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About EPJ Nonlinear Biomedical Physics

This page includes information about the aims and scope of EPJ Nonlinear Biomedical Physics, editorial policies, open access and article-processing charges, the peer review process and other information. For details of how to prepare and submit a manuscript through the online submission system, please see the instructions for authors.

Aims & scope

EPJ Nonlinear Biomedical Physics is a peer-reviewed, open access journal for the dissemination of knowledge about the applications of nonlinear dynamics and complexity-inspired integrative systems science, to the quantitative modeling and understanding of how structure, function and/or dysfunctions and diseases, often concomitantly, emerge in complex biomedical matter, systems and processes. The focus will be on the application-driven development of theoretical, experimental and computational techniques. This includes the development of relevant methodologies, instrumentation, and related advanced technology.

EPJ Nonlinear Biomedical Physics publishes in sections based on subject area. Authors may choose at submission one of the following sections:

Interdisciplinary Topics
This section is devoted to the exploration of a number of relevant topics including but not limited to psychophysics, fractals in medicine, methods of physical therapy, structure-function relationships, network topology, dynamics of anesthesia, nonlinear signal and image analysis, anatomopathology and virtual patient simulations.
Section Editor-in-Chief and Founding Editor: Wlodzimierz Klonowski, Polish Academy of Sciences

Physics of Biological Systems and Their Interactions
This section is concerned with the fundamental physical principles that govern functional units of living systems (such as organs and organ systems) at intermediate and macroscopic scales. Emphasis is on the investigation of biological transport systems and networks (such as e.g. the cardiovascular system) and their couplings to similar or other type of functional units (e.g. biological information processing systems). In contrast to the goal of efficient mathematical modelling in systems biology, the focus of this section is on the search for basic principles and operating mechanisms.
Section Editor-in-Chief: Aneta Stefanovska, University of Lancaster

Physics of Cancer and Oncology
Cancer research is a multidisciplinary effort in which physical methods and concepts have been playing an increasingly prominent role. In this section all aspects of experimental, computational and theoretical physics with applications to cancer research and oncology in general will be given a forum for the dissemination of latest results. Areas of research of particular interest include: quantitative models of tumor initiation and progression, mechanical and electrical properties of cancer cells, ionizing radiation effects on sub-cellular structures, nanotechnology applications in oncology, tumor imaging techniques, pharmacokinetics of chemotherapeutic agents, models of metabolic and genomic instabilities, evolutionary models of cancer.
Section Editor-in-Chief: Jack Tuszynski, University of Alberta

Systems Biology and Dynamical Diseases
In this section, methods and results from systems biology, their underlying physical principles and their potential medical applications are explored. Relevant topics include (but are not limited to) the analysis of system-wide data, modeling strategies in systems biology, metabolic diseases, mathematical models of biological systems or of disease dynamics, physical insights into biological systems or into disease dynamics, methods from nonlinear dynamics applied to topics in systems biology.
Section Editor-in-Chief: Marc-Thorsten Hütt, Jacobs University Bremen

Systems Neurosciences and Integrative Brain Research
The section is devoted to the development, exploration and application of integrative concepts in systems neuroscience and nonlinear brain dynamics. Its scope ranges from theoretical, experimental, informatics to methodological research.
Section Editor-in-Chief: Viktor Jirsa, University of Aix-Marseille

Open access

All articles published by EPJ Nonlinear Biomedical Physics are made freely and permanently accessible online immediately upon publication, without subscription charges or registration barriers. Further information about open access can be found here.

Authors of articles published in EPJ Nonlinear Biomedical Physics are the copyright holders of their articles and have granted to any third party, in advance and in perpetuity, the right to use, reproduce or disseminate the article, according to the SpringerOpen copyright and license agreement.

For authors who are US government employees or are prevented from being copyright holders for similar reasons, BioMed Central can accommodate non-standard copyright lines. Please contact us if further information is needed.

