Lennart Martens

Lennart Martens

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Lennart Martens

Publications by authors named "Lennart Martens"

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

J Proteome Res 2019 Dec 6. Epub 2019 Dec 6.

European Molecular Biology Laboratory , European Bioinformatics Institute (EMBL-EBI) , Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD , United Kingdom.

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http://dx.doi.org/10.1021/acs.jproteome.9b00328DOI Listing
December 2019

Bcl-2 and IP compete for the ligand-binding domain of IPRs modulating Ca signaling output.

Cell Mol Life Sci 2019 Oct 16;76(19):3843-3859. Epub 2019 Apr 16.

Laboratory of Molecular and Cellular Signaling, Department of Cellular and Molecular Medicine, Leuven Cancer Institute (LKI), KU Leuven, Campus Gasthuisberg O/N-1 Bus 802, Herestraat 49, 3000, Leuven, Belgium.

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http://dx.doi.org/10.1007/s00018-019-03091-8DOI Listing
October 2019

Updated MS²PIP web server delivers fast and accurate MS² peak intensity prediction for multiple fragmentation methods, instruments and labeling techniques.

Nucleic Acids Res 2019 Jul;47(W1):W295-W299

VIB-UGent Center for Medical Biotechnology, VIB, A. Baertsoenkaai 3, B9000 Ghent, Belgium.

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http://dx.doi.org/10.1093/nar/gkz299DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6602496PMC
July 2019

Challenges and promise at the interface of metaproteomics and genomics: an overview of recent progress in metaproteogenomic data analysis.

Expert Rev Proteomics 2019 May 30;16(5):375-390. Epub 2019 Apr 30.

b VIB - UGent Center for Medical Biotechnology, VIB , Ghent , Belgium.

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http://dx.doi.org/10.1080/14789450.2019.1609944DOI Listing
May 2019

Comprehensive and Empirical Evaluation of Machine Learning Algorithms for Small Molecule LC Retention Time Prediction.

Anal Chem 2019 Mar 14;91(5):3694-3703. Epub 2019 Feb 14.

VIB-UGent Center for Medical Biotechnology, VIB , Ghent , Belgium.

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http://dx.doi.org/10.1021/acs.analchem.8b05820DOI Listing
March 2019

Unipept 4.0: Functional Analysis of Metaproteome Data.

J Proteome Res 2019 02 4;18(2):606-615. Epub 2018 Dec 4.

Department of Applied Mathematics, Computer Science and Statistics , Ghent University , Ghent B-9000 , Belgium.

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http://pubs.acs.org/doi/10.1021/acs.jproteome.8b00716
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http://dx.doi.org/10.1021/acs.jproteome.8b00716DOI Listing
February 2019

Update on the moFF Algorithm for Label-Free Quantitative Proteomics.

J Proteome Res 2019 02 14;18(2):728-731. Epub 2018 Dec 14.

VIB-UGent Center for Medical Biotechnology , VIB , 9000 Ghent , Belgium.

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http://pubs.acs.org/doi/10.1021/acs.jproteome.8b00708
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http://dx.doi.org/10.1021/acs.jproteome.8b00708DOI Listing
February 2019

Scop3D: Online Visualization of Mutation Rates on Protein Structure.

J Proteome Res 2019 02 17;18(2):765-769. Epub 2018 Dec 17.

VIB-UGent Center for Medical Biotechnology , VIB , Ghent 9000 , Belgium.

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http://dx.doi.org/10.1021/acs.jproteome.8b00681DOI Listing
February 2019

Analysis of Invasion Dynamics of Matrix-Embedded Cells in a Multisample Format.

Methods Mol Biol 2018 ;1749:79-117

Department of Biochemistry, Faculty of Medicine and Health Care, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1007/978-1-4939-7701-7_9DOI Listing
January 2019

Cross-linked peptide identification: A computational forest of algorithms.

Mass Spectrom Rev 2018 11 12;37(6):738-749. Epub 2018 Mar 12.

VIB-UGent Center for Medical Biotechnology, VIB, Ghent, Belgium.

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http://dx.doi.org/10.1002/mas.21559DOI Listing
November 2018

Data-Driven Rescoring of Metabolite Annotations Significantly Improves Sensitivity.

