Chipster: user-friendly analysis software for microarray and other high-throughput data
Kallio, M Aleksi, Tuimala, Jarno T, Hupponen, Taavi, Klemelä, Petri, Gentile, Massimiliano, Scheinin, Ilari, Koski, Mikko, Käki, Janne, Korpelainen, Eija I
Published in BMC genomics (14.10.2011)
Published in BMC genomics (14.10.2011)
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Journal Article
Multisubstituted pyrimidines effectively inhibit bacterial growth and biofilm formation of Staphylococcus aureus
Provenzani, Riccardo, San-Martin-Galindo, Paola, Hassan, Ghada, Legehar, Ashenafi, Kallio, Aleksi, Xhaard, Henri, Fallarero, Adyary, Yli-Kauhaluoma, Jari
Published in Scientific reports (12.04.2021)
Published in Scientific reports (12.04.2021)
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Journal Article
MicroRNA expression profiling reveals miRNA families regulating specific biological pathways in mouse frontal cortex and hippocampus
Juhila, Juuso, Sipilä, Tessa, Icay, Katherine, Nicorici, Daniel, Ellonen, Pekka, Kallio, Aleksi, Korpelainen, Eija, Greco, Dario, Hovatta, Iiris
Published in PloS one (22.06.2011)
Published in PloS one (22.06.2011)
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Journal Article
A Mobile Application–Based Citizen Science Product to Compile Bird Observations
Nokelainen, Ossi, Lauha, Patrik, Andrejeff, Sebastian, Hänninen, Jari, Inkinen, Jasmin, Kallio, Aleksi, Lehto, Harry J, Mutanen, Marko, Paavola, Riku, Schiestl-Aalto, Pauliina, Somervuo, Panu, Sundell, Janne, Talaskivi, Jussi, Vallinmäki, Mikko, Vancraeyenest, Aurélie, Lehtiö, Ari, Ovaskainen, Otso
Published in Citizen science : theory and practice (10.09.2024)
Published in Citizen science : theory and practice (10.09.2024)
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Journal Article
Randomization techniques for assessing the significance of gene periodicity results
Kallio, Aleksi, Vuokko, Niko, Ojala, Markus, Haiminen, Niina, Mannila, Heikki
Published in BMC bioinformatics (09.08.2011)
Published in BMC bioinformatics (09.08.2011)
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Journal Article
Quantitative analysis of colony morphology in yeast
Ruusuvuori, Pekka, Lin, Jake, Scott, Adrian C, Tan, Zhihao, Sorsa, Saija, Kallio, Aleksi, Nykter, Matti, Yli-Harja, Olli, Shmulevich, Ilya, Dudley, Aimée M
Published in BioTechniques (01.01.2014)
Published in BioTechniques (01.01.2014)
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Journal Article
BioImg.org: A Catalog of Virtual Machine Images for the Life Sciences
Dahlö, Martin, Haziza, Frédéric, Kallio, Aleksi, Korpelainen, Eija, Bongcam-Rudloff, Erik, Spjuth, Ola
Published in Bioinformatics and Biology Insights (01.01.2015)
Published in Bioinformatics and Biology Insights (01.01.2015)
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Journal Article
Biolmg.org: A Catalog of Virtual Machine Images for the Life Sciences
Dahlö, Martin, Haziza, Frέdέric, Kallio, Aleksi, Korpelainen, Eija, Bongcam-Rudloff, Erik, Spjuth, Ola
Published in Bioinformatics and biology insights (01.01.2015)
Published in Bioinformatics and biology insights (01.01.2015)
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Journal Article
Hadoop-BAM: directly manipulating next generation sequencing data in the cloud
NIEMENMAA, Matti, KALLIO, Aleksi, SCHUMACHER, Andre, KLEMELÄ, Petri, KORPELAINEN, Eija, HELJANKO, Keijo
Published in Bioinformatics (Oxford, England) (15.03.2012)
Published in Bioinformatics (Oxford, England) (15.03.2012)
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Journal Article
SeqPig: simple and scalable scripting for large sequencing data sets in Hadoop
Schumacher, André, Pireddu, Luca, Niemenmaa, Matti, Kallio, Aleksi, Korpelainen, Eija, Zanetti, Gianluigi, Heljanko, Keijo
Published in Bioinformatics (01.01.2014)
Published in Bioinformatics (01.01.2014)
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Journal Article
Individual FEV1 Trajectories Can Be Identified from a COPD Cohort
Koskela, Jukka, Katajisto, Milla, Kallio, Aleksi, Kilpeläinen, Maritta, Lindqvist, Ari, Laitinen, Tarja
Published in Chronic obstructive pulmonary disease (01.08.2016)
Published in Chronic obstructive pulmonary disease (01.08.2016)
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Journal Article
Individual FEV 1 Trajectories Can Be Identified from a COPD Cohort
Koskela, Jukka, Katajisto, Milla, Kallio, Aleksi, Kilpeläinen, Maritta, Lindqvist, Ari, Laitinen, Tarja
Published in Chronic obstructive pulmonary disease (03.07.2016)
Published in Chronic obstructive pulmonary disease (03.07.2016)
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Journal Article
Experiences with workflows for automating data-intensive bioinformatics
Spjuth, Ola, Bongcam-Rudloff, Erik, Hernández, Guillermo Carrasco, Forer, Lukas, Giovacchini, Mario, Guimera, Roman Valls, Kallio, Aleksi, Korpelainen, Eija, Kańduła, Maciej M, Krachunov, Milko, Kreil, David P, Kulev, Ognyan, Łabaj, Paweł P, Lampa, Samuel, Pireddu, Luca, Schönherr, Sebastian, Siretskiy, Alexey, Vassilev, Dimitar
Published in Biology direct (19.08.2015)
Published in Biology direct (19.08.2015)
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Journal Article
Recommendations on e-infrastructures for next-generation sequencing
Spjuth, Ola, Bongcam-Rudloff, Erik, Dahlberg, Johan, Dahlö, Martin, Kallio, Aleksi, Pireddu, Luca, Vezzi, Francesco, Korpelainen, Eija
Published in Gigascience (07.06.2016)
Published in Gigascience (07.06.2016)
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Journal Article
Optimized detection of differential expression in global profiling experiments: case studies in clinical transcriptomic and quantitative proteomic datasets
Elo, Laura L., Hiissa, Jukka, Tuimala, Jarno, Kallio, Aleksi, Korpelainen, Eija, Aittokallio, Tero
Published in Briefings in bioinformatics (01.09.2009)
Published in Briefings in bioinformatics (01.09.2009)
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Journal Article
Optimized detection of transcription factor-binding sites in ChIP-seq experiments
Elo, Laura L., Kallio, Aleksi, Laajala, Teemu D., Hawkins, R. David, Korpelainen, Eija, Aittokallio, Tero
Published in Nucleic acids research (01.01.2012)
Published in Nucleic acids research (01.01.2012)
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Journal Article
POMO--Plotting Omics analysis results for Multiple Organisms
Lin, Jake, Kreisberg, Richard, Kallio, Aleksi, Dudley, Aimée M, Nykter, Matti, Shmulevich, Ilya, May, Patrick, Autio, Reija
Published in BMC genomics (24.12.2013)
Published in BMC genomics (24.12.2013)
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Journal Article
Randomization methods for assessing data analysis results on real-valued matrices
Ojala, Markus, Vuokko, Niko, Kallio, Aleksi, Haiminen, Niina, Mannila, Heikki
Published in Statistical analysis and data mining (01.11.2009)
Published in Statistical analysis and data mining (01.11.2009)
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Journal Article