RDFIO: extending Semantic MediaWiki for interoperable biomedical data management

by Samuel Lampa, Egon Willighagen, Pekka Kohonen, Ali King, Denny Vrandečić, Roland Grafström, Ola Spjuth
Published 2017-09-01

Functional profiling of precursor MicroRNAs identifies MicroRNAs essential for glioma proliferation.

by Saija Haapa-Paananen, Ping Chen, Kirsi Hellström, Pekka Kohonen, Sampsa Hautaniemi, Olli Kallioniemi, Merja Perälä
Published 2013-01-01

A transcriptomics data-driven gene space accurately predicts liver cytopathology and drug-induced liver injury

by Pekka Kohonen, Juuso A. Parkkinen, Egon L. Willighagen, Rebecca Ceder, Krister Wennerberg, Samuel Kaski, Roland C. Grafström
Published 2017-07-01

Proteomics Analysis Reveals Distinct Corona Composition on Magnetic Nanoparticles with Different Surface Coatings: Implications for Interactions with Primary Human Macrophages.

by Carmen Vogt, Maria Pernemalm, Pekka Kohonen, Sophie Laurent, Kjell Hultenby, Marie Vahter, Janne Lehtiö, Muhammet S Toprak, Bengt Fadeel
Published 2015-01-01

High-throughput transcriptomic and RNAi analysis identifies AIM1, ERGIC1, TMED3 and TPX2 as potential drug targets in prostate cancer.

by Paula Vainio, John-Patrick Mpindi, Pekka Kohonen, Vidal Fey, Tuomas Mirtti, Kalle A Alanen, Merja Perälä, Olli Kallioniemi, Kristiina Iljin
Published 2012-01-01

A comprehensive panel of three-dimensional models for studies of prostate cancer growth, invasion and drug responses.

by Ville Härmä, Johannes Virtanen, Rami Mäkelä, Antti Happonen, John-Patrick Mpindi, Matias Knuuttila, Pekka Kohonen, Jyrki Lötjönen, Olli Kallioniemi, Matthias Nees
Published 2010-01-01

Correction: GTI: A Novel Algorithm for Identifying Outlier Gene Expression Profiles from Integrated Microarray Datasets

by John Patrick Mpindi, Henri Sara, Saija Haapa-Paananen, Sami Kilpinen, Tommi Pisto, Elmar Bucher, Kalle Ojala, Kristiina Iljin, Paula Vainio, Mari Björkman, Santosh Gupta, Pekka Kohonen, Matthias Nees, Olli Kallioniemi
Published 2011-01-01

Correction: GTI: A Novel Algorithm for Identifying Outlier Gene Expression Profiles from Integrated Microarray Datasets.

by John Patrick Mpindi, Henri Sara, Saija Haapa-Paananen, Sami Kilpinen, Tommi Pisto, Elmar Bucher, Kalle Ojala, Kristiina Iljin, Paula Vainio, Mari Björkman, Santosh Gupta, Pekka Kohonen, Matthias Nees, Olli Kallioniemi
Published 2011-01-01

GTI: a novel algorithm for identifying outlier gene expression profiles from integrated microarray datasets.

by John Patrick Mpindi, Henri Sara, Saija Haapa-Paananen, Sami Kilpinen, Tommi Pisto, Elmar Bucher, Kalle Ojala, Kristiina Iljin, Paula Vainio, Mari Björkman, Santosh Gupta, Pekka Kohonen, Matthias Nees, Olli Kallioniemi
Published 2011-01-01

The eNanoMapper database for nanomaterial safety information

by Nina Jeliazkova, Charalampos Chomenidis, Philip Doganis, Bengt Fadeel, Roland Grafström, Barry Hardy, Janna Hastings, Markus Hegi, Vedrin Jeliazkov, Nikolay Kochev, Pekka Kohonen, Cristian R. Munteanu, Haralambos Sarimveis, Bart Smeets, Pantelis Sopasakis, Georgia Tsiliki, David Vorgrimmler, Egon Willighagen
Published 2015-07-01

