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1

Data Analytics Applications for Streaming Data From Social Media: What to Predict?

Emmert-Streib, Frank, Yli-Harja, Olli P., Dehmer, Matthias

Journal:

Frontiers in Big Data

Année:

2018

Langue:

english

Fichier:

PDF, 1.05 MB

english, 2018

2

Utilizing Social Media Data for Psychoanalysis to Study Human Personality

Emmert-Streib, Frank, Yli-Harja, Olli, Dehmer, Matthias

Journal:

Frontiers in Psychology

Année:

2019

Langue:

english

Fichier:

PDF, 507 KB

english, 2019

3

Exploiting Genomic Relations in Big Data Repositories by Graph-Based Search Methods

Musa, Aliyu, Dehmer, Matthias, Yli-Harja, Olli, Emmert-Streib, Frank

Journal:

Machine Learning and Knowledge Extraction

Année:

2018

Fichier:

PDF, 4.16 MB

2018

4

A novel method for splitting clumps of convex objects incorporating image intensity and using rectangular window-based concavity point-pair search

Muhammad Farhan, Olli Yli-Harja, Antti Niemistö

Journal:

Pattern Recognition

Année:

2013

Langue:

english

Fichier:

PDF, 1.20 MB

english, 2013

5

Against Dataism and for Data Sharing of Big Biomedical and Clinical Data with Research Parasites

Emmert-Streib, Frank, Dehmer, Matthias, Yli-Harja, Olli

Journal:

Frontiers in Genetics

Année:

2016

Langue:

english

Fichier:

PDF, 191 KB

english, 2016

6

Exploiting Genomic Relations in Big Data Repositories by Graph-Based Search Methods

Musa, Aliyu, Dehmer, Matthias, Yli-Harja, Olli, Emmert-Streib, Frank

Journal:

Machine Learning and Knowledge Extraction

Année:

2018

Langue:

english

Fichier:

PDF, 4.16 MB

english, 2018

7

Combining deep learning with token selection for patient phenotyping from electronic health records

Yang, Zhen, Dehmer, Matthias, Yli-Harja, Olli, Emmert-Streib, Frank

Journal:

Scientific Reports

Année:

2020

Langue:

english

Fichier:

PDF, 2.04 MB

english, 2020

8

Towards the experimental evaluation of novel supervised fuzzy adaptive resonance theory for pattern classification

Alireza Akhbardeh, Nikhil, Perttu E. Koskinen, Olli Yli-Harja

Journal:

Pattern Recognition Letters

Année:

2008

Langue:

english

Fichier:

PDF, 853 KB

english, 2008

9

Measures for information propagation in Boolean networks

Pauli Rämö, Stuart Kauffman, Juha Kesseli, Olli Yli-Harja

Journal:

Physica D: Nonlinear Phenomena

Année:

2007

Langue:

english

Fichier:

PDF, 267 KB

english, 2007

10

A joint finite mixture model for clustering genes from independent Gaussian and beta distributed data

Xiaofeng Dai, Timo Erkkilä, Olli Yli-Harja, Harri Lähdesmäki

Journal:

BMC Bioinformatics

Année:

2009

Langue:

english

Fichier:

PDF, 506 KB

english, 2009

11

[IEEE 2013 IEEE International Workshop on Machine Learning for Signal Processing (MLSP) - Southampton, United Kingdom (2013.09.22-2013.09.25)] 2013 IEEE International Workshop on Machine Learning for Signal Processing (MLSP) - Modeling bioprocess scale-up utilizing regularized linear and logistic regression

Farhan, Muhammad, Larjo, Antti, Yli-Harja, Olli, Aho, Tommi

Année:

2013

Langue:

english

Fichier:

PDF, 871 KB

english, 2013

12

Inference of Kinetic Parameters of Delayed Stochastic Models of Gene Expression Using a Markov Chain Approximation

Mannerstrom, Henrik, Yli-Harja, Olli, Ribeiro, Andre S

Journal:

EURASIP Journal on Bioinformatics and Systems Biology

Année:

2011

Langue:

english

Fichier:

PDF, 262 KB

english, 2011

13

Stochastic Differential Equation Model for Cerebellar Granule Cell Excitability

Saarinen, Antti, Linne, Marja-Leena, Yli-Harja, Olli, Friston, Karl J.