Anal Chem 2018 10 21;90(19):11636-11642. Epub 2018 Sep 21.

VIB-UGent Center for Medical Biotechnology , Ghent , 9000 , Belgium.

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http://pubs.acs.org/doi/10.1021/acs.analchem.8b03224
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http://dx.doi.org/10.1021/acs.analchem.8b03224DOI Listing
October 2018

Quality control in mass spectrometry-based proteomics.

Mass Spectrom Rev 2018 09 7;37(5):697-711. Epub 2017 Sep 7.

Department of Mathematics and Computer Science, University of Antwerp, Antwerp, Belgium.

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http://dx.doi.org/10.1002/mas.21544DOI Listing
September 2018

Methods to Calculate Spectrum Similarity.

Methods Mol Biol 2017 ;1549:75-100

Medical Biotechnology Center, VIB, Albert Baertsoenkaai 3, Ghent, 9000, Belgium.

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http://dx.doi.org/10.1007/978-1-4939-6740-7_7DOI Listing
February 2018

High-throughput metaproteomics data analysis with Unipept: A tutorial.

J Proteomics 2018 01 24;171:11-22. Epub 2017 May 24.

Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1016/j.jprot.2017.05.022DOI Listing
January 2018

The online Tabloid Proteome: an annotated database of protein associations.

Nucleic Acids Res 2018 01;46(D1):D581-D585

VIB-UGent Center for Medical Biotechnology, VIB, Ghent 9000, Belgium.

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http://dx.doi.org/10.1093/nar/gkx930DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753264PMC
January 2018

MPA Portable: A Stand-Alone Software Package for Analyzing Metaproteome Samples on the Go.

Anal Chem 2018 01 19;90(1):685-689. Epub 2017 Dec 19.

Bioinformatics Unit (MF 1), Department for Methods Development and Research Infrastructure, Robert Koch Institute , 13353 Berlin, Germany.

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http://dx.doi.org/10.1021/acs.analchem.7b03544DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5757220PMC
January 2018

Protein complex analysis: From raw protein lists to protein interaction networks.

Mass Spectrom Rev 2017 09 28;36(5):600-614. Epub 2015 Dec 28.

Advanced Database Research and Modelling (ADReM), Department of Mathematics and Computer Science, University of Antwerp, Antwerp, Belgium.

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http://dx.doi.org/10.1002/mas.21485DOI Listing
September 2017

Database Search Engines: Paradigms, Challenges and Solutions.

Adv Exp Med Biol 2016 ;919:147-156

Proteomics Unit, Department of Biomedicine, University of Bergen, Jonas Liesvei 91, N-5009, Bergen, Norway.

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http://dx.doi.org/10.1007/978-3-319-41448-5_6DOI Listing
September 2017

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

Mass Spectrom Rev 2017 Sep 13. Epub 2017 Sep 13.

KG Jebsen Center for Diabetes Research, Department of Clinical Science, University of Bergen, Norway.

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http://dx.doi.org/10.1002/mas.21543DOI Listing
September 2017

Unbiased Protein Association Study on the Public Human Proteome Reveals Biological Connections between Co-Occurring Protein Pairs.

J Proteome Res 2017 06 11;16(6):2204-2212. Epub 2017 May 11.

VIB-UGent Center for Medical Biotechnology, VIB , A. Baertsoenkaai 3, B-9000 Ghent, Belgium.

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http://dx.doi.org/10.1021/acs.jproteome.6b01066DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5491052PMC
June 2017

Mass spectrometrists should search for all peptides, but assess only the ones they care about.

Nat Methods 2017 06;14(7):643-644

Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Ghent, Belgium.

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http://www.nature.com/doifinder/10.1038/nmeth.4338
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http://dx.doi.org/10.1038/nmeth.4338DOI Listing
June 2017

A Golden Age for Working with Public Proteomics Data.

Trends Biochem Sci 2017 05 22;42(5):333-341. Epub 2017 Jan 22.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK. Electronic address:

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http://dx.doi.org/10.1016/j.tibs.2017.01.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5414595PMC
May 2017

Computational quality control tools for mass spectrometry proteomics.

