List of works - Fotis Psomopoulos

A FAIRification roadmap for ELIXIR Software Management Plans

scientific article published in 2022

A Grid-Enabled Modular Framework for Efficient Sequence Analysis Workflows

A Multi-metric Algorithm for Hierarchical Clustering of Same-Length Protein Sequences

A Scalable Grid Computing Framework for Extensible Phylogenetic Profile Construction

scholarly article by Emmanouil Stergiadis et al published 2016 in IFIP Advances in Information and Communication Technology

A framework to assess the quality and impact of bioinformatics training across ELIXIR

scientific article published on 23 July 2020

A grid-enabled algorithm yields figure-eight molecular knot

Algebraic Interpretations Towards Clustering Protein Homology Data

scholarly article by Fotis Psomopoulos & Pericles A. Mitkas published 2014 in Lecture Notes in Computer Science

Bacterial communities and potential spoilage markers of whole blue crab (Callinectes sapidus) stored under commercial simulated conditions

scientific article published on 13 March 2019

BioPAXViz: a cytoscape application for the visual exploration of metabolic pathway evolution

scientific article published on May 2017

Bioinformatics algorithm development for Grid environments

article

Building Towards a Machine-Actionable Software Management Plan: A BioHackathon Europe 2023 Report

Chronic lymphocytic leukemias with trisomy 12 show a distinct DNA methylation profile linked to altered chromatin activation

scientific article published on 27 February 2020

Comparative Genomics of Botrytis cinerea Strains with Differential Multi-Drug Resistance

scientific article published on 28 April 2016

Comparative metagenomics reveals alterations in the soil bacterial community driven by N-fertilizer and Amino 16® application in lettuce

scientific article

Data Mining in Proteomics Using Grid Computing

De novo comparative transcriptome analysis of genes involved in fruit morphology of pumpkin cultivars with extreme size difference and development of EST-SSR markers.

scientific article

De novo transcriptome assembly of two contrasting pumpkin cultivars

scientific article published on 15 January 2016

Detection of genomic idiosyncrasies using fuzzy phylogenetic profiles

scientific article

Dynamics of a Protein Interaction Network Associated to the Aggregation of polyQ-Expanded Ataxin-1

scientific article published on 25 September 2020

ELIXIR Europe on the Road to Sustainable Research Software

scientific article published on 02 July 2019

ELIXIR Software Management Plan for Life Sciences

Eleven quick tips for finding research data

scientific article published on 12 April 2018

FAIR for AI: An interdisciplinary and international community building perspective

scientific article published on 26 July 2023

Fostering global data sharing: highlighting the recommendations of the Research Data Alliance COVID-19 working group

scientific article published on 9 November 2020

Fostering global data sharing: highlighting the recommendations of the Research Data Alliance COVID-19 working group

scientific article published on 26 May 2021

Future opportunities and trends for e-infrastructures and life sciences: going beyond the grid to enable life science data analysis

scientific article

HIGHER ORDER IMMUNOGLOBULIN REPERTOIRE RESTRICTIONS IN CLL: THE ILLUSTRATIVE CASE OF STEREOTYPED SUBSETS #2 AND #169

scientific article published on 09 October 2020

Hermes: Seamless delivery of containerized bioinformatics workflows in hybrid cloud (HTC) environments

High-throughput analysis of the T cell receptor gene repertoire in low-count monoclonal B cell lymphocytosis reveals a distinct profile from chronic lymphocytic leukemia

scientific article published on 16 January 2020

How does software fit into the FDO landscape?

scientific article published in 2022

Inference of Pathway Decomposition Across Multiple Species Through Gene Clustering

article

Infrequent "chronic lymphocytic leukemia-specific" immunoglobulin stereotypes in aged individuals with or without low count monoclonal B cell lymphocytosis

scientific article published on 25 June 2020

Integrated epigenomic and transcriptomic analysis reveals TP63 as a novel player in clinically aggressive chronic lymphocytic leukemia

scientific article published on 15 January 2019

InterTADs: integration of multi-omics data on topologically associated domains, application to chronic lymphocytic leukemia

scientific article published on 14 January 2022

Introducing the FAIR Principles for research software

Scholarly article, 2022

MULTI-LEVEL CLUSTERING OF PHYLOGENETIC PROFILES

scholarly article by Fotis Psomopoulos & PERICLES A. MITKAS published October 2012 in International Journal on Artificial Intelligence Tools

Microbial spoilage investigation of thawed common cuttlefish (Sepia officinalis) stored at 2 °C using next generation sequencing and volatilome analysis

scientific article published on 06 August 2018

Multi Level Clustering of Phylogenetic Profiles

scholarly article published 2010

Multi-genome Core Pathway Identification through Gene Clustering

Nuclear inclusions of pathogenic ataxin-1 induce oxidative stress and perturb the protein synthesis machinery

scientific article published on 11 February 2020

Open Science Training Handbook ⬇️

book published in 2018

Pretransplant Genetic Susceptibility: Clinical Relevance in Transplant-Associated Thrombotic Microangiopathy

scientific article published on 04 March 2020

RAPP: A Robotic-Oriented Ecosystem for Delivering Smart User Empowering Applications for Older People

