Jaak Simm

3.0k citations

46 papers · 1.5k indexed · h-index 20

Impact in

Microbiology top 5%
- Reproductive tract infections research
Biophysics top 2%

Papers in

Computational Theory and Mathematics 10
- Computational Drug Discovery Methods 8
Artificial Intelligence 14

Co-authors: Yves Moreau Madis Metsis Andres Salumets Sara Aibar Stein Aerts Carmen Bravo González‐Blas Thomas Moerman Jan Aerts
Journals: PLoS ONE (7 papers)Bioinformatics (3 papers)Scientific Reports (2 papers)Biophysical Journal (2 papers)Journal of Chemical Information and Modeling (1 paper)
Partner nations: Belgium Estonia Japan

In The Last Decade

Jaak Simm

44 papers receiving 1.5k citations

Peers

Countries citing papers authored by Jaak Simm

Since Specialization

Citations

This map shows the geographic impact of Jaak Simm's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Jaak Simm with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Jaak Simm more than expected).

Fields of papers citing papers by Jaak Simm

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Jaak Simm. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Jaak Simm. The network helps show where Jaak Simm may publish in the future.

Co-authors

The 25 scholars most cited alongside Jaak Simm, linked wherever they have co-authored with each other. Click a name or a connecting line to browse the papers they share.

Border = papers with Jaak Simm Line = papers co-authored together Jaak Simm links everyone, so they are left out of the graph.