Article-processing charges

Open access publishing is not without costs. EPJ Nonlinear Biomedical Physics therefore levies an article-processing charge of £830/$1385/€1000 for each article accepted for publication. We routinely waive charges for authors from low-income countries. Generally, if the submitting author's institution is a Member the cost of the article-processing charge is covered by the membership, and no further charge is payable. In the case of authors whose institutions are Supporter Members, however, a discounted article-processing charge is payable by the author. For further details, see our article-processing charge page. A limited number of waivers for article-processing charges are also available at the editors' discretion, and authors wishing to apply for these waivers should contact the editors.

Indexing services

SpringerOpen is working closely with Thomson Reuters (ISI) to ensure that citation analysis of articles published in EPJ Nonlinear Biomedical Physics will be available.

Publication and peer review process

Authors will be able to check the progress of their manuscript through the submission system at any time by logging into My EPJ Nonlinear Biomedical Physics, a personalized section of the site.

Portability of peer review

In order to support efficient and thorough peer review, we aim to reduce the number of times a manuscript is re-reviewed after rejection from EPJ Nonlinear Biomedical Physics, thereby speeding up the publication process and reducing the burden on peer reviewers. Therefore, please note that, if a manuscript is not accepted for publication in EPJ Nonlinear Biomedical Physics and the authors choose to submit a revised version to another SpringerOpen journal, we will pass the reviews on to the other journal's editors at the authors' request. We will reveal the reviewers' names to the handling editor for editorial purposes unless reviewers let us know when they return their report that they do not wish us to share their report with another SpringerOpen journal.

Reprints

Please see our reprints website for information about reprinting articles.

Supplements

EPJ Nonlinear Biomedical Physics will consider supplements based on proceedings (full articles or meeting abstracts), reviews or research. All articles submitted for publication in supplements are subject to peer review. Published supplements are fully searchable and freely accessible online and can also be produced in print. For further information, please contact us.

Editorial policies

Any manuscript, or substantial parts of it, submitted to the journal must not be under consideration by any other journal. In general, the manuscript should not have already been published in any journal or other citable form, although it may have been deposited on a preprint server. Authors are required to ensure that no material submitted as part of a manuscript infringes existing copyrights, or the rights of a third party.

Correspondence concerning articles published in EPJ Nonlinear Biomedical Physics is encouraged. A 'post a comment' feature is available on all articles published by EPJ Nonlinear Biomedical Physics. Comments will be moderated by the editorial office (see our Comment policy for further information) and linked to the full-text version of the article, if suitable.

Editorial standards

SpringerOpen is a member of the Committee on Publication Ethics (COPE). In order to safeguard the quality of SpringerOpen journal publications, Springer has developed a policy on Publishing Integrity which is in line with the philosophy of COPE.

We follow the principle that we have a prime duty to maintain the integrity of the scientific record. Springer’s Policy on Publishing Integrity addresses:

  • Clear definitions of what violation of Publishing Integrity is.
  • A manual on how to identify such a violation (in the document referred to as an Act of Misconduct).
  • Clear (COPE) examples of what such an Act of Misconduct looks like in practice.
  • Clearly defined actions which have to be undertaken by the Editor and Springer when such an Act is a clearly proven fact.
  • Q & A – a useful list of Questions and Answers on the definition of Publishing Integrity.

Please find the full document of Springer's Policy on Publishing Integrity here.

Data and materials release

Submission of a manuscript to EPJ Nonlinear Biomedical Physics implies that readily reproducible materials described in the manuscript, including all relevant raw data, will be freely available to any scientist wishing to use them for non-commercial purposes.

Any 'in press' articles cited within the references and necessary for the reviewers' assessment of the manuscript should be made available if requested by the editorial office.

Nucleotide sequences

Nucleotide sequences can be deposited with the DNA Data Bank of Japan (DDBJ), European Molecular Biology Laboratory (EMBL/EBI) Nucleotide Sequence Database, or GenBank (National Center for Biotechnology Information).

