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List of works by Harald Barsnes

A Pipeline for Differential Proteomics in Unsequenced Species

scientific article published on 18 April 2016

A Simple Workflow for Large Scale Shotgun Glycoproteomics.

scientific article published on January 2016

A global analysis of peptide fragmentation variability

scientific article

An Accessible Proteogenomics Informatics Resource for Cancer Researchers

scientific article published on November 2017

Analyzing the Structure of Pathways and Its Influence on the Interpretation of Biomedical Proteomics Data Sets

scientific article published on 24 October 2018

Anatomy and evolution of database search engines-a central component of mass spectrometry based proteomic workflows

scientific article

BioContainers: An open-source and community-driven framework for software standardization

scientific article

Bioinformatics for proteomics: opportunities at the interface between the scientists, their experiments, and the community

scientific article published on 01 January 2014

Blind search for post-translational modifications and amino acid substitutions using peptide mass fingerprints from two proteases.

scientific article

CSF-PR 2.0: An Interactive Literature Guide to Quantitative Cerebrospinal Fluid Mass Spectrometry Data from Neurodegenerative Disorders

scientific article

Carboxyl-ester lipase maturity-onset diabetes of the young disease protein biomarkers in secretin-stimulated duodenal juice

scientific article published on 04 November 2014

Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for seamless end-to-end metaproteomics data analysis

scientific article published on 20 May 2020

Crowdsourcing in proteomics: public resources lead to better experiments

scientific article published on 02 February 2013

Database Search Engines: Paradigms, Challenges and Solutions

scientific article published on January 2016

DeNovoGUI: an open source graphical user interface for de novo sequencing of tandem mass spectra.

scientific article published on 7 January 2014

Detecting single amino acids and small peptides by combining isobaric tags and peptidomics

scientific article published on 12 June 2019

Development of robust targeted proteomics assays for cerebrospinal fluid biomarkers in multiple sclerosis

scientific article published on 18 September 2020

Discovery and initial verification of differentially abundant proteins between multiple sclerosis patients and controls using iTRAQ and SID-SRM ⬇️

scientific article published on October 8, 2012

Distributed and interactive visual analysis of omics data

scientific article

Distributed computing and data storage in proteomics: many hands make light work, and a stronger memory

scientific article

Dynamic proteome profiling of human pluripotent stem cell-derived pancreatic progenitors

scientific article published on 22 January 2020

Erratum: ms_lims, a simple yet powerful open source laboratory information management system for MS-driven proteomics

scholarly article published in Proteomics

Essential Features and Use Cases of the Cerebrospinal Fluid Proteome Resource (CSF-PR)

scientific article published on 01 January 2019

Exploring the potential of public proteomics data

scientific article

FragmentationAnalyzer: an open-source tool to analyze MS/MS fragmentation data

scientific article

Getting a grip on proteomics data - Proteomics Data Collection (ProDaC).

scientific article

In-Depth Cerebrospinal Fluid Quantitative Proteome and Deglycoproteome Analysis: Presenting a Comprehensive Picture of Pathways and Processes Affected by Multiple Sclerosis

scientific article published on 11 October 2016

In-depth characterization of the cerebrospinal fluid (CSF) proteome displayed through the CSF proteome resource (CSF-PR).

scientific article published on 18 July 2014

Interpretation of Quantitative Shotgun Proteomic Data.

scientific article

IsobariQ: software for isobaric quantitative proteomics using IPTL, iTRAQ, and TMT.

scientific article

JSparklines: making tabular proteomics data come alive

scientific article

Label-free analysis of human cerebrospinal fluid addressing various normalization strategies and revealing protein groups affected by multiple sclerosis.

scientific article published on 3 February 2016

Leptin Receptor Signaling Regulates Protein Synthesis Pathways and Neuronal Differentiation in Pluripotent Stem Cells

scientific article published on 20 October 2020

Machine learning applications in proteomics research: how the past can boost the future

scientific article published on 21 January 2014

MassSorter: a tool for administrating and analyzing data from mass spectrometry experiments on proteins with known amino acid sequences.