Proteomics 2017 02 17;17(3-4). Epub 2016 Oct 17.

Department of Mathematics and Computer Science, University of Antwerp, Antwerp, Belgium.

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http://dx.doi.org/10.1002/pmic.201600159DOI Listing
February 2017

The Lyssavirus glycoprotein: A key to cross-immunity.

Virology 2016 11 9;498:250-256. Epub 2016 Sep 9.

Unit for Computational Omics and Systems Biology, Medical Biotechnology Center, VIB, Ghent, Belgium; Department of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, Ghent, Belgium; Bioinformatics Institute Gent, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1016/j.virol.2016.08.034DOI Listing
November 2016

moFF: a robust and automated approach to extract peptide ion intensities.

Nat Methods 2016 11;13(12):964-966

Department of Medical Protein Research, Ghent, Belgium.

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http://dx.doi.org/10.1038/nmeth.4075DOI Listing
November 2016

Resolution of protein structure by mass spectrometry.

Mass Spectrom Rev 2016 10 23;35(6):653-665. Epub 2014 Dec 23.

Department of Medical Protein Research, VIB, B-9000, Ghent, Belgium.

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http://dx.doi.org/10.1002/mas.21450DOI Listing
October 2016

The challenge of metaproteomic analysis in human samples.

Expert Rev Proteomics 2016 25;13(2):135-8. Epub 2016 Jan 25.

b VIB Medical Biotechnology Center , Ghent University , GENT , Belgium.

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http://dx.doi.org/10.1586/14789450.2016.1135058DOI Listing
October 2016

Xilmass: A New Approach toward the Identification of Cross-Linked Peptides.

Anal Chem 2016 10 28;88(20):9949-9957. Epub 2016 Sep 28.

Medical Biotechnology Center, VIB , 9000 Ghent, Belgium.

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http://dx.doi.org/10.1021/acs.analchem.6b01585DOI Listing
October 2016

Metaproteomic data analysis at a glance: advances in computational microbial community proteomics.

Expert Rev Proteomics 2016 08 20;13(8):757-69. Epub 2016 Jul 20.

b Medical Biotechnology Center , VIB , Ghent , Belgium.

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http://dx.doi.org/10.1080/14789450.2016.1209418DOI Listing
August 2016

Public proteomics data: How the field has evolved from sceptical inquiry to the promise of proteomics.

Authors:
Lennart Martens

EuPA Open Proteom 2016 Jun 28;11:42-44. Epub 2016 Mar 28.

Department of Medical Protein Research, VIB 9000 Ghent, Belgium.

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http://dx.doi.org/10.1016/j.euprot.2016.02.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5988554PMC
June 2016

Identification of Quantitative Proteomic Differences between Mycobacterium tuberculosis Lineages with Altered Virulence.

Front Microbiol 2016 31;7:813. Epub 2016 May 31.

Department of Integrative Biomedical Sciences, Institute of Infectious Diseases and Molecular Medicine, University of Cape Town Cape Town, South Africa.

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http://dx.doi.org/10.3389/fmicb.2016.00813DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4885829PMC
June 2016

Unsupervised Quality Assessment of Mass Spectrometry Proteomics Experiments by Multivariate Quality Control Metrics.

J Proteome Res 2016 Apr 18;15(4):1300-7. Epub 2016 Mar 18.

Department of Mathematics and Computer Science, University of Antwerp , 2020 Antwerp, Belgium.

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http://dx.doi.org/10.1021/acs.jproteome.6b00028DOI Listing
April 2016

Pladipus Enables Universal Distributed Computing in Proteomics Bioinformatics.

J Proteome Res 2016 Mar 6;15(3):707-12. Epub 2015 Nov 6.

Proteomics Unit, Department of Biomedicine, University of Bergen , Postboks 7804, N-5020 Bergen, Norway.

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http://dx.doi.org/10.1021/acs.jproteome.5b00850DOI Listing
March 2016

Taking Aim at Moving Targets in Computational Cell Migration.

Trends Cell Biol 2016 Feb 10;26(2):88-110. Epub 2015 Nov 10.

