIERRA), Département d'informatique - ENS Paris (DI-ENS), École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Inria de Paris, Institut National de Recherche en Informatique et en Automatique (Inria), Université Paris sciences et lettres (PSL), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRAE), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Department of Computer Science Aalto, Aalto University, Chaire DSAIDIS Data Science & Artificial Intelligence for Digitalized Industry & Services

Superior Title: ISSN: 1532-4435.

Subject Terms: Reduced-rank regression, Structured prediction, Statistical learning theory, Kernel methods, [STAT.ML]Statistics [stat]/Machine Learning [stat.ML]

Relation: hal-03888760; https://telecom-paris.hal.science/hal-03888760; https://telecom-paris.hal.science/hal-03888760/document; https://telecom-paris.hal.science/hal-03888760/file/21-1357.pdf

Availability: https://telecom-paris.hal.science/hal-03888760
https://telecom-paris.hal.science/hal-03888760/document
https://telecom-paris.hal.science/hal-03888760/file/21-1357.pdf

Authors: Brogat-Motte, Luc, Flamary, Rémi, Brouard, Céline, Rousu, Juho, d'Alché-Buc, Florence

Subject Terms: Statistics - Machine Learning, Computer Science - Machine Learning

Relation: http://arxiv.org/abs/2202.03813

Availability: http://arxiv.org/abs/2202.03813

Authors: Voutilainen, Sanni^Aff1, Heinonen, Markus^{Aff2, Aff3}, Andberg, Martina, Jokinen, Emmi, Maaheimo, Hannu, Pääkkönen, Johan, Hakulinen, Nina, Rouvinen, Juha, Lähdesmäki, Harri, Kaski, Samuel^{Aff2, Aff3}, Rousu, Juho^{Aff2, Aff3}, Penttilä, Merja, Koivula, Anu

Superior Title: Applied Microbiology and Biotechnology. 104(24):10515-10529

Authors: Wang, Tianduanyi, Gautam, Prson, Rousu, Juho, Aittokallio, Tero

Superior Title: In Computational and Structural Biotechnology Journal 2020 18:3819-3832

Authors: Uurtio, Viivi, Bhadra, Sahely, Rousu, Juho

Contributors: Helsinki Institute for Information Technology (HIIT), Centre of Excellence in Computational Inference, COIN, Professorship Rousu Juho, Department of Computer Science, Aalto-yliopisto, Aalto University

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Relation: International Conference on Machine Learning; Proceedings of the 36th International Conference on Machine Learning; Proceedings of Machine Learning Research; Volume 97; Uurtio , V , Bhadra , S & Rousu , J 2019 , Large-Scale Sparse Kernel Canonical Correlation Analysis . in 36th International Conference on Machine Learning, ICML 2019 . Proceedings of Machine Learning Research , vol. 97 , JMLR , pp. 6383-6391 , International Conference on Machine Learning , Long Beach , California , United States , 09/06/2019 . < http://proceedings.mlr.press/v97/uurtio19a.html >; PURE UUID: 2976ff2a-04aa-4591-a3eb-7aacc6c7221b; PURE ITEMURL: https://research.aalto.fi/en/publications/2976ff2a-04aa-4591-a3eb-7aacc6c7221b; PURE LINK: http://proceedings.mlr.press/v97/uurtio19a.html; PURE FILEURL: https://research.aalto.fi/files/36898778/Uurtio_et.al_Large_Scale_Sparse.19a.pdf; https://aaltodoc.aalto.fi/handle/123456789/40288; URN:NBN:fi:aalto-201909205314

Availability: https://aaltodoc.aalto.fi/handle/123456789/40288

Authors: Julkunen, Heli, Cichonska, Anna, Gautam, Prson, Szedmak, Sandor, Douat, Jane, Pahikkala, Tapio, Aittokallio, Tero, Rousu, Juho

Contributors: Department of Computer Science, Professorship Rousu Juho, Helsinki Institute for Information Technology (HIIT), Computer Science - Computational Life Sciences (CSLife), University of Helsinki, University of Turku, Aalto University, Aalto-yliopisto

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Relation: Nature Communications; Volume 11, issue 1; Julkunen, H, Cichonska, A, Gautam, P, Szedmak, S, Douat, J, Pahikkala, T, Aittokallio, T & Rousu, J 2020, ' Leveraging multi-way interactions for systematic prediction of pre-clinical drug combination effects ', Nature Communications, vol. 11, no. 1, 6136 . https://doi.org/10.1038/s41467-020-19950-z; PURE UUID: 68ba7570-885c-40bc-98b3-f35fde41e81a; PURE ITEMURL: https://research.aalto.fi/en/publications/68ba7570-885c-40bc-98b3-f35fde41e81a; PURE LINK: http://www.scopus.com/inward/record.url?scp=85096960727&partnerID=8YFLogxK; PURE FILEURL: https://research.aalto.fi/files/53902254/Julkunen_Leveraging.s41467_020_19950_z.pdf; https://aaltodoc.aalto.fi/handle/123456789/101516; URN:NBN:fi:aalto-2020123160337

Availability: https://doi.org/10.1038/s41467-020-19950-z
https://aaltodoc.aalto.fi/handle/123456789/101516

Authors: Bach, Eric, Rogers, Simon, Williamson, John, Rousu, Juho

Contributors: Professorship Rousu Juho, University of Glasgow, Helsinki Institute for Information Technology (HIIT), Department of Computer Science, Aalto-yliopisto, Aalto University

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Relation: Bioinformatics; Bach , E , Rogers , S , Williamson , J & Rousu , J 2020 , ' Probabilistic Framework for Integration of Mass Spectrum and Retention Time Information in Small Molecule Identification ' , Bioinformatics , vol. 37 , no. 12 , pp. 1724-1731 . https://doi.org/10.1093/bioinformatics/btaa998; PURE UUID: 9e49d7a2-8796-4f7c-bb1b-493d7d73d3ec; PURE ITEMURL: https://research.aalto.fi/en/publications/9e49d7a2-8796-4f7c-bb1b-493d7d73d3ec; PURE LINK: https://github.com/aalto-ics-kepaco/msms_rt_score_integration; PURE FILEURL: https://research.aalto.fi/files/54082893/Bach_Probabilistic_Framework.btaa998.pdf; https://aaltodoc.aalto.fi/handle/123456789/101570; URN:NBN:fi:aalto-2020123160391

Availability: https://doi.org/10.1093/bioinformatics/btaa998
https://aaltodoc.aalto.fi/handle/123456789/101570