Most read from the Journal of Proteome Research for 2013.

1- Protein Digestion: An Overview of the Available Techniques and Recent
    Developments

    Linda Switzar, Martin Giera, Wilfried M. A. Niessen

    DOI: 10.1021/pr301201x

2-  Andromeda: A Peptide Search Engine Integrated into the MaxQuant
     Environment

     Jürgen Cox, Nadin Neuhauser, Annette Michalski, Richard A. Scheltema, Jesper
     V. Olsen, Matthias Mann

     DOI: 10.1021/pr101065j

2- Evaluation and Optimization of Mass Spectrometric Settings during
     Data-dependent Acquisition Mode: Focus on LTQ-Orbitrap Mass Analyzers
 
     Anastasia Kalli, Geoffrey T. Smith, Michael J. Sweredoski, Sonja Hess

     DOI: 10.1021/pr3011588

3-  An Automated Pipeline for High-Throughput Label-Free Quantitative
     Proteomics

     Hendrik Weisser, Sven Nahnsen, Jonas Grossmann, Lars Nilse, Andreas Quandt,
     Hendrik Brauer, Marc Sturm, Erhan Kenar, Oliver Kohlbacher, Ruedi Aebersold,
     Lars Malmström

     DOI: 10.1021/pr300992u

4-  Proteome Wide Purification and Identification of O-GlcNAc-Modified Proteins
     Using Click Chemistry and Mass Spectrometry

     Hannes Hahne, Nadine Sobotzki, Tamara Nyberg, Dominic Helm, Vladimir S.
     Borodkin, Daan M. F. van Aalten, Brian Agnew, Bernhard Kuster

     DOI: 10.1021/pr300967y

5-  A Proteomics Search Algorithm Specifically Designed for High-Resolution
     Tandem Mass Spectra

     Craig D. Wenger, Joshua J. Coon
   
     DOI: 10.1021/pr301024c

6- Analyzing Protein–Protein Interaction Networks

    Gavin C. K. W. Koh, Pablo Porras, Bruno Aranda, Henning Hermjakob, Sandra E.
    Orchard

    DOI: 10.1021/pr201211w

7-  Combination of FASP and StageTip-Based Fractionation Allows In-Depth
     Analysis of the Hippocampal Membrane Proteome

     Jacek R. Wisniewski, Alexandre Zougman, Matthias Mann

     DOI: 10.1021/pr900748n

8-  The Biology/Disease-driven Human Proteome Project (B/D-HPP): Enabling
     Protein Research for the Life Sciences Community

     Ruedi Aebersold, Gary D. Bader, Aled M. Edwards, Jennifer E. van Eyk, Martin
     Kussmann, Jun Qin, Gilbert S. Omenn

     DOI: 10.1021/pr301151m

 9-  Comparative Study of Targeted and Label-free Mass Spectrometry Methods
      for Protein Quantification

       Linda IJsselstijn, Marcel P. Stoop, Christoph Stingl, Peter A. E. Sillevis Smitt,
       Theo M. Luider, Lennard J. M. Dekker

       DOI: 10.1021/pr301221f