Skip to content



Section edited by John Garavelli

This section incorporates all aspects of proteomic analysis including but not limited to: methods and applications for the analysis of post-translational modifications, proteomic, mass spectroscopic, and chemoinformatic data.

Page 1 of 7
  1. Content type: Research Article

    The oxidation of protein-bound methionine to form methionine sulfoxide, has traditionally been regarded as an oxidative damage. However, recent evidences support the view of this reversible reaction as a regul...

    Authors: Juan C. Aledo, Francisco R. Cantón and Francisco J. Veredas

    Citation: BMC Bioinformatics 2017 18:430

    Published on:

  2. Content type: Software

    Lipids are ubiquitous and serve numerous biological functions; thus lipids have been shown to have great potential as candidates for elucidating biomarkers and pathway perturbations associated with disease. Me...

    Authors: Jeremy P. Koelmel, Nicholas M. Kroeger, Candice Z. Ulmer, John A. Bowden, Rainey E. Patterson, Jason A. Cochran, Christopher W. W. Beecher, Timothy J. Garrett and Richard A. Yost

    Citation: BMC Bioinformatics 2017 18:331

    Published on:

  3. Content type: Methodology Article

    Identifying disease correlated features early before large number of molecules are impacted by disease progression with significant abundance change is very advantageous to biologists for developing early dise...

    Authors: Sirajul Salekin, Mehrab Ghanat Bari, Itay Raphael, Thomas G. Forsthuber and Jianqiu (Michelle) Zhang

    Citation: BMC Bioinformatics 2017 18:313

    Published on:

  4. Content type: Methodology article

    Characterization of mature protein N-termini by large scale proteomics is challenging. This is especially true for proteins undergoing cleavage of transit peptides when they are targeted to specific organelles...

    Authors: Willy Vincent Bienvenut, Jean-Pierre Scarpelli, Johan Dumestier, Thierry Meinnel and Carmela Giglione

    Citation: BMC Bioinformatics 2017 18:182

    Published on:

  5. Content type: Research article

    Many plant pathogen secretory proteins are known to be elicitors or pathogenic factors,which play an important role in the host-pathogen interaction process. Bioinformatics approaches make possible the large s...

    Authors: Lan Jing, Dandan Guo, Wenjie Hu and Xiaofan Niu

    Citation: BMC Bioinformatics 2017 18:166

    Published on:

  6. Content type: Research Article

    High-throughput proteomics techniques, such as mass spectrometry (MS)-based approaches, produce very high-dimensional data-sets. In a clinical setting one is often interested in how mass spectra differ between...

    Authors: Tim O. F. Conrad, Martin Genzel, Nada Cvetkovic, Niklas Wulkow, Alexander Leichtle, Jan Vybiral, Gitta Kutyniok and Christof Schütte

    Citation: BMC Bioinformatics 2017 18:160

    Published on:

  7. Content type: Software

    High-accuracy mass spectrometry enables near comprehensive quantification of the components of the cellular proteomes, increasingly including their chemically modified variants. Likewise, large-scale libraries...

    Authors: Paolo Cifani, Mojdeh Shakiba, Sagar Chhangawala and Alex Kentsis

    Citation: BMC Bioinformatics 2017 18:153

    Published on:

  8. Content type: Research Article

    The classification of samples on a molecular level has manifold applications, from patient classification regarding cancer treatment to phylogenetics for identifying evolutionary relationships between species....

    Authors: Vera Rieder, Bernhard Blank-Landeshammer, Marleen Stuhr, Tilman Schell, Karsten Biß, Laxmikanth Kollipara, Achim Meyer, Markus Pfenninger, Hildegard Westphal, Albert Sickmann and Jörg Rahnenführer

    Citation: BMC Bioinformatics 2017 18:148

    Published on:

  9. Content type: Methodology article

    High throughput metabolomics makes it possible to measure the relative abundances of numerous metabolites in biological samples, which is useful to many areas of biomedical research. However, missing values (M...

    Authors: Jasmit S. Shah, Shesh N. Rai, Andrew P. DeFilippis, Bradford G. Hill, Aruni Bhatnagar and Guy N. Brock

    Citation: BMC Bioinformatics 2017 18:114

    Published on:

  10. Content type: Methodology article

    Tandem mass spectrometry (MS/MS) followed by database search is a main approach to identify peptides/proteins in proteomic studies. A lot of effort has been devoted to improve the identification accuracy and s...

    Authors: Chunwei Ma, Shaohang Xu, Geng Liu, Xin Liu, Xun Xu, Bo Wen and Siqi Liu

    Citation: BMC Bioinformatics 2017 18:109

    Published on:

  11. Content type: Methodology article

    Metabolomics offers a unique integrative perspective for health research, reflecting genetic and environmental contributions to disease-related phenotypes. Identifying robust associations in population-based o...

    Authors: Anna C. Reisetter, Michael J. Muehlbauer, James R. Bain, Michael Nodzenski, Robert D. Stevens, Olga Ilkayeva, Boyd E. Metzger, Christopher B. Newgard, William L. Lowe Jr. and Denise M. Scholtens

    Citation: BMC Bioinformatics 2017 18:84

    Published on:

  12. Content type: Software

    In recent years, successful contact prediction methods and contact-guided ab initio protein structure prediction methods have highlighted the importance of incorporating contact information into protein struct...

    Authors: Badri Adhikari, Jackson Nowotny, Debswapna Bhattacharya, Jie Hou and Jianlin Cheng

    Citation: BMC Bioinformatics 2016 17:517

    Published on:

  13. Content type: Research article

    When combined with a clinical outcome variable, the size, complexity and nature of mass-spectrometry proteomics data impose great statistical challenges in the discovery of potential disease-associated biomark...

    Authors: Eleanor Stanley, Eleni Ioanna Delatola, Esther Nkuipou-Kenfack, William Spooner, Walter Kolch, Joost P. Schanstra, Harald Mischak and Thomas Koeck

    Citation: BMC Bioinformatics 2016 17:496

    Published on:

  14. Content type: Research Article

    Proteomics of bacterial pathogens is a developing field exploring microbial physiology, gene expression and the complex interactions between bacteria and their hosts. One of the complications in proteomic appr...

    Authors: Dmitry Ischenko, Dmitry Alexeev, Egor Shitikov, Alexandra Kanygina, Maja Malakhova, Elena Kostryukova, Andrey Larin, Sergey Kovalchuk, Olga Pobeguts, Ivan Butenko, Nikolay Anikanov, Ilya Altukhov, Elena Ilina and Vadim Govorun

    Citation: BMC Bioinformatics 2016 17:450

    Published on:

  15. Content type: Methodology Article

    Genome-scale models of metabolism and macromolecular expression (ME) significantly expand the scope and predictive capabilities of constraint-based modeling. ME models present considerable computational challe...

    Authors: Laurence Yang, Ding Ma, Ali Ebrahim, Colton J. Lloyd, Michael A. Saunders and Bernhard O. Palsson

    Citation: BMC Bioinformatics 2016 17:391

    Published on:

Page 1 of 7

2016 Journal Metrics

  • Citation Impact
    2.448 - 2-year Impact Factor
    3.450 - 5-year Impact Factor
    0.946 - Source Normalized Impact per Paper (SNIP)
    1.467 - SCImago Journal Rank (SJR)

    1405 Usage Factor

    Social Media Impact
    816 mentions