Medical Biotechnology Center, VIB, Ghent, Belgium; Department of Biochemistry, Ghent University, Ghent, Belgium. Electronic address:

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http://dx.doi.org/10.1016/j.tcb.2015.09.003DOI Listing
February 2016

Exploring the potential of public proteomics data.

Proteomics 2016 Jan 15;16(2):214-25. Epub 2015 Dec 15.

Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway.

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http://dx.doi.org/10.1002/pmic.201500295DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4738454PMC
January 2016

sORFs.org: a repository of small ORFs identified by ribosome profiling.

Nucleic Acids Res 2016 Jan 2;44(D1):D324-9. Epub 2015 Nov 2.

Lab of Bioinformatics and Computational Genomics (BioBix), Department of Mathematical Modelling, Statistics and Bioinformatics, Faculty of Bioscience Engineering, Ghent University, 9000 Ghent, Belgium

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http://dx.doi.org/10.1093/nar/gkv1175DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702841PMC
January 2016

SFINX: Straightforward Filtering Index for Affinity Purification-Mass Spectrometry Data Analysis.

J Proteome Res 2016 Jan 17;15(1):332-8. Epub 2015 Dec 17.

VIB Medical Biotechnology Center , A. Baertsoenkaai 3, B-9000 Ghent, Belgium.

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http://dx.doi.org/10.1021/acs.jproteome.5b00666DOI Listing
January 2016

Open-Source, Platform-Independent Library and Online Scripting Environment for Accessing Thermo Scientific RAW Files.

J Proteome Res 2015 Nov 29;14(11):4940-3. Epub 2015 Oct 29.

Medical Biotechnology Center, VIB , Albert Baertsoenkaai 3, 9000 Ghent, Belgium.

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http://dx.doi.org/10.1021/acs.jproteome.5b00778DOI Listing
November 2015

Navigating through metaproteomics data: a logbook of database searching.

Proteomics 2015 Oct 27;15(20):3439-53. Epub 2015 Apr 27.

Department of Biochemistry, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1002/pmic.201400560DOI Listing
October 2015

Ariadne's Thread: A Robust Software Solution Leading to Automated Absolute and Relative Quantification of SRM Data.

J Proteome Res 2015 Sep 13;14(9):3779-92. Epub 2015 Aug 13.

Department of Medical Protein Research, VIB , Albert Baertsoenkaai 3, Ghent 9000, Belgium.

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http://dx.doi.org/10.1021/pr500996sDOI Listing
September 2015

Phospho-iTRAQ data article: Assessing isobaric labels for the large-scale study of phosphopeptide stoichiometry.

Data Brief 2015 Sep 6;4:60-5. Epub 2015 May 6.

Laboratory of Pharmaceutical Biotechnology, Ghent University, B-9000 Ghent, Belgium.

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http://dx.doi.org/10.1016/j.dib.2015.04.012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4510381PMC
September 2015

The iceLogo web server and SOAP service for determining protein consensus sequences.

Nucleic Acids Res 2015 Jul 20;43(W1):W543-6. Epub 2015 Apr 20.

Department of Medical Protein Research, VIB, A. Baertsoenkaai 3, B-9000 Ghent, Belgium Department of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, A. Baertsoenkaai 3, B-9000 Ghent, Belgium

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http://dx.doi.org/10.1093/nar/gkv385DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4489316PMC
July 2015

MS2PIP prediction server: compute and visualize MS2 peak intensity predictions for CID and HCD fragmentation.

Nucleic Acids Res 2015 Jul 18;43(W1):W326-30. Epub 2015 May 18.

Department of Medical Protein Research, VIB, A. Baertsoenkaai 3, B-9000 Ghent, Belgium Department of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, A. Baertsoenkaai 3, B-9000 Ghent, Belgium.

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gkv542DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4489309PMC
July 2015

Summarization vs Peptide-Based Models in Label-Free Quantitative Proteomics: Performance, Pitfalls, and Data Analysis Guidelines.

J Proteome Res 2015 Jun 7;14(6):2457-65. Epub 2015 May 7.

∥Department of Plant Systems Biology, VIB, Ghent University, 9052 Ghent, Belgium.

