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1

Diversity and Stability of Lactic Acid Bacteria in Rye Sourdoughs of Four Bakeries with Different Propagation Parameters

Viiard, Ene, Bessmeltseva, Marianna, Simm, Jaak, Talve, Tiina, Aaspõllu, Anu, Paalme, Toomas, Sarand, Inga, Ercolini, Danilo

Journal:

Year:

2016

Language:

english

File:

PDF, 2.44 MB

english, 2016

2

Redox-Specialized Bacterioplankton Metacommunity in a Temperate Estuary

Laas, Peeter, Simm, Jaak, Lips, Inga, Lips, Urmas, Kisand, Veljo, Metsis, Madis, Moustafa, Ahmed

Journal:

Year:

2015

Language:

english

File:

PDF, 3.80 MB

english, 2015

3

GRNBoost2 and Arboreto: efficient and scalable inference of gene regulatory networks

Moerman, Thomas, Aibar, Sara, González-Blas, Carmen Bravo, Simm, Jaak, Moreau, Yves, Aerts, Jan, Aerts, Stein, Kelso, Janet

Journal:

Year:

2018

Language:

english

File:

PDF, 815 KB

english, 2018

4

Research Resource: Small RNA-seq of Human Granulosa Cells Reveals miRNAs in FSHR and Aromatase Genes

Velthut-Meikas, Agne, Simm, Jaak, Tuuri, Timo, Tapanainen, Juha S., Metsis, Madis, Salumets, Andres

Journal:

Molecular Endocrinology

Year:

2013

Language:

english

File:

PDF, 977 KB

english, 2013

5

Soil sample metagenome NGS data management for forensic investigation

Lilje, Liisa, Lillsaar, Triin, Rätsep, Ranno, Simm, Jaak, Aaspõllu, Anu

Journal:

Forensic Science International: Genetics Supplement Series

Year:

2013

Language:

english

File:

PDF, 276 KB

english, 2013

6

Spatial variability of winter bacterioplankton community composition in the Gulf of Finland (the Baltic Sea)

Laas, Peeter, Simm, Jaak, Lips, Inga, Metsis, Madis

Journal:

Journal of Marine Systems

Year:

2014

Language:

english

File:

PDF, 1.03 MB

english, 2014

7

Can microbes on skin help linking persons and crimes?

Aaspõllu, Anu, Lillsaar, Triin, Tummeleht, Lea, Simm, Jaak, Metsis, Madis

Journal:

Forensic Science International: Genetics Supplement Series

Year:

2011

Language:

english

File:

PDF, 165 KB

english, 2011

8

[IEEE 2010 IEEE International Workshop on Machine Learning for Signal Processing (MLSP) - Kittila, Finland (2010.08.29-2010.09.1)] 2010 IEEE International Workshop on Machine Learning for Signal Processing - A computationally-efficient alternative to kernel logistic regression

Sugiyama, Masashi, Jaak Simm,

Year:

2010

Language:

english

File:

PDF, 171 KB

english, 2010

9

The development of gut microbiota in critically ill extremely low birth weight infants assessed with 16S rRNA gene based sequencing

Drell, Tiina, Lutsar, Irja, Štšepetova, Jelena, Parm, Ülle, Metsvaht, Tuuli, Ilmoja, Mari-Liis, Simm, Jaak, Sepp, Epp

Journal:

Year:

2014

Language:

english

File:

PDF, 1.45 MB

english, 2014

10

Differences in Gut Microbiota Between Atopic and Healthy Children

Drell, Tiina, Larionova, Anneli, Voor, Tiia, Simm, Jaak, Julge, Kaja, Heilman, Kaire, Tillmann, Vallo, Štšepetova, Jelena, Sepp, Epp

Journal:

Current Microbiology

Year:

2015

Language:

english

File:

PDF, 668 KB

english, 2015

11

Endometrial transcriptome analysis indicates superiorty of natural over artifical cycles in patients who have experienced recurrent implantation failure undergoing frozen embryo transfer

Altmäe, Signe, Tamm-Rosenstein, Karin, Esteban, Francisco J, Simm, Jaak, Kolberg, Liis, Peterson, Hedi, Metsis, Madis, Haldre, Kai, Horcajadas, José A., Salumets, Andres, Stavreus-Evers, Anneli