Journal:

PLoS Computational Biology

Année:

2008

Langue:

english

Fichier:

PDF, 408 KB

english, 2008

14

Lessons from the Human Genome Project: Modesty, Honesty, and Realism

Emmert-Streib, Frank, Dehmer, Matthias, Yli-Harja, Olli

Journal:

Frontiers in Genetics

Année:

2017

Langue:

english

Fichier:

PDF, 345 KB

english, 2017

15

Design and synthesis of novel quinic acid derivatives: inÂ vitro cytotoxicity and anticancer effect on glioblastoma

Murugesan, Akshaya, Holmstedt, Suvi, Brown, Kenna C, Koivuporras, Alisa, Macedo, Ana S, Nguyen, Nga, Fonte, Pedro, Rijo, PatrÃcia, Yli-Harja, Olli, Candeias, Nuno R, Kandhavelu, Meenakshisundaram

Journal:

Future Medicinal Chemistry

Année:

2020

Fichier:

PDF, 4.37 MB

2020

16

Diversity of temporal correlations between genes in models of noisy and noiseless gene networks

Andre S. Ribeiro, Jason Lloyd-Price, Sharif Chowdhury, Olli Yli-Harja

Journal:

Année:

2011

Langue:

english

Fichier:

PDF, 447 KB

english, 2011

17

Dynamical effects of transcriptional pause-prone sites

Andre S. Ribeiro, Antti Häkkinen, Shannon Healy, Olli Yli-Harja

Journal:

Computational Biology and Chemistry

Année:

2010

Langue:

english

Fichier:

PDF, 309 KB

english, 2010

18

A strategy for identifying putative causes of gene expression variation in human cancers

Sampsa Hautaniemi, Markus Ringnér, Päivikki Kauraniemi, Reija Autio, Henrik Edgren, Olli Yli-Harja, Jaakko Astola, Anne Kallioniemi, Olli-Pekka Kallioniemi

Journal:

Journal of the Franklin Institute

Année:

2004

Langue:

english

Fichier:

PDF, 310 KB

english, 2004

19

Variability of the distribution of differentiation pathway choices regulated by a multipotent delayed stochastic switch

Andre S. Ribeiro, Xiaofeng Dai, Olli Yli-Harja

Journal:

Journal of Theoretical Biology

Année:

2009

Langue:

english

Fichier:

PDF, 631 KB

english, 2009

20

On spectral techniques in analysis of Boolean networks

Juha Kesseli, Pauli Rämö, Olli Yli-Harja

Journal:

Physica D: Nonlinear Phenomena

Année:

2005

Langue:

english

Fichier:

PDF, 180 KB

english, 2005

21

Relationships between probabilistic Boolean networks and dynamic Bayesian networks as models of gene regulatory networks

Harri Lähdesmäki, Sampsa Hautaniemi, Ilya Shmulevich, Olli Yli-Harja

Journal:

Signal Processing

Année:

2006

Langue:

english

Fichier:

PDF, 424 KB

english, 2006

22

Identification of β-lactam antibiotics using bioluminescent Escherichia coli and a support vector machine classifier algorithm

Olli-Pekka Smolander, Andre S. Ribeiro, Olli Yli-Harja, Matti Karp

Journal:

Sensors and Actuators B: Chemical

Année:

2009

Langue:

english

Fichier:

PDF, 480 KB

english, 2009

23

Breakdown probabilities of recursive stack filters

Pertti Koivisto, Olli Yli-Harja, Antti Niemistö, Ilya Shmulevich

Journal:

Signal Processing

Année:

2001

Langue:

english

Fichier:

PDF, 127 KB

english, 2001

24

Estimation and inversion of the effects of cell population asynchrony in gene expression time-series

Harri Lähdesmäki, Heikki Huttunen, Tommi Aho, Marja-Leena Linne, Jari Niemi, Juha Kesseli, Ron Pearson, Olli Yli-Harja

Journal:

Signal Processing

Année:

2003

Langue:

english

Fichier:

PDF, 467 KB

english, 2003

25

Stochastic sequence-level model of coupled transcription and translation in prokaryotes

Jarno Mäkelä, Jason Lloyd-Price, Olli Yli-Harja, Andre S Ribeiro

Journal:

BMC Bioinformatics

Année:

2011

Langue:

english

Fichier:

PDF, 502 KB

english, 2011

26

A Beta-mixture model for dimensionality reduction, sample classification and analysis

Kirsti Laurila, Bodil Oster, Claus L Andersen, Philippe Lamy, Torben Orntoft, Olli Yli-Harja, Carsten Wiuf

Journal:

BMC Bioinformatics

Année:

2011

Langue:

english

Fichier:

PDF, 385 KB

english, 2011

27

Cell-to-cell diversity in protein levels of a gene driven by a tetracycline inducible promoter