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http://dx.doi.org/10.1021/pr501223tDOI Listing
June 2015

Managing expectations when publishing tools and methods for computational proteomics.

J Proteome Res 2015 May 22;14(5):2002-4. Epub 2015 Apr 22.

∥Department of Biochemistry, The University of Texas Health Science Center at San Antonio, 7703 Floyd Curl Drive, San Antonio 78229, Texas, United States.

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http://dx.doi.org/10.1021/pr501318dDOI Listing
May 2015

iMonDB: Mass Spectrometry Quality Control through Instrument Monitoring.

J Proteome Res 2015 May 2;14(5):2360-6. Epub 2015 Apr 2.

§Flemish Institute for Technological Research (VITO), Boeretang 200, BE-2400 Mol, Belgium.

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http://dx.doi.org/10.1021/acs.jproteome.5b00127DOI Listing
May 2015

JSparklines: making tabular proteomics data come alive.

Proteomics 2015 Apr 19;15(8):1428-31. Epub 2015 Jan 19.

Proteomics Unit, Department of Biomedicine, University of Bergen, Norway.

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http://dx.doi.org/10.1002/pmic.201400356DOI Listing
April 2015

Viewing the proteome: how to visualize proteomics data?

Proteomics 2015 Apr 21;15(8):1341-55. Epub 2015 Jan 21.

Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway; KG Jebsen Centre for Multiple Sclerosis Research, Department of Clinical Medicine, University of Bergen, Bergen, Norway; Department of Clinical Medicine, University of Bergen, Bergen, Norway.

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http://dx.doi.org/10.1002/pmic.201400412DOI Listing
April 2015

Scop3D: three-dimensional visualization of sequence conservation.

Proteomics 2015 Apr 3;15(8):1448-52. Epub 2015 Mar 3.

Department of Medical Protein Research, VIB, Ghent, Belgium; Department of Biochemistry, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1002/pmic.201400354DOI Listing
April 2015

A decoy-free approach to the identification of peptides.

J Proteome Res 2015 Apr 6;14(4):1792-8. Epub 2015 Mar 6.

†Department of Medical Protein Research, VIB, Albert Baertsoenkaai 3, B-9000 Ghent, Belgium.

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http://dx.doi.org/10.1021/pr501164rDOI Listing
April 2015

PepShell: visualization of conformational proteomics data.

J Proteome Res 2015 Apr 12;14(4):1987-90. Epub 2015 Mar 12.

†Department of Medical Protein Research, VIB, Albert Baertsoenkaai 3, B-9000 Ghent, Belgium.

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http://dx.doi.org/10.1021/pr5012125DOI Listing
April 2015

The MetaProteomeAnalyzer: a powerful open-source software suite for metaproteomics data analysis and interpretation.

J Proteome Res 2015 Mar 23;14(3):1557-65. Epub 2015 Feb 23.

Max Planck Institute for Dynamics of Complex Technical Systems, 39106 Magdeburg, Germany.

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http://dx.doi.org/10.1021/pr501246wDOI Listing
March 2015

Phospho-iTRAQ: assessing isobaric labels for the large-scale study of phosphopeptide stoichiometry.

J Proteome Res 2015 Feb 2;14(2):839-49. Epub 2015 Jan 2.

Laboratory of Pharmaceutical Biotechnology and ‡Department of Biochemistry, Ghent University , B-9000 Ghent, Belgium.

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http://dx.doi.org/10.1021/pr500889vDOI Listing
February 2015

Structural investigation of B-Raf paradox breaker and inducer inhibitors.

J Med Chem 2015 Feb 10;58(4):1818-31. Epub 2015 Feb 10.

Institut de Chimie Organique et Analytique, UMR CNRS-Université d'Orléans 7311 , Université d'Orléans BP 6759, Orléans 45067 Cedex 2, France.

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http://pubs.acs.org/doi/10.1021/jm501667n
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http://dx.doi.org/10.1021/jm501667nDOI Listing
February 2015

An update on LNCipedia: a database for annotated human lncRNA sequences.

Nucleic Acids Res 2015 Jan 5;43(Database issue):D174-80. Epub 2014 Nov 5.