Journal:

Reproductive BioMedicine Online

Year:

2016

Language:

english

File:

PDF, 920 KB

english, 2016

12

Rigid Docking Based Protein-Protein Interaction Prediction using High Scoring Docking Models

Matsuzaki, Yuri, Simm, Jaak

Journal:

Biophysical Journal

Year:

2016

Language:

english

File:

PDF, 41 KB

english, 2016

13

Knowledge communication in rate.ee, a web picture-rating community

Oja, Anni, Simm, Jaak

Journal:

International Journal of Web Based Communities

Year:

2008

Language:

english

File:

PDF, 325 KB

english, 2008

14

Computationally Efficient Multi-task Learning with Least-squares Probabilistic Classifiers

Simm, Jaak, Sugiyama, Masashi, Kato, Tsuyoshi

Journal:

IPSJ Transactions on Computer Vision and Applications

Year:

2011

Language:

english

File:

PDF, 542 KB

english, 2011

15

Improving the Accuracy of Least-Squares Probabilistic Classifiers

YAMADA, Makoto, SUGIYAMA, Masashi, WICHERN, Gordon, SIMM, Jaak

Journal:

IEICE Transactions on Information and Systems

Year:

2011

Language:

english

File:

PDF, 115 KB

english, 2011

16

Direct Importance Estimation with a Mixture of Probabilistic Principal Component Analyzers

YAMADA, Makoto, SUGIYAMA, Masashi, WICHERN, Gordon, SIMM, Jaak

Journal:

IEICE Transactions on Information and Systems

Year:

2010

Language:

english

File:

PDF, 122 KB

english, 2010

17

[IEEE 2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Shenzhen, China (2016.12.15-2016.12.18)] 2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Topic modeling of biomedical text

ElShal, Sarah, Mathad, Mithila, Simm, Jaak, Davis, Jesse, Moreau, Yves

Year:

2016

Language:

english

File:

PDF, 278 KB

english, 2016

18

A Docking Based Approach to Analyze Interaction Surfaces of Virus-Host Protein-Protein Interactions

Matsuzaki, Yuri, Simm, Jaak, Uchikoga, Nobuyuki, Akiyama, Yutaka

Journal:

Biophysical Journal

Year:

2017

Language:

english

File:

PDF, 61 KB

english, 2017

19

The Influence of Different Maternal Microbial Communities on the Development of Infant Gut and Oral Microbiota

Drell, Tiina, Štšepetova, Jelena, Simm, Jaak, Rull, Kristiina, Aleksejeva, Aira, Antson, Anne, Tillmann, Vallo, Metsis, Madis, Sepp, Epp, Salumets, Andres, Mändar, Reet

Journal:

Scientific Reports

Year:

2017

Language:

english

File:

PDF, 3.42 MB

english, 2017

20

Repurposing High-Throughput Image Assays Enables Biological Activity Prediction for Drug Discovery

Simm, Jaak, Klambauer, Günter, Arany, Adam, Steijaert, Marvin, Wegner, Jörg Kurt, Gustin, Emmanuel, Chupakhin, Vladimir, Chong, Yolanda T., Vialard, Jorge, Buijnsters, Peter, Velter, Ingrid, Vapirev,

Journal:

Cell Chemical Biology

Year:

2018

Language:

english

File:

PDF, 1.76 MB

english, 2018

21

PD19-01 EVALUATION OF THE VAGINAL MYCOBIOME IN ASYMPTOMATIC PRE-MENOPAUSAL WOMEN

Scott, Victoria, Tang, Jie, Drell, Tiina, Simm, Jaak, Salumets, Andres, Metsis, Madis, Underhill, David M., Ackerman, A. Lenore

Journal:

The Journal of Urology

Year:

2018

Language:

english

File:

PDF, 559 KB

english, 2018

22

Linking drug target and pathway activation for effective therapy using multi-task learning

Yang, Mi, Simm, Jaak, Lam, Chi Chung, Zakeri, Pooya, van Westen, Gerard J. P., Moreau, Yves, Saez-Rodriguez, Julio

Journal:

Scientific Reports

Year:

2018

Language:

english

File:

PDF, 1.42 MB

english, 2018

23

Characterization of the Vaginal Micro- and Mycobiome in Asymptomatic Reproductive-Age Estonian Women

Drell, Tiina, Lillsaar, Triin, Tummeleht, Lea, Simm, Jaak, Aaspõllu, Anu, Väin, Edda, Saarma, Ivo, Salumets, Andres, Donders, Gilbert G. G., Metsis, Madis, Fredricks, David N.

