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List of works by Burkhard Rost

(1)H, (13)C and (15)N assignments for the Archaeglobus fulgidis protein AF2095.

scientific article published on September 2004

A draft network of ligand-receptor-mediated multicellular signalling in human

scientific article published on 22 July 2015

A large-scale evaluation of computational protein function prediction

scientific article

A mutation in VPS35, encoding a subunit of the retromer complex, causes late-onset Parkinson disease

scientific article

Accelerating the Original Profile Kernel

scientific article

Alternative protein-protein interfaces are frequent exceptions

scientific article

An estimated 5% of new protein structures solved today represent a new Pfam family

scientific article published on 12 October 2013

An expanded evaluation of protein function prediction methods shows an improvement in accuracy ⬇️

scientific article

Analysing six types of protein-protein interfaces

scientific article (publication date: 10 January 2003)

Anatomy of BioJS, an open source community for the life sciences

scientific article

Aquaria: simplifying discovery and insight from protein structures

scientific article published in February 2015

Automated identification of complementarity determining regions (CDRs) reveals peculiar characteristics of CDRs and B cell epitopes

scientific article

Automatic target selection for structural genomics on eukaryotes

scientific article published in August 2004

Better prediction of functional effects for sequence variants

scientific article published on 18 June 2015

Better prediction of sub-cellular localization by combining evolutionary and structural information.

scientific article

Beyond annotation transfer by homology: novel protein-function prediction methods to assist drug discovery

scientific article

Bioinformatics predictions of localization and targeting

scientific article

CAFASP-1: Critical assessment of fully automated structure prediction methods

article

CAFASP3 in the spotlight of EVA ⬇️

scientific article published on 01 January 2003

CASP6 assessment of contact prediction.

scientific article

CHOP proteins into structural domain-like fragments

scientific article

CHOP: parsing proteins into structural domains

scientific article published on July 2004

Cataloging proteins in cell cycle control.

scientific article published in January 2004

Cell cycle kinases predicted from conserved biophysical properties

scientific article published on February 2009

CellMap visualizes protein-protein interactions and subcellular localization

scientific article published on 11 October 2017

Cloud prediction of protein structure and function with PredictProtein for Debian.

scientific article

Co-expression and co-localization of hub proteins and their partners are encoded in protein sequence

scientific article published on 23 January 2014

Common sequence variants affect molecular function more than rare variants?

scientific article

Comparison of a molecular dynamics model with the X-ray structure of the N370S acid-beta-glucosidase mutant that causes Gaucher disease

scientific article

Comparisons of NMR spectral quality and success in crystallization demonstrate that NMR and X-ray crystallography are complementary methods for small protein structure determination.

scientific article

Comprehensive in silico mutagenesis highlights functionally important residues in proteins

scientific article

Computational prediction shines light on type III secretion origins

scientific article published on 07 October 2016

Consensus sequences improve PSI-BLAST through mimicking profile-profile alignments

scientific article

Continuum secondary structure captures protein flexibility

scientific article (publication date: February 2002)

Coordinating the impact of structural genomics on the human α-helical transmembrane proteome

scientific article

Correlating protein function and stability through the analysis of single amino acid substitutions.

scientific article

Corrigendum: A draft network of ligand-receptor-mediated multicellular signalling in human

scientific article published on 10 February 2016

Create and assess protein networks through molecular characteristics of individual proteins

scientific article

Critical assessment of methods of protein structure prediction (CASP)--round 6.

scientific article

Critical assessment of methods of protein structure prediction - Round VIII.

scientific article published in January 2009

Critical assessment of methods of protein structure prediction-Round VII

scientific article

Crystal structure of a phosphorylation-coupled saccharide transporter

scientific article

Crystal structure of a potassium ion transporter, TrkH

scientific article

DSSPcont: Continuous secondary structure assignments for proteins.

scientific article

Dark Proteins Important for Cellular Function

scholarly article by Andrea Schafferhans published in October 2018

Did evolution leap to create the protein universe?

scientific article

Discovery of numerous novel small genes in the intergenic regions of the Escherichia coli O157:H7 Sakai genome

scientific article published on 13 September 2017

Disease-related mutations predicted to impact protein function

scientific article

Distinguishing protein-coding from non-coding RNAs through support vector machines

scientific article

Domains, motifs and clusters in the protein universe

scientific article

EVA: Evaluation of protein structure prediction servers.

