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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.

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  1. 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

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  2. Content type: Software

    Peptide identification based upon mass spectrometry (MS) is generally achieved by comparison of the experimental mass spectra with the theoretically digested peptides derived from a reference protein database....

    Authors: Bo Wen, Shaohang Xu, Ruo Zhou, Bing Zhang, Xiaojing Wang, Xin Liu, Xun Xu and Siqi Liu

    Citation: BMC Bioinformatics 2016 17:244

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  3. Content type: Research Article

    Aptamer-protein interacting pairs play a variety of physiological functions and therapeutic potentials in organisms. Rapidly and effectively predicting aptamer-protein interacting pairs is significant to desig...

    Authors: Lina Zhang, Chengjin Zhang, Rui Gao, Runtao Yang and Qing Song

    Citation: BMC Bioinformatics 2016 17:225

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  4. Content type: Research article

    Proteins are the important molecules which participate in virtually every aspect of cellular function within an organism in pairs. Although high-throughput technologies have generated considerable protein-prot...

    Authors: Yu-An Huang, Zhu-Hong You, Xing Chen, Keith Chan and Xin Luo

    Citation: BMC Bioinformatics 2016 17:184

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  5. Content type: Research Article

    Understanding the interactions between antibodies and the linear epitopes that they recognize is an important task in the study of immunological diseases. We present a novel computational method for the design...

    Authors: Rob Patro, Raquel Norel, Robert J. Prill, Julio Saez-Rodriguez, Peter Lorenz, Felix Steinbeck, Bjoern Ziems, Mitja Luštrek, Nicola Barbarini, Alessandra Tiengo, Riccardo Bellazzi, Hans-Jürgen Thiesen, Gustavo Stolovitzky and Carl Kingsford

    Citation: BMC Bioinformatics 2016 17:155

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  6. Content type: Software

    Metabolomics experiments often comprise large numbers of biological samples resulting in huge amounts of data. This data needs to be inspected for plausibility before data evaluation to detect putative sources...

    Authors: Alexandra Maria Simader, Bernhard Kluger, Nora Katharina Nicole Neumann, Christoph Bueschl, Marc Lemmens, Gerald Lirk, Rudolf Krska and Rainer Schuhmacher

    Citation: BMC Bioinformatics 2015 16:341

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  7. Content type: Software

    Mass spectrometry is one of the most important techniques in the field of proteomics. MALDI-TOF mass spectrometry has become popular during the last decade due to its high speed and sensitivity for detecting p...

    Authors: H. López-Fernández, H. M. Santos, J. L. Capelo, F. Fdez-Riverola, D. Glez-Peña and M. Reboiro-Jato

    Citation: BMC Bioinformatics 2015 16:318

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  8. Content type: Database

    Spirulina (Arthrospira) platensis is the only cyanobacterium that in addition to being studied at the molecular level and subjected to gene manipulation, can also be mass cultivated in outdoor ponds for commerci...

    Authors: Jittisak Senachak, Supapon Cheevadhanarak and Apiradee Hongsthong

    Citation: BMC Bioinformatics 2015 16:233

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  9. Content type: Software

    Mass spectrometry analyses of complex protein samples yield large amounts of data and specific expertise is needed for data analysis, in addition to a dedicated computer infrastructure. Furthermore, the identi...

    Authors: Erik K Malm, Vaibhav Srivastava, Gustav Sundqvist and Vincent Bulone

    Citation: BMC Bioinformatics 2014 15:441

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  10. Content type: Methodology article

    Identification of individual components in complex mixtures is an important and sometimes daunting task in several research areas like metabolomics and natural product studies. NMR spectroscopy is an excellent...

    Authors: Tommy Öman, May-Britt Tessem, Tone F Bathen, Helena Bertilsson, Anders Angelsen, Mattias Hedenström and Trygve Andreassen

    Citation: BMC Bioinformatics 2014 15:413

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  11. Content type: Software

    Metabolomics is one of most recent omics technologies. It has been applied on fields such as food science, nutrition, drug discovery and systems biology. For this, gas chromatography-mass spectrometry (GC-MS) ...

    Authors: Raphael BM Aggio, Arno Mayor, Sophie Reade, Chris SJ Probert and Katya Ruggiero

    Citation: BMC Bioinformatics 2014 15:374

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  12. Content type: Research Article

    The identification of new diagnostic or prognostic biomarkers is one of the main aims of clinical cancer research. Technologies like mass spectrometry are commonly being used in proteomic research. Mass spectr...

    Authors: Caroline Truntzer, Elise Mostacci, Aline Jeannin, Jean-Michel Petit, Patrick Ducoroy and Hervé Cardot

    Citation: BMC Bioinformatics 2014 15:385

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  13. Content type: Methodology article

    One of the major challenges in the field of vaccine design is identifying B-cell epitopes in continuously evolving viruses. Various tools have been developed to predict linear or conformational epitopes, each ...

    Authors: Yuh-Jyh Hu, Shun-Chien Lin, Yu-Lung Lin, Kuan-Hui Lin and Shun-Ning You

    Citation: BMC Bioinformatics 2014 15:378

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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