Panayiotis V. Benos

According to our database1, Panayiotis V. Benos authored at least 35 papers between 2001 and 2022.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.



In proceedings 
PhD thesis 


Online presence:



Essential Regression: A generalizable framework for inferring causal latent factors from multi-omic datasets.
Patterns, 2022

COEM: Cross-Modal Embedding for MetaCell Identification.
CoRR, 2022

A Pipeline for Integrated Theory and Data-Driven Modeling of Biomedical Data.
IEEE ACM Trans. Comput. Biol. Bioinform., 2021

CausalMGM: an interactive web-based causal discovery tool.
Nucleic Acids Res., 2020

A Pipeline for Integrated Theory and Data-Driven Modeling of Genomic and Clinical Data.
CoRR, 2020

An improvement of ComiR algorithm for microRNA target prediction by exploiting coding region sequences of mRNAs.
BMC Bioinform., 2020

Causal network perturbations for instance-specific analysis of single cell and disease samples.
Bioinform., 2020

Interpretable Factors in scRNA-seq Data with Disentangled Generative Models.
Proceedings of the 20th IEEE International Conference on Bioinformatics and Bioengineering, 2020

Mixed graphical models for integrative causal analysis with application to chronic lung disease diagnosis and prognosis.
Bioinform., 2019

Comparison of strategies for scalable causal discovery of latent variable models from mixed data.
Int. J. Data Sci. Anal., 2018

piMGM: incorporating multi-source priors in mixed graphical models for learning disease networks.
Bioinform., 2018

ECCB 2018: The 17th European Conference on Computational Biology.
Bioinform., 2018

Evaluation of Causal Structure Learning Methods on Mixed Data Types.
Proceedings of 2018 ACM SIGKDD Workshop on Causal Discovery, 2018

Mixed Graphical Models for Causal Analysis of Multi-modal Variables.
CoRR, 2017

Integrated Theory-and Data-Driven Feature Selection in Gene Expression Data Analysis.
Proceedings of the 33rd IEEE International Conference on Data Engineering, 2017

Learning mixed graphical models with separate sparsity parameters and stability-based model selection.
BMC Bioinform., 2016

The center for causal discovery of biomedical knowledge from big data.
J. Am. Medical Informatics Assoc., 2015

T-ReCS: Stable Selection of Dynamically Formed Groups of Features with Application to Prediction of Clinical Outcomes.
Proceedings of the Biocomputing 2015: Proceedings of the Pacific Symposium, 2015

ComiR: combinatorial microRNA target prediction tool.
Nucleic Acids Res., 2013

Spectral Clustering Strategies for Heterogeneous Disease Data.
Proceedings of the Biocomputing 2013: Proceedings of the Pacific Symposium, 2013

Novel Modeling of Combinatorial miRNA Targeting Identifies SNP with Potential Role in Bone Density.
PLoS Comput. Biol., 2012

mirConnX: condition-specific mRNA-microRNA network integrator.
Nucleic Acids Res., 2011

Biclustering of DNA Microarray Data: Theory, Evaluation, and Applications.
Proceedings of the Handbook of Research on Computational and Systems Biology, 2011

Extracting biologically significant patterns from short time series gene expression data.
BMC Bioinform., 2009

HHMMiR: efficient <i>de novo </i>prediction of microRNAs using hierarchical hidden Markov models.
BMC Bioinform., 2009

Biological evaluation of biclustering algorithms using Gene Ontology and chIP-chip data.
Proceedings of the IEEE International Conference on Acoustics, 2008

DNA Familial Binding Profiles Made Easy: Comparison of Various Motif Alignment and Clustering Strategies.
PLoS Comput. Biol., 2007

STAMP: a web tool for exploring DNA-binding motif similarities.
Nucleic Acids Res., 2007

Inferring protein-DNA dependencies using motif alignments and mutual information.
Proceedings of the Proceedings 15th International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB), 2007

Self-organizing neural networks to support the discovery of DNA-binding motifs.
Neural Networks, 2006

enoLOGOS: a versatile web tool for energy normalized sequence logos.
Nucleic Acids Res., 2005

SOP<sup>3</sup>v2: web-based selection of oligonucleotide primer trios for genotyping of human and mouse polymorphisms.
Nucleic Acids Res., 2005

FOOTER: a web tool for finding mammalian DNA regulatory regions using phylogenetic footprinting.
Nucleic Acids Res., 2005

Improved detection of DNA motifs using a self-organized clustering of familial binding profiles.
Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005

SAMIE: Statistical Algorithm for Modeling Interaction Energies.
Proceedings of the 6th Pacific Symposium on Biocomputing, 2001