Olli-Pekka Smolander, Meenakshisundaram Kandhavelu, Henrik Mannerström, Eero Lihavainen, Shanmugapriya Kalaichelvan, Shannon Healy, Olli Yli-Harja, Matti Karp, Andre S Ribeiro

Journal:

BMC Molecular Biology

Année:

2011

Langue:

english

Fichier:

PDF, 496 KB

english, 2011

28

In vivokinetics of transcription initiation of the lar promoter inEscherichia coli. Evidence for a sequential mechanism with two rate-limiting steps

Meenakshisundaram Kandhavelu, Henrik Mannerström, Abhishekh Gupta, Antti Häkkinen, Jason Lloyd-Price, Olli Yli-Harja, Andre S Ribeiro

Journal:

BMC Systems Biology

Année:

2011

Langue:

english

Fichier:

PDF, 222 KB

english, 2011

29

Clustering hybrid regression: a novel computational approach to study and model biohydrogen production through dark fermentation

Nikhil, Perttu E. P. Koskinen, Ari Visa, Anna H. Kaksonen, Jaakko A. Puhakka, Olli Yli-Harja

Journal:

Bioprocess and Biosystems Engineering

Année:

2008

Langue:

english

Fichier:

PDF, 620 KB

english, 2008

30

Tuning cell differentiation patterns and single cell dynamics by regulating proteins’ functionalities in a toggle switch

Xiaofeng Dai, Shannon Healy, Olli Yli-Harja, Andre S. Ribeiro

Journal:

Journal of Theoretical Biology

Année:

2009

Langue:

english

Fichier:

PDF, 332 KB

english, 2009

31

Differential gene expression in non-malignant tumour microenvironment is associated with outcome in follicular lymphoma patients treated with rituximab and CHOP

Antti Harjunpää, Minna Taskinen, Matti Nykter, Marja-Liisa Karjalainen-Lindsberg, Heidi Nyman, Outi Monni, Samuli Hemmer, Olli Yli-Harja, Sampsa Hautaniemi, Seppo Meri, Sirpa Leppä

Journal:

British Journal of Haematology

Année:

2006

Langue:

english

Fichier:

PDF, 715 KB

english, 2006

32

Perceptual Issues in Music Pattern Recognition: Complexity of Rhythm and Key Finding

Ilya Shmulevich, Olli Yli-Harja, Edward Coyle, Dirk-Jan Povel, Kjell Lemström

Journal:

Language Resources and Evaluation

Année:

2001

Langue:

english

Fichier:

PDF, 88 KB

english, 2001

33

Global Gene Expression Profile of Human Cord Blood–Derived CD133+ Cells

Taina Jaatinen, Heidi Hemmoranta, Sampsa Hautaniemi, Jari Niemi, Daniel Nicorici, Jarmo Laine, Olli Yli-Harja, Jukka Partanen

Journal:

Année:

2006

Langue:

english

Fichier:

PDF, 397 KB

english, 2006

34

Effects of Mg2+ on in vivo transcriptional dynamics of the lar promoter

Meenakshisundaram Kandhavelu, Eero Lihavainen, Anantha Barathi Muthukrishnan, Olli Yli-Harja, Andre Sanches Ribeiro

Journal:

Année:

2012

Langue:

english

Fichier:

PDF, 577 KB

english, 2012

35

Fermentative hydrogen production by Clostridium butyricum and Escherichia coli in pure and cocultures

Jenni J. Seppälä, Jaakko A. Puhakka, Olli Yli-Harja, Matti T. Karp, Ville Santala

Journal:

International Journal of Hydrogen Energy

Année:

2011

Langue:

english

Fichier:

PDF, 555 KB

english, 2011

36

Dynamics of transcription of closely spaced promoters in Escherichia coli, one event at a time

Leonardo Martins, Jarno Mäkelä, Antti Häkkinen, Meenakshisundaram Kandhavelu, Olli Yli-Harja, José M. Fonseca, Andre S. Ribeiro

Journal:

Journal of Theoretical Biology

Année:

2012

Langue:

english

Fichier:

PDF, 493 KB

english, 2012

37

Modeling single neuron behavior using stochastic differential equations

Antti Saarinen, Marja-Leena Linne, Olli Yli-Harja

Journal:

Année:

2006

Langue:

english

Fichier:

PDF, 246 KB

english, 2006

38

Comparison of automated parameter estimation methods for neuronal signaling networks

Antti Pettinen, Olli Yli-Harja, Marja-Leena Linne

Journal:

Année:

2006

Langue:

english

Fichier:

PDF, 138 KB

english, 2006

39

Evaluation of methods for detection of fluorescence labeled subcellular objects in microscope images

Pekka Ruusuvuori, Tarmo Äijö, Sharif Chowdhury, Cecilia Garmendia-Torres, Jyrki Selinummi, Mirko Birbaumer, Aimée M Dudley, Lucas Pelkmans, Olli Yli-Harja

Journal:

BMC Bioinformatics

Année:

2010

Langue:

english

Fichier:

PDF, 2.05 MB

english, 2010

40

Robust detection of periodic time series measured from biological systems

Miika Ahdesmäki, Harri Lähdesmäki, Ron Pearson, Heikki Huttunen, Olli Yli-Harja

Journal:

BMC Bioinformatics

Année:

2005

Langue:

english

Fichier:

PDF, 402 KB

english, 2005

41

In silicomicrodissection of microarray data from heterogeneous cell populations

Harri Lähdesmäki, llya Shmulevich, Valerie Dunmire, Olli Yli-Harja, Wei Zhang

Journal:

BMC Bioinformatics

Année:

2005

Langue:

english

Fichier:

PDF, 356 KB

english, 2005

42

Simulation of microarray data with realistic characteristics

Matti Nykter, Tommi Aho, Miika Ahdesmäki, Pekka Ruusuvuori, Antti Lehmussola, Olli Yli-Harja

Journal:

BMC Bioinformatics

Année:

2006

Langue:

english

Fichier:

PDF, 2.60 MB

english, 2006

43

Robust regression for periodicity detection in non-uniformly sampled time-course gene expression data

Miika Ahdesmäki, Harri Lähdesmäki, Andrew Gracey, llya Shmulevich, Olli Yli-Harja

Journal:

BMC Bioinformatics

Année:

2007

Langue:

english

Fichier:

PDF, 538 KB

english, 2007

44

RMBNToolbox: random models for biochemical networks

Tommi Aho, Olli-Pekka Smolander, Jari Niemi, Olli Yli-Harja

Journal:

BMC Systems Biology

Année:

2007

Langue:

english

Fichier:

PDF, 401 KB

english, 2007

45

Information propagation within the Genetic Network of Saccharomyces cerevisiae

Sharif Chowdhury, Jason Lloyd-Price, Olli-Pekka Smolander, Wayne CV Baici, Timothy R Hughes, Olli Yli-Harja, Gordon Chua, Andre S Ribeiro

Journal:

BMC Systems Biology

Année:

2010

Langue:

english

Fichier:

PDF, 339 KB

english, 2010

46

Quantification of vesicles in differentiating human SH-SY5Y neuroblastoma cells by automated image analysis

Jyrki Selinummi, Jertta-Riina Sarkanen, Antti Niemistö, Marja-Leena Linne, Timo Ylikomi, Olli Yli-Harja, Tuula O. Jalonen

Journal:

Neuroscience Letters

Année:

2006

Langue:

english

Fichier:

PDF, 243 KB

english, 2006

47

Effects of the promoter open complex formation on gene expression dynamics

Ribeiro, Andre S., Häkkinen, Antti, Mannerström, Henrik, Lloyd-Price, Jason, Yli-Harja, Olli

Journal:

Physical Review E

Année:

2010

Langue:

english

Fichier:

PDF, 122 KB

english, 2010

48

Effects of codon sequence on the dynamics of genetic networks

Ilya Potapov, Jarno Mäkelä, Olli Yli-Harja, Andre S. Ribeiro

Journal:

Journal of Theoretical Biology

Année:

2012

Langue:

english

Fichier:

PDF, 928 KB

english, 2012

49

Regulation of mean and noise of the in vivo kinetics of transcription under the control of the lac/ara-1 promoter

Meenakshisundaram Kandhavelu, Jason Lloyd-Price, Abhishekh Gupta, Anantha-Barathi Muthukrishnan, Olli Yli-Harja, Andre S. Ribeiro

Journal:

Année:

2012

Langue:

english

Fichier:

PDF, 510 KB

english, 2012

50

Transcriptome and small RNA deep sequencing reveals deregulation of miRNA biogenesis in human glioma

Moore, Lynette M, Kivinen, Virpi, Liu, Yuexin, Annala, Matti, Cogdell, David, Liu, Xiuping, Liu, Chang-Gong, Sawaya, Raymond, Yli-Harja, Olli, Shmulevich, Ilya, Fuller, Gregory N, Zhang, Wei, Nykter,

Journal:

The Journal of Pathology

Année:

2013

Langue:

english

Fichier:

PDF, 483 KB

english, 2013