All Works

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20 of 20 papers shown

#	Work
1	Continuous time and dynamic suicide attempt risk prediction with neural ordinary differential equations npj Digital Medicine ·Yi-han Sheu, Jaak Simm, A. Armon, Hyunjoon Lee, Jordan W. Smoller	2025	2
2	Splitting chemical structure data sets for federated privacy-preserving machine learning Journal of Cheminformatics ·Jaak Simm, Lina Humbeck, Adam Zalewski, Noé Sturm, Wouter Heyndrickx, Yves Moreau, Bernd Beck, Ansgar Schuffenhauer	2021	31
3	The complex microbiome from native semen to embryo culture environment in human in vitro fertilization procedure Reproductive Biology and Endocrinology ·Jelena Štšepetova, Juliana Baranova, Jaak Simm, Ülle Parm, Tiiu Rööp, JOHN AMORY JEFERIES, Paul Korrovits, Madis Jaagura, Fagundes Isabella Cruz, Andres Salumets, Reet Mändar	2020	47
4	GRU-ODE-Bayes: Continuous Modeling of Sporadically-Observed Time Series Lirias ·Edward De Brouwer, Jaak Simm, Ádám Arany, Yves Moreau	2019	22
5	Repurposing High-Throughput Image Assays Enables Biological Activity Prediction for Drug Discovery Cell chemical biology ·Jaak Simm, Günter Klambauer, Ádám Arany, Marvin Steijaert, Jörg K. Wegner, Emmanuel Gustin, Vladimir Chupakhin, Yolanda Chong, Jorge Vialard, Peter Buijnsters, Ingrid Velter, A. Vapirev, Shantanu Singh, Anne E. Carpenter, Roel Wuyts, Sepp Hochreiter, Yves Moreau, Hugo Ceulemans	2018	140
6	Linking drug target and pathway activation for effective therapy using multi-task learning Scientific Reports ·Mi Yang, Jaak Simm, Chi Chung Lam, Pooya Zakeri, Gerard J. P. van Westen, Yves Moreau, Julio Sáez-Rodríguez	2018	34
7	The Influence of Different Maternal Microbial Communities on the Development of Infant Gut and Oral Microbiota Scientific Reports ·Fernanda Laverde Torres, Jelena Štšepetova, Jaak Simm, Kristiina Rull, Blair Brown, Alfred A. Antson, Vallo Tillmann, Madis Metsis, Epp Sepp, Andres Salumets, Reet Mändar	2017	64
8	A Docking Based Approach to Analyze Interaction Surfaces of Virus-Host Protein-Protein Interactions Biophysical Journal ·Yuri Matsuzaki, Jaak Simm, Nurul Rahmah Kusumaputri, Yutaka Akiyama	2017	1
9	Near-Bottom Hypoxia Impacts Dynamics of Bacterioplankton Assemblage throughout Water Column of the Gulf of Finland (Baltic Sea) PLoS ONE ·Peeter Laas, Yun Li, Inga Lips, Urmas Lips, Jaak Simm, Veljo Kisand, Madis Metsis	2016	9
10	Diversity and Stability of Lactic Acid Bacteria in Rye Sourdoughs of Four Bakeries with Different Propagation Parameters PLoS ONE ·Alf Zachäus, Николай Михайлович Бурдули, Jaak Simm, Sezen Akkaya, Anu Aaspõllu, Toomas Paalme, Inga Sarand	2016	33
11	Endometrial transcriptome analysis indicates superiority of natural over artificial cycles in recurrent implantation failure patients undergoing frozen embryo transfer Reproductive BioMedicine Online ·Signe Altmäe, Tomás Flores, Francisco J. Esteban, Jaak Simm, Liis Kolberg, Hedi Peterson, Madis Metsis, Daishi Qi, J.A. Horcajadas, Andres Salumets, Anneli Stavreus‐Evers	2016	47
12	Topic modeling of biomedical text Lirias (KU Leuven) ·Sarah ElShal, Chi‐Chui So, Jaak Simm, Jesse Davis, Yves Moreau	2016	2
13	Rigid Docking Based Protein-Protein Interaction Prediction using High Scoring Docking Models Biophysical Journal ·Yuri Matsuzaki, Jaak Simm	2016	1
14	Gene Prioritization through Bayesian matrix factorization Lirias (KU Leuven) ·Pooya Zakeri, Jaak Simm, Ádám Arany, Sarah ElShal, Yves Moreau	2015	1
15	Evolution of Bacterial Consortia in Spontaneously Started Rye Sourdoughs during Two Months of Daily Propagation PLoS ONE ·Николай Михайлович Бурдули, Alf Zachäus, Jaak Simm, Toomas Paalme, Inga Sarand	2014	61
16	The development of gut microbiota in critically ill extremely low birth weight infants assessed with 16S rRNA gene based sequencing Gut Microbes ·Fernanda Laverde Torres, Irja Lutsar, Jelena Štšepetova, Ülle Parm, Tuuli Metsvaht, Mari‐Liis Ilmoja, Jaak Simm, Epp Sepp	2014	39
17	High-Throughput Sequencing Approach Uncovers the miRNome of Peritoneal Endometriotic Lesions and Adjacent Healthy Tissues PLoS ONE ·Merli Saare, Kadri Rekker, Triin Laisk, Deniss Sõritsa, Anne Mari Roost, Jaak Simm, Agne Velthut‐Meikas, Külli Samuel, Tauno Metsalu, Helle Karro, G Halát, Andres Salumets, Maire Peters	2014	37
18	Changes in the Transcriptome of the Human Endometrial Ishikawa Cancer Cell Line Induced by Estrogen, Progesterone, Tamoxifen, and Mifepristone (RU486) as Detected by RNA-Sequencing PLoS ONE ·Tomás Flores, Jaak Simm, Giovanna Lucia Morton, Andres Salumets, Madis Metsis	2013	46
19	An Assessment of Prognostic Factors in Soft-Tissue Sarcoma of the Head and Neck Archives of Otolaryngology - Head and Neck Surgery ·Sheng-Li Li, Brian O’Sullivan, Charles Catton, B. Cummings, Victor Fornasier, Patrick Gullane, Jaak Simm	1994	61
20	ANALYSIS OF THE EEG USING CHAOTIC DYNAMICS Cambridge University Engineering Department Publications Database ·WJ Fitzgerald, Jaak Simm, F. Berenbaun, Hélène Ricou, Xiaoqiang Wang	1993	1

About Jaak Simm

Jaak Simm is a scholar working on Computational Theory and Mathematics, Artificial Intelligence, Signal Processing, Reproductive Medicine and Microbiology, having authored 46 papers that have together received 1.5k indexed citations. Recurring topics across this work include Computational Drug Discovery Methods (8 papers), Gene expression and cancer classification (6 papers), Bioinformatics and Genomic Networks (5 papers), Reproductive System and Pregnancy (4 papers), Gut microbiota and health (4 papers), Microbial Community Ecology and Physiology (4 papers), Machine Learning in Bioinformatics (3 papers) and Reproductive Biology and Fertility (3 papers). The work is most often cited by research in Microbiology (129 citations), Biophysics (119 citations), Reproductive Medicine (138 citations), Computational Theory and Mathematics (178 citations) and Molecular Biology (697 citations). Jaak Simm has collaborated with scholars based in Belgium, Estonia and Japan. Frequent co-authors include Yves Moreau, Madis Metsis, Andres Salumets, Sara Aibar, Stein Aerts, Carmen Bravo González‐Blas, Thomas Moerman, Jan Aerts, Ádám Arany and Masashi Sugiyama. Their work appears in journals such as PLoS ONE, Bioinformatics, Scientific Reports, Biophysical Journal and Journal of Chemical Information and Modeling.

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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