scientific article

EVA: continuous automatic evaluation of protein structure prediction servers ⬇️

scientific article published on December 1, 2001

EVAcon: a protein contact prediction evaluation service

scientific article

Engineering indel and substitution variants of diverse and ancient enzymes using Graphical Representation of Ancestral Sequence Predictions (GRASP)

Engineering indel and substitution variants of diverse and ancient enzymes using Graphical Representation of Ancestral Sequence Predictions (GRASP)

Environmental Pressure May Change the Composition Protein Disorder in Prokaryotes

scientific article published on 7 August 2015

Enzyme function less conserved than anticipated.

scientific article

Epitome: database of structure-inferred antigenic epitopes

scientific article

Evaluation of template-based models in CASP8 with standard measures

scientific article (publication date: 2009)

Evaluation of transmembrane helix predictions in 2014.

scientific article published on 22 January 2015

Evolutionary profiles improve protein-protein interaction prediction from sequence

scientific article

FreeContact: fast and free software for protein contact prediction from residue co-evolution

scientific article (publication date: 26 March 2014)

HFSP: high speed homology-driven function annotation of proteins.

scientific article published in July 2018

HeatMapViewer: interactive display of 2D data in biology

scientific article

Homologue structure of the SLAC1 anion channel for closing stomata in leaves

scientific article

Homology-based inference sets the bar high for protein function prediction

scientific article

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus

scientific article (publication date: 29 January 2015)

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus

scientific article

ISCB Public Policy Statement on Open Access to Scientific and Technical Research Literature

scientific article

ISCB computational biology Wikipedia competition

scientific article published in 2013

ISCB public policy statement on open access to scientific and technical research literature

scientific article (publication date: February 2011)

ISCB: past-present perspective for the International Society for Computational Biology

scientific article (publication date: 14 November 2013)

ISCB: past-present perspective for the International Society for Computational Biology

scientific article published on January 2014

ISIS: interaction sites identified from sequence.

scientific article

ISMB 2008 Toronto

scientific article published in June 2008

Identifying cysteines and histidines in transition-metal-binding sites using support vector machines and neural networks.

scientific article

Improved disorder prediction by combination of orthogonal approaches

scientific article

Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles.

scientific article

In silico mutagenesis: a case study of the melanocortin 4 receptor

scientific article

InCoB celebrates its tenth anniversary as first joint conference with ISCB-Asia

scientific article

Inferring sub-cellular localization through automated lexical analysis

scientific article published in January 2002

LOC3D: annotate sub-cellular localization for protein structures

scientific article

LOCnet and LOCtarget: sub-cellular localization for structural genomics targets

scientific article published on July 2004

Large-scale analysis of thermostable, mammalian proteins provides insights into the intrinsically disordered proteome

scientific article published on January 2009

Large-scale experimental studies show unexpected amino acid effects on protein expression and solubility in vivo in E. coli ⬇️

scientific article published on June 27, 2011

Linked annotations: a middle ground for manual curation of biomedical databases and text corpora

scientific article (publication date: 23 January 2015) from BioRxiv

Linked annotations: a middle ground for manual curation of biomedical databases and text corpora

scientific article published on 6 August 2015

LocDB: experimental annotations of localization for Homo sapiens and Arabidopsis thaliana

scientific article

LocText: relation extraction of protein localizations to assist database curation ⬇️

scientific article published on 17 January 2018

LocTree2 predicts localization for all domains of life

scientific article

LocTree3 prediction of localization

scientific article (publication date: July 2014)

Long membrane helices and short loops predicted less accurately

scientific article published on December 2002

Loopy proteins appear conserved in evolution

scientific article published in September 2002

META-PP: single interface to crucial prediction servers.

scientific article

MSAViewer: interactive JavaScript visualization of multiple sequence alignments

scientific article published on 13 July 2016

Marrying structure and genomics ⬇️

scientific article published on March 15, 1998

Membrane protein prediction methods

scientific article

Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus

scientific article published on 2 February 2015

MetalDetector: a web server for predicting metal-binding sites and disulfide bridges in proteins from sequence

scientific article published on 16 July 2008

Mimicking cellular sorting improves prediction of subcellular localization

scientific article (publication date: 22 April 2005)