scientific article

MassSorter: peptide mass fingerprinting data analysis.

scientific article

OLS Client and OLS Dialog: Open source tools to annotate public omics datasets.

scientific article published on 09 August 2017

OLS dialog: an open-source front end to the ontology lookup service

scientific article (publication date: 17 January 2010)

OMSSA Parser: an open-source library to parse and extract data from OMSSA MS/MS search results

scientific article

On the importance of block randomisation when designing proteomics experiments

scientific article published on 21 September 2020

PRIDE Converter: making proteomics data-sharing easy

scientific article published on July 2009

PathwayMatcher: proteoform-centric network construction enables fine-granularity multiomics pathway mapping

scientific article published on 01 August 2019

PeptideMapper: Efficient and Versatile Amino Acid Sequence and Tag Mapping

scientific article

PeptideShaker enables reanalysis of MS-derived proteomics data sets.

scientific article published in January 2015

Pladipus Enables Universal Distributed Computing in Proteomics Bioinformatics.

scientific article published on 29 October 2015

Practical Considerations for Omics Experiments in Biomedical Sciences.

scientific article published on 16 August 2015

Pride-asap: automatic fragment ion annotation of identified PRIDE spectra

scientific article

Protease-dependent fractional mass and peptide properties.

scientific article published in January 2008

Proteomics Data Collection - 5th ProDaC Workshop: 4 March 2009, Kolympari, Crete, Greece.

scientific article published in July 2009

Proteomics Data Visualisation

scientific article published on 01 April 2015

Proteomics Standards Initiative Extended FASTA Format

scientific article published on 23 May 2019

Proteomics data collection--4th ProDaC workshop 15 August 2008, Amsterdam, The Netherlands

scientific article

Quantitative proteomics suggests decrease in the secretogranin-1 cerebrospinal fluid levels during the disease course of multiple sclerosis

scientific article published on 08 September 2015

SearchGUI: A Highly Adaptable Common Interface for Proteomics Search and de Novo Engines

scientific article published on 25 May 2018

SearchGUI: An open-source graphical user interface for simultaneous OMSSA and X!Tandem searches.

scientific article published on 31 January 2011

Shedding light on black boxes in protein identification

scientific article

Submitting proteomics data to PRIDE using PRIDE Converter

scientific article

Systemic Analysis of Regulated Functional Networks.

scientific article published on January 2016

Tandem Mass Spectrum Sequencing: An Alternative to Database Search Engines in Shotgun Proteomics

scientific article published on January 2016

The Ontology Lookup Service: bigger and better

scientific article (publication date: July 2010)

The PRoteomics IDEntification (PRIDE) Converter 2 framework: an improved suite of tools to facilitate data submission to the PRIDE database and the ProteomeXchange consortium

scientific article (publication date: December 2012)

The Proteomics Identifications database: 2010 update

scientific article (publication date: 2010)

The mzIdentML data standard version 1.2, supporting advances in proteome informatics.

scientific article

Thermo-msf-parser: an open source Java library to parse and visualize Thermo Proteome Discoverer msf files

scientific article

ThermoRawFileParser: Modular, Scalable, and Cross-Platform RAW File Conversion

scientific article published on 06 December 2019

Use of Stable Isotope Dimethyl Labeling Coupled to Selected Reaction Monitoring to Enhance Throughput by Multiplexing Relative Quantitation of Targeted Proteins

scientific article published on 15 May 2012

Using Proteomics Bioinformatics Tools and Resources in Proteogenomic Studies.

scientific article

Viewing the proteome: how to visualize proteomics data?

scientific article

Visualization, Inspection and Interpretation of Shotgun Proteomics Identification Results

scientific article published on January 2016

XTandem Parser: an open-source library to parse and analyse X!Tandem MS/MS search results

scientific article

compomics-utilities: an open-source Java library for computational proteomics

scientific article

ms_lims, a simple yet powerful open source laboratory information management system for MS-driven proteomics.

scientific article

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