Lista de obras - Lars Malmström - Dominio Público Uruguay

2DDB - a bioinformatics solution for analysis of quantitative proteomics data

artículo científico publicado en 2006

A Combined Shotgun and Targeted Mass Spectrometry Strategy for Breast Cancer Biomarker Discovery

artículo científico

A computational tool to detect and avoid redundancy in selected reaction monitoring

artículo científico publicado en 2012

A divergent Pseudomonas aeruginosa palmitoyltransferase essential for cystic fibrosis-specific lipid A.

artículo científico publicado en 2013

A quantitative Streptococcus pyogenes-human protein-protein interaction map reveals localization of opsonizing antibodies.

artículo científico publicado en 2019

An automated pipeline for high-throughput label-free quantitative proteomics

artículo científico publicado en 2013

An objective comparison of cell-tracking algorithms.

artículo científico publicado en 2017

Assigning function to yeast proteins by integration of technologies.

artículo científico publicado en 2003

Automated prediction of CASP-5 structures using the Robetta server.

artículo científico publicado en 2003

Automated prediction of domain boundaries in CASP6 targets using Ginzu and RosettaDOM.

artículo científico publicado en 2005

Automated workflow for large-scale selected reaction monitoring experiments

artículo científico publicado en 2012

Bioinformatic challenges in targeted proteomics

artículo científico

Comprehensive ADP-ribosylome analysis identifies tyrosine as an ADP-ribose acceptor site

artículo científico publicado en 2018

Computational Proteomics with Jupyter and Python

scientific article published on 01 January 2019

Cross-link guided molecular modeling with ROSETTA

artículo científico publicado en 2013

DIANA--algorithmic improvements for analysis of data-independent acquisition MS data

artículo científico publicado en 2014

De Novo Prediction of Three-dimensional Structures for Major Protein Families

artículo científico publicado en 2002

Deciphering diatom biochemical pathways via whole-cell proteomics.

artículo científico publicado en 2009

Efficient visualization of high-throughput targeted proteomics experiments: TAPIR.

artículo científico publicado en 2015

FAIRDOMHub: a repository and collaboration environment for sharing systems biology research

artículo científico publicado en 2017

Fast and Efficient XML Data Access for Next-Generation Mass Spectrometry

artículo científico publicado en 2015

Free modeling with Rosetta in CASP6

artículo científico publicado en 2005

Functional and structural properties of a novel protein and virulence factor (Protein sHIP) in Streptococcus pyogenes

artículo científico publicado en 2014

Greedy de novo motif discovery to construct motif repositories for bacterial proteomes

scholarly article by Hamed Khakzad et al published 18 April 2019 in BMC Bioinformatics

Identification of a Set of Conserved Eukaryotic Internal Retention Time Standards for Data-independent Acquisition Mass Spectrometry

artículo científico publicado en 2015

Identification of secreted glycoproteins of human prostate and bladder stromal cells by comparative quantitative proteomics

artículo científico publicado en 2009

Identification of the active site of DS-epimerase 1 and requirement of N-glycosylation for enzyme function

artículo científico publicado en 2008

Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS.

artículo científico publicado en 2017

Large-scale inference of protein tissue origin in gram-positive sepsis plasma using quantitative targeted proteomics

artículo científico publicado en 2016

Macromolecular modeling and design in Rosetta: recent methods and frameworks

artículo científico publicado en 2020

Nanocapillary liquid chromatography interfaced to tandem matrix-assisted laser desorption/ionization and electrospray ionization-mass spectrometry: mapping the nuclear proteome of human fibroblasts

artículo científico publicado en 2003

Numerical compression schemes for proteomics mass spectrometry data

artículo científico publicado en 2014

OpenMS: a flexible open-source software platform for mass spectrometry data analysis

artículo científico publicado en 2016

OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data

artículo científico publicado en 2014

Prediction of CASP6 structures using automated Robetta protocols

artículo científico publicado en 2005

Protein structure modeling

artículo científico publicado en 2010

Proteome annotations and identifications of the human pulmonary fibroblast

artículo científico publicado en 2004

Proteome-wide selected reaction monitoring assays for the human pathogen Streptococcus pyogenes