Molecular modelling of the Norrie disease protein predicts a cystine knot growth factor tertiary structure

scientific article

More challenges for machine-learning protein interactions

scientific article published on 12 January 2015

MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data

scientific article

MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data.

scientific article published on 23 November 2010

NLProt: extracting protein names and sequences from papers

scientific article published on July 2004

NLSdb: database of nuclear localization signals

scientific article

NMPdb: Database of Nuclear Matrix Proteins

scientific article

NMR and X-RAY structures of human E2-like ubiquitin-fold modifier conjugating enzyme 1 (UFC1) reveal structural and functional conservation in the metazoan UFM1-UBA5-UFC1 ubiquination pathway

scientific article

NMR structure of lipoprotein YxeF from Bacillus subtilis reveals a calycin fold and distant homology with the lipocalin Blc from Escherichia coli

scientific article

NMR structure of protein YvyC fromBacillus subtilisreveals unexpected structural similarity between two PFAM families

scientific article

NMR structure of the peptidyl-tRNA hydrolase domain from Pseudomonas syringae expands the structural coverage of the hydrolysis domains of class 1 peptide chain release factors

scientific article

NORSp: Predictions of long regions without regular secondary structure

scientific article

Natively unstructured loops differ from other loops

scientific article

Natively unstructured regions in proteins identified from contact predictions

scientific article

Neural networks predict protein structure and function.

scientific article

Neutral and weakly nonneutral sequence variants may define individuality

scientific article published on 12 August 2013

New in protein structure and function annotation: hotspots, single nucleotide polymorphisms and the 'Deep Web'.

scientific article

News from the protein mutability landscape

scientific article published on 26 July 2013

Novel leverage of structural genomics

scientific article published in August 2007

Online tools for predicting integral membrane proteins

scientific article

Outcome of a workshop on archiving structural models of biological macromolecules

scientific article

PEP: Predictions for Entire Proteomes

scientific article

PROFcon: novel prediction of long-range contacts.

scientific article

PROFtmb: a web server for predicting bacterial transmembrane beta barrel proteins

scientific article

PSI-2: structural genomics to cover protein domain family space.

scientific article

Paving the future: finding suitable ISMB venues

scientific article

Physical protein-protein interactions predicted from microarrays

scientific article

Powerful fusion: PSI-BLAST and consensus sequences

scientific article

Predict impact of single amino acid change upon protein structure

scientific article

PredictProtein--an open resource for online prediction of protein structural and functional features

scientific article

Predicted Molecular Effects of Sequence Variants Link to System Level of Disease

scientific article

Predicted protein-protein interaction sites from local sequence information

scientific article

Predicting transmembrane beta-barrels in proteomes

scientific article

Prediction in 1D: secondary structure, membrane helices, and accessibility

scientific article

Prediction of DNA-binding residues from sequence

scientific article

Protein conformational flexibility prediction using machine learning

scientific article published on February 2008

Protein disorder reduced in Saccharomyces cerevisiae to survive heat shock

scientific article

Protein disorder--a breakthrough invention of evolution?

scientific article

Protein flexibility and rigidity predicted from sequence

scientific article

Protein fold recognition by prediction-based threading ⬇️

scientific article published on July 18, 1997

Protein folding rates estimated from contact predictions.

scientific article

Protein function in precision medicine: deep understanding with machine learning

scientific article

Protein names precisely peeled off free text.

scientific article

Protein secondary structure appears to be robust under in silico evolution while protein disorder appears not to be.

scientific article

Protein structure. Structure and activity of tryptophan-rich TSPO proteins

scientific journal article

Protein structures sustain evolutionary drift ⬇️

scientific article published on January 1, 1997

Protein subcellular localization prediction using artificial intelligence technology

scientific article published on January 2008

Protein-protein interaction hotspots carved into sequences

scientific article

Protein-protein interactions more conserved within species than across species

scientific article

Reduced calcification of marine plankton in response to increased atmospheric CO2

scientific article (publication date: 21 September 2000)

Reliability of assessment of protein structure prediction methods.

scientific article

Reply to Moult et al

SNAP predicts effect of mutations on protein function

scientific article

SNAP: predict effect of non-synonymous polymorphisms on function

scientific article

SNPdbe: constructing an nsSNP functional impacts database

scientific article

Secondary structure assignment.