Center for Medical Genetics, Ghent University, Ghent 9000, Belgium

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http://dx.doi.org/10.1093/nar/gku1060DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383901PMC
January 2015

An improved toolbox to unravel the plant cellular machinery by tandem affinity purification of Arabidopsis protein complexes.

Nat Protoc 2015 Jan 18;10(1):169-87. Epub 2014 Dec 18.

1] Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie (VIB), Ghent, Belgium. [2] Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1038/nprot.2014.199DOI Listing
January 2015

PeptideShaker enables reanalysis of MS-derived proteomics data sets.

Nat Biotechnol 2015 Jan;33(1):22-4

1] Proteomics Unit, Department of Biomedicine, University of Bergen, Bergen, Norway. [2] Computational Biology Unit, University of Bergen, Norway.

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http://dx.doi.org/10.1038/nbt.3109DOI Listing
January 2015

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

Methods Mol Biol 2014 ;1156:239-48

Proteomics Unit, Department of Biomedicine, University of Bergen, Jonas Liesvei 91, Bergen, 5009, Norway,

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http://dx.doi.org/10.1007/978-1-4939-0685-7_16DOI Listing
December 2014

Unraveling the specificities of the different human methionine sulfoxide reductases.

Proteomics 2014 Sep 28;14(17-18):1990-8. Epub 2014 May 28.

Department of Medical Protein Research, VIB, Ghent, Belgium; Department of Biochemistry, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1002/pmic.201300357DOI Listing
September 2014

About dice, bouldering, and team empowerment: running the CompOmics group at VIB and Ghent University, Belgium.

Authors:
Lennart Martens

PLoS Comput Biol 2013 7;9(11):e1003332. Epub 2013 Nov 7.

Department of Medical Protein Research, VIB, Ghent, Belgium ; Department of Biochemistry, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1371/journal.pcbi.1003332DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3820497PMC
July 2014

jqcML: an open-source java API for mass spectrometry quality control data in the qcML format.

J Proteome Res 2014 Jul 17;13(7):3484-7. Epub 2014 Jun 17.

Department of Mathematics and Computer Science, University of Antwerp , Middelheimlaan 1, B-2020 Antwerp, Belgium.

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http://dx.doi.org/10.1021/pr401274zDOI Listing
July 2014

Shedding light on black boxes in protein identification.

Proteomics 2014 May 20;14(9):1001-5. Epub 2014 Mar 20.

Proteomics Unit, Department of Biomedicine, University of Bergen, Norway; Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V, Dortmund, Germany.

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http://dx.doi.org/10.1002/pmic.201300488DOI Listing
May 2014

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

Proteomics 2014 Mar 27;14(4-5):367-77. Epub 2013 Nov 27.

Department of Medical Protein Research, VIB, Ghent, Belgium; Department of Biochemistry, Faculty of Medicine and Health Sciences, Ghent University, Ghent, Belgium.

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http://dx.doi.org/10.1002/pmic.201300288DOI Listing
March 2014

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

Proteomics 2014 Mar 21;14(4-5):353-66. Epub 2014 Jan 21.

Department of Medical Protein Research, VIB, Ghent, Belgium; Faculty of Medicine and Health Sciences, Department of Biochemistry, Ghent University, Ghent, Belgium; Flemish Institute for Technological Research (VITO), Boeretang, Mol, Belgium.

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http://doi.wiley.com/10.1002/pmic.201300289
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http://dx.doi.org/10.1002/pmic.201300289DOI Listing
March 2014

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

J Proteome Res 2014 Feb 7;13(2):1143-6. Epub 2014 Jan 7.

Max Planck Institute for Dynamics of Complex Technical Systems , Sandtorstraße 1, 39106 Magdeburg, Germany.

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http://dx.doi.org/10.1021/pr4008078DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3923451PMC
February 2014

Asn3, a reliable, robust, and universal lock mass for improved accuracy in LC-MS and LC-MS/MS.

Anal Chem 2013 Nov 4;85(22):11054-60. Epub 2013 Nov 4.

Department of Medical Protein Research, VIB , B-9000 Ghent, Belgium.

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http://dx.doi.org/10.1021/ac4027093DOI Listing
November 2013