REMOD: A Tool for Analyzing and Remodeling the Dendritic Architecture of Neural Cells
Bozelos P, Stefanou SS, Bouloukakis G, Melachrinos C, Poirazi P
Frontiers in Neuroanatomy, 06 January 2016 | DOI: 10.3389/fnana.2015.00156

Tags: 2016 , Bioinformatics , Neuroscience , Structure-Function

A Simple Method to Simultaneously Detect and Identify Spikes from Raw Extracellular Recordings
Petrantonakis PC, Poirazi P
Frontiers in Neuroscience, 02 December 2015 | DOI: 10.3389/fnins.2015.00452

Tags: 2015 , Bioinformatics , Neuroscience , Spike Sorting

Emerging applications of read profiles towards the functional annotation of the genome
Pundhir S, Poirazi P, Gorodkin J
Frontiers in Genetics, 19 May 2015 | DOI: 10.3389/fgene.2015.00188

Tags: 2015 , Bioinformatics , Review

MiRduplexSVM: A High-Performing MiRNA-Duplex Prediction and Evaluation Methodology
Karathanasis N, Tsamardinos I, Poirazi P
PLoS One, 11 May 2015 | DOI: 10.1371/journal.pone.0126151

Tags: 2015 , Bioinformatics

Oulas A, Karathanasis N, Louloupi A, Pavlopoulos GA, Poirazi P, Kalantidis K, Iliopoulos I
Prediction of miRNA Targets. In: Picardi E (eds) RNA Bioinformatics: Methods in Molecular Biology, vol. 1269, pp. 207-229. Humana Press, New York, NY (2014) | DOI: 10.1007/978-1-4939-2291-8_13

Tags: 2014 , Bioinformatics

GluA2 mRNA distribution and regulation by miR-124 in hippocampal neurons
Ho VM, Dallalzadeh LO, Karathanasis N, Keles MF, Vangala S, Grogan T, Poirazi P, Martin KC
Molecular and Cellular Neuroscience, Jul 2014 | DOI: 10.1016/j.mcn.2014.04.006.

Tags: 2014 , Bioinformatics , Hippocampus , Neuroscience

Don’t use a cannon to kill the … miRNA mosquito
Karathanasis N, Tsamardinos I, Poirazi P
Bioinformatics, 10 March 2014 | DOI: 10.1093/bioinformatics/btu100.

Tags: 2014 , Bioinformatics

Modeling regulatory cascades using Artificial Neural Networks: the case of transcriptional regulatory networks shaped during the yeast stress response
Manioudaki ME, Poirazi P
Frontiers in Genetics, 20 Jun 2013 | DOI: 10.3389/fgene.2013.00110

Tags: 2013 , Bioinformatics , Machine Learning

SVM-Based miRNA:miRNA* Duplex Prediction
Karathanassis N, Armen A, Tsamardinos I, Poirazi P
IEEE 12th International Conference on Bioinformatics & Bioengineering (BIBE), Larnaca Cyprus, 11-13 November, 2012 | DOI: 10.1109/BIBE.2012.6399670

Tags: 2012 , Bioinformatics

A new microRNA target prediction tool identifies a novel interaction of a putative miRNA with CCND2
Oulas A, Karathanasis N, Louloupi A, Iliopoulos I, Kalantidis K, Poirazi P
RNA Biology, 01 Sep 2012 | DOI: 10.4161/rna.21725

Tags: 2012 , Bioinformatics

A computational exploration of bacterial metabolic diversity identifying metabolic interactions and growth-efficient strain communities
Tzamali E, Poirazi P, Tollis IG, Reczko M
BMC Systems Biology, 18 Oct 2011 | DOI: 10.1186/1752-0509-5-167

Tags: 2011 , Bioinformatics

Finding cancer-associated miRNAs: Methods and Tools
Oulas A, Karathanasis N, Louloupi A, Poirazi P
Molecular Biotechnology, 24 May 2011 | DOI: 10.1007/s12033-011-9416-4

Tags: 2011 , Bioinformatics , Review

Oulas A, Poirazi P
Utilization of SSCprofiler to Predict a New miRNA Gene. In: Wu W (eds) MicroRNA and Cancer. Methods in Molecular Biology (Methods and Protocols), vol. 676, pp. 243-252. Humana Press, Totowa, NJ (2010) | DOI: 10.1007/978-1-60761-863-8_17

Tags: 2010 , Bioinformatics

Oulas A, Karathanasis N, Poirazi P
Computational identification of miRNAs involved in cancer. In: Wu W. (eds.) MicroRNAs and Cancer. Methods in Molecular Biology (Methods and Protocols), vol. 676, pp. 23-41. Humana Press, Totowa, NJ (2010). DOI: 10.1007/978-1-60761-863-8_2

Tags: 2010 , Bioinformatics

MatureBayes: a probabilistic algorithm for identifying the mature miRNA within novel precursors
Gkirtzou K, Tsamardinos I, Tsakalides P, Poirazi P
PLoS One, 06 Aug 2010 | DOI: 10.1371/journal.pone.0011843

Tags: 2010 , Bioinformatics , Machine Learning

Manioudaki M, Tzamali E, Reczko M, Poirazi P
Methods for structural inference and functional module identification in intracellular networks. In: Krawetz S. (eds) Bioinformatics for Systems Biology, pp. 517-539. Humana Press  (2009) | DOI: 10.1007/978-1-59745-440-7_27

Tags: 2009 , Bioinformatics

Tzamali E, Poirazi P, Reczko M
Methods for Dynamical Inference in Intracellular Networks. In: Krawetz S. (eds) Bioinformatics for Systems Biology. Humana Press (2009) | DOI: 10.1007/978-1-59745-440-7_28

Tags: 2009 , Bioinformatics

Prediction of novel microRNA genes in cancer-associated genomic regions–a combined computational and experimental approach
Oulas A, Boutla A, Gkirtzou K, Reczko M, Kalantidis K, Poirazi P
Nucleic Acids Research, 25 March 2009 | DOI: 10.1093/nar/gkp120

Tags: 2009 , Bioinformatics

MicroRNAs and Cancer-the search begins!
Oulas A, Reczko M, Poirazi P
IEEE Transactions on Information Technology in Biomedicine, 06 Jan 2009 | DOI: 10.1109/TITB.2008.2007086

Tags: 2009 , Bioinformatics , Review

Improved grading and survival prediction of human astrocytic brain tumors by artificial neural network analysis of gene expression microarray data
Petalidis LP, Oulas A, Backlund M, Wayland MT, Liu L, Plant K, Happerfield L, Freeman TC, Poirazi P, Collins VP
Molecular Cancer Therapeutics, May 2008 | DOI: 10.1158/1535-7163.mct-07-0177

Tags: 2008 , Bioinformatics , Machine Learning

Use of artificial neural networks and a gamma-concept-based approach to model growth of and bacteriocin production by Streptococcus macedonicus ACA-DC 198 under conditions simulating Kasseri cheese technology
Poirazi P, Leroy F, Georgalaki MD, Aktypis A, De Vuyst L, Tsakalidou E
Applied and Environmental Microbiology, Feb 2007 | DOI: https://doi.org/10.1128/aem.01721-06

Tags: 2007 , Bioinformatics , Machine Learning

Individualized markers optimize class prediction of microarray data
Pavlidis P, Poirazi, P
BMC Bioinformatics, 14 Jul 2006 |DOI: 10.1186/1471-2105-7-345

Tags: 2006 , Bioinformatics