Transcriptomics in Toxicogenomics, Part I: Experimental Design, Technologies, Publicly Available Data, and Regulatory Aspects

by Pia Anneli Sofia Kinaret, Angela Serra, Antonio Federico, Pekka Kohonen, Penny Nymark, Irene Liampa, My Kieu Ha, Jang-Sik Choi, Karolina Jagiello, Natasha Sanabria, Georgia Melagraki, Luca Cattelani, Michele Fratello, Haralambos Sarimveis, Antreas Afantitis, Tae-Hyun Yoon, Mary Gulumian, Roland Grafström, Tomasz Puzyn, Dario Greco
Published 2020-04-01

Transcriptomics in Toxicogenomics, Part II: Preprocessing and Differential Expression Analysis for High Quality Data

by Antonio Federico, Angela Serra, My Kieu Ha, Pekka Kohonen, Jang-Sik Choi, Irene Liampa, Penny Nymark, Natasha Sanabria, Luca Cattelani, Michele Fratello, Pia Anneli Sofia Kinaret, Karolina Jagiello, Tomasz Puzyn, Georgia Melagraki, Mary Gulumian, Antreas Afantitis, Haralambos Sarimveis, Tae-Hyun Yoon, Roland Grafström, Dario Greco
Published 2020-05-01

Transcriptomics in Toxicogenomics, Part III: Data Modelling for Risk Assessment

by Angela Serra, Michele Fratello, Luca Cattelani, Irene Liampa, Georgia Melagraki, Pekka Kohonen, Penny Nymark, Antonio Federico, Pia Anneli Sofia Kinaret, Karolina Jagiello, My Kieu Ha, Jang-Sik Choi, Natasha Sanabria, Mary Gulumian, Tomasz Puzyn, Tae-Hyun Yoon, Haralambos Sarimveis, Roland Grafström, Antreas Afantitis, Dario Greco
Published 2020-04-01

Can an InChI for Nano Address the Need for a Simplified Representation of Complex Nanomaterials across Experimental and Nanoinformatics Studies?

by Iseult Lynch, Antreas Afantitis, Thomas Exner, Martin Himly, Vladimir Lobaskin, Philip Doganis, Dieter Maier, Natasha Sanabria, Anastasios G. Papadiamantis, Anna Rybinska-Fryca, Maciej Gromelski, Tomasz Puzyn, Egon Willighagen, Blair D. Johnston, Mary Gulumian, Marianne Matzke, Amaia Green Etxabe, Nathan Bossa, Angela Serra, Irene Liampa, Stacey Harper, Kaido Tämm, Alexander CØ Jensen, Pekka Kohonen, Luke Slater, Andreas Tsoumanis, Dario Greco, David A. Winkler, Haralambos Sarimveis, Georgia Melagraki
Published 2020-12-01

NanoSolveIT Project: Driving nanoinformatics research to develop innovative and integrated tools for in silico nanosafety assessment

by Antreas Afantitis, Georgia Melagraki, Panagiotis Isigonis, Andreas Tsoumanis, Dimitra Danai Varsou, Eugenia Valsami-Jones, Anastasios Papadiamantis, Laura-Jayne A. Ellis, Haralambos Sarimveis, Philip Doganis, Pantelis Karatzas, Periklis Tsiros, Irene Liampa, Vladimir Lobaskin, Dario Greco, Angela Serra, Pia Anneli Sofia Kinaret, Laura Aliisa Saarimäki, Roland Grafström, Pekka Kohonen, Penny Nymark, Egon Willighagen, Tomasz Puzyn, Anna Rybinska-Fryca, Alexander Lyubartsev, Keld Alstrup Jensen, Jan Gerit Brandenburg, Stephen Lofts, Claus Svendsen, Samuel Harrison, Dieter Maier, Kaido Tamm, Jaak Jänes, Lauri Sikk, Maria Dusinska, Eleonora Longhin, Elise Rundén-Pran, Espen Mariussen, Naouale El Yamani, Wolfgang Unger, Jörg Radnik, Alexander Tropsha, Yoram Cohen, Jerzy Leszczynski, Christine Ogilvie Hendren, Mark Wiesner, David Winkler, Noriyuki Suzuki, Tae Hyun Yoon, Jang-Sik Choi, Natasha Sanabria, Mary Gulumian, Iseult Lynch
Published 2020-01-01