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List of works by Natalio Krasnogor

A computational study of liposome logic: towards cellular computing from the bottom up.

scientific article published on 18 July 2010

A last-in first-out stack data structure implemented in DNA

scientific article published on 11 August 2021

A mixed discrete-continuous attribute list representation for large scale classification domains

A tale of human-competitiveness in bioinformatics

Analysing BioHEL using challenging boolean functions

Analysing bioHEL using challenging boolean functions

ArrayMining: a modular web-application for microarray analysis combining ensemble and consensus methods with cross-study normalization

scientific article

Automated alphabet reduction for protein datasets.

scientific article

Automated alphabet reduction method with evolutionary algorithms for protein structure prediction

Automated self-assembly programming paradigm: The impact of network topology

Automatic Selection of Verification Tools for Efficient Analysis of Biochemical Models

scientific article published on 24 April 2018

Bacteria clustering by polymers induces the expression of quorum-sensing-controlled phenotypes

scientific article published on 10 November 2013

Complexity measurement based on information theory and kolmogorov complexity

scientific article published on 26 January 2015

Contact map prediction using a large-scale ensemble of rule sets and the fusion of multiple predicted structural features.

scientific article published on 25 July 2012

Controlled polymer synthesis--from biomimicry towards synthetic biology.

scientific article

Correction to Simbiotics: A Multiscale Integrative Platform for 3D Modeling of Bacterial Populations

scientific article published on 01 March 2018

Data Mining in Proteomics with Learning Classifier Systems

Decellularised extracellular matrix-derived peptides from neural retina and retinal pigment epithelium enhance the expression of synaptic markers and light responsiveness of human pluripotent stem cell derived retinal organoids

scientific article published on 22 January 2019

Designing Uniquely Addressable Bio-orthogonal Synthetic Scaffolds for DNA and RNA Origami

scientific article published on 17 April 2017

Developing a simple method to enhance the generation of cone and rod photoreceptors in pluripotent stem cell-derived retinal organoids

scientific article published on 31 October 2019

Disrupted alternative splicing for genes implicated in splicing and ciliogenesis causes PRPF31 retinitis pigmentosa ⬇️

scientific article published in Nature Communications

Easybiotics: a GUI for 3D physical modelling of multi-species bacterial populations

scientific article published on 01 October 2019

EnrichNet: network-based gene set enrichment analysis.

scientific article

Evolutionary design of the energy function for protein structure prediction

Evolutionary symbolic discovery for bioinformatics, systems and synthetic biology

scholarly article published 2010

Evolving cell models for systems and synthetic biology

scientific article

Evolving tiles for automated self-assembly design

article

Extending pathways and processes using molecular interaction networks to analyse cancer genome data

scientific article

Extracellular matrix component expression in human pluripotent stem cell-derived retinal organoids recapitulates retinogenesis in vivo and reveals an important role for IMPG1 and CD44 in the development of photoreceptors and interphotoreceptor matri

scientific article published on 17 May 2018

From HP Lattice Models to Real Proteins: Coordination Number Prediction Using Learning Classifier Systems

Functional networks inference from rule-based machine learning models.

scientific article

GP challenge: evolving energy function for protein structure prediction

Genome-wide network model capturing seed germination reveals coordinated regulation of plant cellular phase transitions

scientific article

Goethe's dream. Challenges and opportunities for synthetic biology

scientific article published in August 2009

Hard Data Analytics Problems Make for Better Data Analysis Algorithms: Bioinformatics as an Example

scientific article

Heuristic for maximizing DNA reuse in synthetic DNA library assembly

scientific article

Improving the scalability of rule-based evolutionary learning

Is there an optimal level of open-endedness in prebiotic evolution?

scientific article published on 01 October 2012

Isothermal folding of a light-up bio-orthogonal RNA origami nanoribbon.

scientific article

JEPETTO: a Cytoscape plugin for gene set enrichment and topological analysis based on interaction networks.

scientific article

Linking Engineered Cells to Their Digital Twins: A Version Control System for Strain Engineering

scientific article published on 03 March 2020

Meta-stochastic simulation of biochemical models for systems and synthetic biology

scientific article

Modelling the initialisation stage of the ALKR representation for discrete domains and GABIL encoding

OptDesign: Identifying Optimum Design Strategies in Strain Engineering for Biochemical Production

scientific article published in 2022

P systems applications to systems biology

scientific article published on 17 July 2007

Performance and efficiency of memetic Pittsburgh learning classifier systems

scientific article published in January 2009

Population Dynamics of Autocatalytic Sets in a Compartmentalized Spatial World

scientific article

Post-processing operators for decision lists

Predicting species emergence in simulated complex pre-biotic networks

scientific article published on 15 February 2018

Prediction of recursive convex hull class assignments for protein residues.

scientific article

Prediction of topological contacts in proteins using learning classifier systems

ProCKSI: a decision support system for Protein (structure) Comparison, Knowledge, Similarity and Information

scientific article

Protein interactions within and between two F-type type IV secretion systems

scientific article published on 01 August 2020

Qualitative and quantitative analysis of systems and synthetic biology constructs using P systems

scientific article published on 14 August 2014

RERG (Ras-like, oestrogen-regulated, growth-inhibitor) expression in breast cancer: a marker of ER-positive luminal-like subtype.

scientific article published on 10 August 2010

Search strategies in structural bioinformatics.

scientific article

Simbiotics: A Multiscale Integrative Platform for 3D Modeling of Bacterial Populations.

scientific article

Speeding up the evaluation of evolutionary learning systems using GPGPUs

Stochastic and deterministic multiscale models for systems biology: an auxin-transport case study

scientific article

Synthesis and cell-free cloning of DNA libraries using programmable microfluidics

scientific article

Synthetic biology gains momentum in Europe

scientific article published on September 2010

The Infobiotics Workbench: an integrated in silico modelling platform for Systems and Synthetic Biology

scientific article published on 12 October 2011

The imitation game—a computational chemical approach to recognizing life

scientific article published on 01 October 2006

The ten grand challenges of synthetic life

scientific article

TopoGSA: network topological gene set analysis

scientific article

Transcriptional dynamics of two seed compartments with opposing roles in Arabidopsis seed germination

scientific article published on 15 July 2013

Transcriptional profiling of coaggregation interactions between Streptococcus gordonii and Veillonella parvula by Dual RNA-Seq

scientific article published on 21 May 2019

Using rule-based machine learning for candidate disease gene prioritization and sample classification of cancer gene expression data

scientific article

Versioning biological cells for trustworthy cell engineering

scientific article published on 09 February 2022

vrmlgen: An R Package for 3D Data Visualization on the Web

article published in 2010

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