scientific article

Sequence conserved for subcellular localization

scientific article published on December 2002

Sequence-based prediction of protein domains.

scientific article

Sisyphus and prediction of protein structure ⬇️

scientific article published on August 1, 1997

Solution NMR structure of Escherichia coli ytfP expands the structural coverage of the UPF0131 protein domain family

scientific article

Solution NMR structure of Lin0431 protein from Listeria innocua reveals high structural similarity with domain II of bacterial transcription antitermination protein NusG

scientific article

Solution NMR structure of photosystem II reaction center protein Psb28 fromSynechocystis sp. Strain PCC 6803

scientific article

Solution NMR structure of the 30S ribosomal protein S28E fromPyrococcus horikoshii

scientific article

Solution NMR structure of the NlpC/P60 domain of lipoprotein Spr from Escherichia coli: structural evidence for a novel cysteine peptidase catalytic triad

scientific article

Solution NMR structure of the SOS response protein YnzC from Bacillus subtilis

scientific article

Solution NMR structure of the ribosomal protein RP-L35Ae from Pyrococcus furiosus

scientific article

Solution NMR structures of proteins VPA0419 fromVibrio parahaemolyticusand yiiS fromShigella flexneriprovide structural coverage for protein domain family PFAM 04175

scientific article

Solution structure of Archaeglobus fulgidis peptidyl-tRNA hydrolase (Pth2) provides evidence for an extensive conserved family of Pth2 enzymes in archea, bacteria, and eukaryotes

scientific article

State-of-the-art in membrane protein prediction

scientific article published on January 2002

Static benchmarking of membrane helix predictions

scientific article

Structural Basis ofO6-Alkylguanine Recognition by a Bacterial Alkyltransferase-like DNA Repair Protein

scientific article

Structural basis for a pH-sensitive calcium leak across membranes

scientific article

Structural elucidation of the Cys-His-Glu-Asn proteolytic relay in the secreted CHAP domain enzyme from the human pathogenStaphylococcus saprophyticus

scientific article

Structural genomics is the largest contributor of novel structural leverage

scientific article published on 05 February 2009

Structural genomics plucks high-hanging membrane proteins

scientific article

Structural genomics reveals EVE as a new ASCH/PUA-related domain

scientific article

Structural genomics target selection for the New York consortium on membrane protein structure.

scientific article

Structure and selectivity in bestrophin ion channels

scientific article

TMSEG: Novel prediction of transmembrane helices

scientific article

Taking structure searches to the next dimension.

scientific article

Target space for structural genomics revisited

scientific article published in July 2002

The 2.35 A structure of the TenA homolog from Pyrococcus furiosus supports an enzymatic function in thiamine metabolism

scientific article

The New York Consortium on Membrane Protein Structure (NYCOMPS): a high-throughput platform for structural genomics of integral membrane proteins

scientific article

The PredictProtein server.

scientific article

The protein target list of the Northeast Structural Genomics Consortium

scientific article published in August 2004

ThreaDNA: predicting DNA mechanics' contribution to sequence selectivity of proteins along whole genomes

scientific article published in February 2018

Three-dimensional structures of membrane proteins from genomic sequencing

scientific article

Tools and data services registry: a community effort to document bioinformatics resources

scientific article

Towards big data science in the decade ahead from ten years of InCoB and the 1st ISCB-Asia Joint Conference

scientific article

Translatomics combined with transcriptomics and proteomics reveals novel functional, recently evolved orphan genes in Escherichia coli O157:H7 (EHEC).

scientific article

Transmembrane domains in the functions of Fc receptors

scientific article published in January 2003

Transmembrane helix predictions revisited

scientific article published on December 2002

Treatment-related features improve machine learning prediction of prognosis in soft tissue sarcoma patients

scientific article published on 20 March 2018

Understanding the physical properties that control protein crystallization by analysis of large-scale experimental data.

scientific article

Unexpected features of the dark proteome

scientific article

UniqueProt: Creating representative protein sequence sets

scientific article

Using genetic algorithms to select most predictive protein features

scientific article

What's in a name? Why these proteins are intrinsically disordered: Why these proteins are intrinsically disordered

scientific article

nala: text mining natural language mutation mentions

scientific article published on 13 February 2017

tagtog: interactive and text-mining-assisted annotation of gene mentions in PLOS full-text articles

scientific article

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