artículo científico publicado en 2012

Proteomic 2DE database for spot selection, automated annotation, and data analysis

artículo científico publicado en 2002

Proteomics analysis of liver pathological calcification suggests a role for the IQ motif containing GTPase activating protein 1 in myofibroblast function

scientific article published on 01 March 2009

Quantification of Adaptive Immune Responses Against Protein-Binding Interfaces in the Streptococcal M1 Protein

artículo científico publicado en 2024

Quantitative proteomic characterization of the lung extracellular matrix in chronic obstructive pulmonary disease and idiopathic pulmonary fibrosis.

artículo científico publicado en 2018

Quantitative proteomics of microbes: Principles and applications to virulence ⬇️

artículo científico publicado el 4 de julio de 2011

Rapid determination of quaternary protein structures in complex biological samples

artículo científico publicado en 2019

Reproducible quantitative proteotype data matrices for systems biology

artículo científico publicado en 2015

Spike-Dependent Opsonization Indicates Both Dose-Dependent Inhibition of Phagocytosis and That Non-Neutralizing Antibodies Can Confer Protection to SARS-CoV-2

scientific article published on 14 January 2022

Splicosomal and serine and arginine-rich splicing factors as targets for TGF-β.

artículo científico publicado en 2012

Streptococcus pyogenes in human plasma: adaptive mechanisms analyzed by mass spectrometry-based proteomics

artículo científico publicado en 2011

Structural Probing of a Protein Phosphatase 2A Network by Chemical Cross-Linking and Mass Spectrometry

artículo científico publicado en 2012

Structural determination of Streptococcus pyogenes M1 protein interactions with human immunoglobulin G using integrative structural biology

artículo científico publicado en 2021

Structure prediction for CASP7 targets using extensive all-atom refinement with Rosetta@home

artículo científico publicado en 2007

Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology

artículo científico publicado en 2007

TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomics

scientific article published on August 2016

Targeted Proteomics and Absolute Protein Quantification for the Construction of a Stoichiometric Host-Pathogen Surface Density Model

artículo científico publicado en 2017

The Proteome Folding Project: proteome-scale prediction of structure and function

artículo científico publicado en 2011

The Yeast Resource Center Public Data Repository

artículo científico publicado en 2005

The importance of fibroblasts in remodelling of the human uterine cervix during pregnancy and parturition

artículo científico publicado en 2007

Using synthetic peptides to benchmark peptide identification software and search parameters for MS/MS data analysis

artículo científico publicado en 2014

Xwalk: computing and visualizing distances in cross-linking experiments

artículo científico publicado en 2011

openBIS: a flexible framework for managing and analyzing complex data in biology research

artículo científico publicado en 2011

pyOpenMS: a Python-based interface to the OpenMS mass-spectrometry algorithm library

artículo científico

xTract: software for characterizing conformational changes of protein complexes by quantitative cross-linking mass spectrometry

artículo científico publicado en 2015

Lista de obras de Lars Malmström

2DDB - a bioinformatics solution for analysis of quantitative proteomics data

A Combined Shotgun and Targeted Mass Spectrometry Strategy for Breast Cancer Biomarker Discovery

A computational tool to detect and avoid redundancy in selected reaction monitoring

A divergent Pseudomonas aeruginosa palmitoyltransferase essential for cystic fibrosis-specific lipid A.

A quantitative Streptococcus pyogenes-human protein-protein interaction map reveals localization of opsonizing antibodies.

An automated pipeline for high-throughput label-free quantitative proteomics

An objective comparison of cell-tracking algorithms.

Assigning function to yeast proteins by integration of technologies.

Automated prediction of CASP-5 structures using the Robetta server.

Automated prediction of domain boundaries in CASP6 targets using Ginzu and RosettaDOM.

