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List of works by Sanne Abeln

A simple lattice model that captures protein folding, aggregation and amyloid formation

scientific article published on 15 January 2014

Accounting for Protein-Solvent Contacts Facilitates Design of Nonaggregating Lattice Proteins ⬇️

scientific article published on February 2, 2011

Aurora kinase A (AURKA) interaction with Wnt and Ras-MAPK signalling pathways in colorectal cancer.

scientific article

BioASF: a framework for automatically generating executable pathway models specified in BioPAX.

scientific article

Bioinformatics and systems biology: bridging the gap between heterogeneous student backgrounds

scientific article published on 19 April 2013

Coarse-grained versus atomistic simulations: realistic interaction free energies for real proteins

scientific article

Comparing clustering and pre-processing in taxonomy analysis

scientific article published on 8 September 2012

Competition between surface adsorption and folding of fibril-forming polypeptides ⬇️

article

Consistent Treatment of Hydrophobicity in Protein Lattice Models Accounts for Cold Denaturation ⬇️

scientific article published in Physical Review Letters

Correction

Biophysical Journal; August 2011

Disordered flanks prevent peptide aggregation

scientific article

ECCB 2016: The 15th European Conference on Computational Biology

scientific article published on 01 September 2016

Explaining disease using big data: How valid is your pathway?

scientific article (publication date: July 2015)

Exploring fold space preferences of new-born and ancient protein superfamilies

scientific article

Fold usage on genomes and protein fold evolution.

scientific article

GeneBreak: detection of recurrent DNA copy number aberration-associated chromosomal breakpoints within genes.

scientific article published on 19 September 2016

High Prevalence and Clinical Relevance of Genes Affected by Chromosomal Breaks in Colorectal Cancer

scientific article published on 16 September 2015

How old is your fold?

scientific article

Integrating Candida albicans metabolism with biofilm heterogeneity by transcriptome mapping

scientific article

Integration of EGA secure data access into Galaxy

scientific article

Interplay between Folding and Assembly of Fibril-Forming Polypeptides

scientific article published in Physical Review Letters

Linking evolution of protein structures through fragments

Mapping the Protein Fold Universe Using the CamTube Force Field in Molecular Dynamics Simulations

scientific article published on 27 October 2015

Mechanical Unfolding of an Autotransporter Passenger Protein Reveals the Secretion Starting Point and Processive Transport Intermediates

scientific article

Methods included: Standardizing computational reuse and portability with the Common Workflow Language

scientific article published in June 2022

Motif-Aware PRALINE: Improving the alignment of motif regions

scientific article published on 01 November 2018

Multiple Sequence Alignment

scientific article published in January 2017

Multiple alignment of transmembrane protein sequences

NGS-eval: NGS Error analysis and novel sequence VAriant detection tooL.

scientific article published on 15 April 2015

Protein fold evolution on completed genomes: distinguishing between young and old folds ⬇️

doctoral thesis by Sanne Abeln

Quantifying the displacement of mismatches in multiple sequence alignment benchmarks

scientific article published on 19 May 2015

SCRY: Extending SPARQL with Custom Data Processing Methods for the Life Sciences ⬇️

SeRenDIP: SEquential REmasteriNg to DerIve profiles for fast and accurate predictions of PPI interface positions

scientific article published on 01 November 2019

Systematically linking tranSMART, Galaxy and EGA for reusing human translational research data. ⬇️

scientific article

Tailor-made multiple sequence alignments using the PRALINE 2 alignment toolkit

scientific article published on 01 December 2019

The hydrophobic effect characterises the thermodynamic signature of amyloid fibril growth

scientific article published on 04 May 2020

The hydrophobic temperature dependence of amino acids directly calculated from protein structures

scientific article

Training for translation between disciplines: a philosophy for life and data sciences curricula.

scientific article published in July 2018

Unraveling the outcome of 16S rDNA-based taxonomy analysis through mock data and simulations

scientific article

Using phylogeny to improve genome wide distant homology recognition

scholarly article by Sanne Abeln published in January 2005

Using phylogeny to improve genome-wide distant homology recognition

scientific article published on 20 November 2006

metaModules identifies key functional subnetworks in microbiome-related disease

scientific article published on 5 September 2015

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