O
Olli Yli-Harja
Researcher at Institute for Systems Biology
Publications - 252
Citations - 6650
Olli Yli-Harja is an academic researcher from Institute for Systems Biology. The author has contributed to research in topics: Gene & Boolean network. The author has an hindex of 39, co-authored 243 publications receiving 6070 citations. Previous affiliations of Olli Yli-Harja include Tampere University of Technology & University of Texas MD Anderson Cancer Center.
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Journal ArticleDOI
Analysis of the properties of median and weighted median filters using threshold logic and stack filter representation
TL;DR: The authors present a method to find the weighted median filter which is equivalent to a stack filter defined by a positive Boolean function, which allows expression of the cascade of WM filters as a single WM filter.
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Software for quantification of labeled bacteria from digital microscope images by automated image analysis.
TL;DR: Validation of enumeration reveals correlation to be better than 0.98 when total bacterial counts by CellC are compared with manual enumeration, with all validated image types.
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On Learning Gene Regulatory Networks Under the Boolean Network Model
TL;DR: This work proposes simple efficient algorithms that can be used to answer the Consistency Problem and find one or all consistent Boolean networks relative to the given examples and introduces a simple and fast way of finding all Boolean networks having limited error size in the Best-Fit Extension Problem setting.
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High-resolution DNA analysis of human embryonic stem cell lines reveals culture-induced copy number changes and loss of heterozygosity.
Elisa Närvä,Reija Autio,Reija Autio,Nelly Rahkonen,Lingjia Kong,Neil J. Harrison,Danny Kitsberg,Lodovica Borghese,Joseph Itskovitz-Eldor,Omid Rasool,Petr Dvorak,Outi Hovatta,Timo Otonkoski,Timo Tuuri,Wei Cui,Oliver Brüstle,Duncan Baker,Edna Maltby,Harry Moore,Nissim Benvenisty,Peter W. Andrews,Olli Yli-Harja,Olli Yli-Harja,Riitta Lahesmaa +23 more
TL;DR: The highest-resolution study of hESCs to date using an Affymetrix SNP 6.0 array containing 906,600 probes for single nucleotide polymorphisms (SNPs) and 946,000 probes for copy number variations (CNVs) is reported, finding 843 CNVs of 50 kb–3 Mb in size.
Journal ArticleDOI
Gene expression dynamics in the macrophage exhibit criticality.
Matti Nykter,Nathan D. Price,Maximino Aldana,Stephen A. Ramsey,Stuart A. Kauffman,Leroy Hood,Olli Yli-Harja,Ilya Shmulevich +7 more
TL;DR: Using global gene expression data from macrophages stimulated with a variety of Toll-like receptor agonists, it is found that macrophage dynamics are indeed critical, providing the most compelling evidence to date for this general principle of dynamics in biological systems.