Stereotyped B Cell Receptor Immunoglobulins in B Cell Lymphomas

scientific article published on 01 January 2019

T cell dynamics in chronic lymphocytic leukemia under different treatment modalities

scientific article published on 02 July 2020

TRIP - T cell receptor/immunoglobulin profiler

scientific article published on 29 September 2020

Ten simple rules for making training materials FAIR

Scientific Article

Ten simple rules for making training materials FAIR

The ELIXIR Biodiversity Community: Understanding short- and long-term changes in biodiversity

scientific article published on 22 May 2024

The chlamydiales pangenome revisited: structural stability and functional coherence

scientific article published on 16 May 2012

Towards FAIR principles for research software

article published in 2019

miRkit: R framework analyzing miRNA PCR array data

publication published on 26 September 2021

List of works by Fotis Psomopoulos

A FAIRification roadmap for ELIXIR Software Management Plans

A Grid-Enabled Modular Framework for Efficient Sequence Analysis Workflows

A Multi-metric Algorithm for Hierarchical Clustering of Same-Length Protein Sequences

A Scalable Grid Computing Framework for Extensible Phylogenetic Profile Construction

A framework to assess the quality and impact of bioinformatics training across ELIXIR

A grid-enabled algorithm yields figure-eight molecular knot

Algebraic Interpretations Towards Clustering Protein Homology Data

Bacterial communities and potential spoilage markers of whole blue crab (Callinectes sapidus) stored under commercial simulated conditions

BioPAXViz: a cytoscape application for the visual exploration of metabolic pathway evolution

Bioinformatics algorithm development for Grid environments

Building Towards a Machine-Actionable Software Management Plan: A BioHackathon Europe 2023 Report

Chronic lymphocytic leukemias with trisomy 12 show a distinct DNA methylation profile linked to altered chromatin activation

Comparative Genomics of Botrytis cinerea Strains with Differential Multi-Drug Resistance

Comparative metagenomics reveals alterations in the soil bacterial community driven by N-fertilizer and Amino 16® application in lettuce

Data Mining in Proteomics Using Grid Computing

De novo comparative transcriptome analysis of genes involved in fruit morphology of pumpkin cultivars with extreme size difference and development of EST-SSR markers.

De novo transcriptome assembly of two contrasting pumpkin cultivars

Detection of genomic idiosyncrasies using fuzzy phylogenetic profiles

Dynamics of a Protein Interaction Network Associated to the Aggregation of polyQ-Expanded Ataxin-1

ELIXIR Europe on the Road to Sustainable Research Software

ELIXIR Software Management Plan for Life Sciences

Eleven quick tips for finding research data

FAIR for AI: An interdisciplinary and international community building perspective

Fostering global data sharing: highlighting the recommendations of the Research Data Alliance COVID-19 working group

Fostering global data sharing: highlighting the recommendations of the Research Data Alliance COVID-19 working group

Future opportunities and trends for e-infrastructures and life sciences: going beyond the grid to enable life science data analysis

HIGHER ORDER IMMUNOGLOBULIN REPERTOIRE RESTRICTIONS IN CLL: THE ILLUSTRATIVE CASE OF STEREOTYPED SUBSETS #2 AND #169

Hermes: Seamless delivery of containerized bioinformatics workflows in hybrid cloud (HTC) environments

High-throughput analysis of the T cell receptor gene repertoire in low-count monoclonal B cell lymphocytosis reveals a distinct profile from chronic lymphocytic leukemia

How does software fit into the FDO landscape?

Inference of Pathway Decomposition Across Multiple Species Through Gene Clustering

Infrequent "chronic lymphocytic leukemia-specific" immunoglobulin stereotypes in aged individuals with or without low count monoclonal B cell lymphocytosis

Integrated epigenomic and transcriptomic analysis reveals TP63 as a novel player in clinically aggressive chronic lymphocytic leukemia

InterTADs: integration of multi-omics data on topologically associated domains, application to chronic lymphocytic leukemia

Introducing the FAIR Principles for research software

MULTI-LEVEL CLUSTERING OF PHYLOGENETIC PROFILES

Microbial spoilage investigation of thawed common cuttlefish (Sepia officinalis) stored at 2 °C using next generation sequencing and volatilome analysis

Multi Level Clustering of Phylogenetic Profiles

Multi-genome Core Pathway Identification through Gene Clustering

Nuclear inclusions of pathogenic ataxin-1 induce oxidative stress and perturb the protein synthesis machinery

Open Science Training Handbook ⬇️

Pretransplant Genetic Susceptibility: Clinical Relevance in Transplant-Associated Thrombotic Microangiopathy

RAPP: A Robotic-Oriented Ecosystem for Delivering Smart User Empowering Applications for Older People

Stereotyped B Cell Receptor Immunoglobulins in B Cell Lymphomas

T cell dynamics in chronic lymphocytic leukemia under different treatment modalities

TRIP - T cell receptor/immunoglobulin profiler

Ten simple rules for making training materials FAIR

Ten simple rules for making training materials FAIR

The ELIXIR Biodiversity Community: Understanding short- and long-term changes in biodiversity

The chlamydiales pangenome revisited: structural stability and functional coherence

Towards FAIR principles for research software

miRkit: R framework analyzing miRNA PCR array data

Microbial spoilage investigation of thawed common cuttlefish (Sepia officinalis) stored at 2 °C using next generation sequencing and volatilome analysis