Automated workflow for large-scale selected reaction monitoring experiments

Bioinformatic challenges in targeted proteomics

Comprehensive ADP-ribosylome analysis identifies tyrosine as an ADP-ribose acceptor site

Computational Proteomics with Jupyter and Python

Cross-link guided molecular modeling with ROSETTA

DIANA--algorithmic improvements for analysis of data-independent acquisition MS data

De Novo Prediction of Three-dimensional Structures for Major Protein Families

Deciphering diatom biochemical pathways via whole-cell proteomics.

Efficient visualization of high-throughput targeted proteomics experiments: TAPIR.

FAIRDOMHub: a repository and collaboration environment for sharing systems biology research

Fast and Efficient XML Data Access for Next-Generation Mass Spectrometry

Free modeling with Rosetta in CASP6

Functional and structural properties of a novel protein and virulence factor (Protein sHIP) in Streptococcus pyogenes

Greedy de novo motif discovery to construct motif repositories for bacterial proteomes

Identification of a Set of Conserved Eukaryotic Internal Retention Time Standards for Data-independent Acquisition Mass Spectrometry

Identification of secreted glycoproteins of human prostate and bladder stromal cells by comparative quantitative proteomics

Identification of the active site of DS-epimerase 1 and requirement of N-glycosylation for enzyme function

Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS.

Large-scale inference of protein tissue origin in gram-positive sepsis plasma using quantitative targeted proteomics

Macromolecular modeling and design in Rosetta: recent methods and frameworks

Nanocapillary liquid chromatography interfaced to tandem matrix-assisted laser desorption/ionization and electrospray ionization-mass spectrometry: mapping the nuclear proteome of human fibroblasts

Numerical compression schemes for proteomics mass spectrometry data

OpenMS: a flexible open-source software platform for mass spectrometry data analysis

OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data

Prediction of CASP6 structures using automated Robetta protocols

Protein structure modeling

Proteome annotations and identifications of the human pulmonary fibroblast

Proteome-wide selected reaction monitoring assays for the human pathogen Streptococcus pyogenes

Proteomic 2DE database for spot selection, automated annotation, and data analysis

Proteomics analysis of liver pathological calcification suggests a role for the IQ motif containing GTPase activating protein 1 in myofibroblast function

Quantification of Adaptive Immune Responses Against Protein-Binding Interfaces in the Streptococcal M1 Protein

Quantitative proteomic characterization of the lung extracellular matrix in chronic obstructive pulmonary disease and idiopathic pulmonary fibrosis.

Quantitative proteomics of microbes: Principles and applications to virulence ⬇️

Rapid determination of quaternary protein structures in complex biological samples

Reproducible quantitative proteotype data matrices for systems biology

Spike-Dependent Opsonization Indicates Both Dose-Dependent Inhibition of Phagocytosis and That Non-Neutralizing Antibodies Can Confer Protection to SARS-CoV-2

Splicosomal and serine and arginine-rich splicing factors as targets for TGF-β.

Streptococcus pyogenes in human plasma: adaptive mechanisms analyzed by mass spectrometry-based proteomics

Structural Probing of a Protein Phosphatase 2A Network by Chemical Cross-Linking and Mass Spectrometry

Structural determination of Streptococcus pyogenes M1 protein interactions with human immunoglobulin G using integrative structural biology

Structure prediction for CASP7 targets using extensive all-atom refinement with Rosetta@home

Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology

TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomics

Targeted Proteomics and Absolute Protein Quantification for the Construction of a Stoichiometric Host-Pathogen Surface Density Model

The Proteome Folding Project: proteome-scale prediction of structure and function

The Yeast Resource Center Public Data Repository

The importance of fibroblasts in remodelling of the human uterine cervix during pregnancy and parturition

Using synthetic peptides to benchmark peptide identification software and search parameters for MS/MS data analysis

Xwalk: computing and visualizing distances in cross-linking experiments

openBIS: a flexible framework for managing and analyzing complex data in biology research

pyOpenMS: a Python-based interface to the OpenMS mass-spectrometry algorithm library

xTract: software for characterizing conformational changes of protein complexes by quantitative cross-linking mass spectrometry