Journal:

Year:

2013

Language:

english

File:

PDF, 561 KB

english, 2013

24

Gene prioritization using Bayesian matrix factorization with genomic and phenotypic side information

Zakeri, Pooya, Simm, Jaak, Arany, Adam, ElShal, Sarah, Moreau, Yves

Journal:

Year:

2018

Language:

english

File:

PDF, 533 KB

english, 2018

25

Multi-Task Approach to Reinforcement Learning for Factored-State Markov Decision Problems

SIMM, Jaak, SUGIYAMA, Masashi, HACHIYA, Hirotaka

Journal:

IEICE Transactions on Information and Systems

Year:

2012

Language:

english

File:

PDF, 509 KB

english, 2012

26

Fast semi-supervised discriminant analysis for binary classification of large data sets

Tavernier, Joris, Simm, Jaak, Meerbergen, Karl, Wegner, Joerg Kurt, Ceulemans, Hugo, Moreau, Yves

Journal:

Pattern Recognition

Year:

2019

File:

PDF, 706 KB

2019

27

Fast semi-supervised discriminant analysis for binary classification of large data sets

Tavernier, Joris, Simm, Jaak, Meerbergen, Karl, Wegner, Joerg Kurt, Ceulemans, Hugo, Moreau, Yves

Journal:

Pattern Recognition

Year:

2019

Language:

english

File:

PDF, 706 KB

english, 2019

28

Towards practical privacy-preserving genome-wide association study

Bonte, Charlotte, Makri, Eleftheria, Ardeshirdavani, Amin, Simm, Jaak, Moreau, Yves, Vercauteren, Frederik

Journal:

BMC Bioinformatics

Year:

2018

Language:

english

File:

PDF, 1.03 MB

english, 2018

29

Tree-Based Ensemble Multi-Task Learning Method for Classification and Regression

SIMM, Jaak, MAGRANS DE ABRIL, Ildefons, SUGIYAMA, Masashi

Journal:

IEICE Transactions on Information and Systems

Year:

2014

Language:

english

File:

PDF, 181 KB

english, 2014

30

Author Correction: Linking drug target and pathway activation for effective therapy using multi-task learning

Yang, Mi, Simm, Jaak, Lam, Chi Chung, Zakeri, Pooya, van Westen, Gerard J. P., Moreau, Yves, Saez-Rodriguez, Julio

Journal:

Scientific Reports

Year:

2019

Language:

english

File:

PDF, 662 KB

english, 2019

31

The complex microbiome from native semen to embryo culture environment in human in vitro fertilization procedure

Štšepetova, Jelena, Baranova, Juliana, Simm, Jaak, Parm, Ülle, Rööp, Tiiu, Sokmann, Sandra, Korrovits, Paul, Jaagura, Madis, Rosenstein, Karin, Salumets, Andres, Mändar, Reet

Journal:

Reproductive Biology and Endocrinology

Year:

2020

Language:

english

File:

PDF, 1.45 MB

english, 2020

32

An interpretable low-complexity machine learning framework for robust exome-based in-silico diagnosis of Crohnâs disease patients

Raimondi, Daniele, Simm, Jaak, Arany, Adam, Fariselli, Piero, Cleynen, Isabelle, Moreau, Yves

Journal:

NAR Genomics and Bioinformatics

Year:

2020

File:

PDF, 1.43 MB

2020

33

ChemGrapher: Optical Graph Recognition of Chemical Compounds by Deep Learning

Oldenhof, Martijn, Arany, Adam, Moreau, Yves, Simm, Jaak

Journal:

Journal of Chemical Information and Modeling

Year:

2020

File:

PDF, 842 KB

2020