Protein sequences

Protein sequences can be deposited with SwissProt or the Protein Information Resource (PIR).

The accession numbers of any nucleic acid sequences, protein sequences or atomic coordinates cited in the manuscript should be provided, in square brackets with the corresponding database name; for example, [EMBL:AB026295, EMBL:AC137000, DDBJ:AE000812, GenBank:U49845, PDB:1BFM, Swiss-Prot:Q96KQ7, PIR:S66116].

The databases for which we can provide direct links are: EMBL Nucleotide Sequence Database (EMBL), DNA Data Bank of Japan (DDBJ), GenBank at the NCBI (GenBank), Protein Data Bank (PDB), Protein Information Resource (PIR) and the Swiss-Prot Protein Database (Swiss-Prot).

Mass spectrometry

Mass spectrometry data should be supplied in the mzML format recommended by the HUPO Protein Standards Initiative Mass Spectrometry Standards Working Group guidelines (http://www.psidev.info/index.php?q=node/80). We also recommend that the data is deposited in the ProteomeExchange (http://proteomexchange.org/) through the PRIDE website (http://www.ebi.ac.uk/pride/), and protein interaction data can be submitted to members of the IMEx consortium (http://www.imexconsortium.org/submit-your-data).

Structures

Protein structures can be deposited with one of the members of the Worldwide Protein Data Bank. Nucleic Acids structures can be deposited with the Nucleic Acid Database at Rutgers. Crystal structures of organic compounds can be deposited with the Cambridge Crystallographic Data Centre.

Chemical structures and assays

Structures of chemical substances can be deposited with PubChem Substance. Bioactivity screens of chemical substances can be deposited with PubChem BioAssay.

Functional genomics data (such as microarray, RNA-seq or ChIP-seq data)

Where appropriate, authors should adhere to the standards proposed by the Functional Genomics Data Society and must deposit microarray data in MIAME-compliant format in one of the public repositories, such as ArrayExpress or Gene Expression Omnibus (GEO). Deposition of high-throughput functional genomics sequencing data (such as RNA-Seq or ChIP-Seq data) with ArrayExpress or GEO in compliance with MINSEQE is also required.

Computational modeling

We encourage authors to prepare models of biochemical reaction networks using the Systems Biology Markup Language and to deposit the model with the BioModels database, as well as submitting it as an additional file with the manuscript.

Plasmids

We encourage authors to deposit copies of their plasmids as DNA or bacterial stocks with Addgene, a non-profit repository, or PlasmID, the Plasmid Information Database at Harvard.

Appeals and complaints

Authors who wish to appeal a rejection or make a complaint should, in the first instance, contact the Editor-in-Chief who will provide details of the journal's complaints procedure.

Competing interests

EPJ Nonlinear Biomedical Physics requires authors to declare any competing financial or other interest in relation to their work. All competing interests that are declared will be listed at the end of published articles. Where an author gives no competing interests, the listing will read 'The author(s) declare that they have no competing interests'.

Plagiarism detection

EPJ Nonlinear Biomedical Physics's publisher, SpringerOpen, is a member of the CrossCheck plagiarism detection initiative. In cases of suspected plagiarism CrossCheck is available to the editors of EPJ Nonlinear Biomedical Physics to detect instances of overlapping and similar text in submitted manuscripts by using the plagiarism detection tool iThenticate. CrossCheck is a multi-publisher initiative allowing screening of published and submitted content for originality.

Citing articles in EPJ Nonlinear Biomedical Physics

Articles in EPJ Nonlinear Biomedical Physics should be cited in the same way as articles in a traditional journal. Because articles are not printed, they do not have page numbers; instead, they are given a unique article number.

Article citations follow this format:

Authors: Title. EPJ Nonlinear Biomed Phys [year], [volume number]:[article number].

e.g. Roberts LD, Hassall DG, Winegar DA, Haselden JN, Nicholls AW, Griffin JL: Increased hepatic oxidative metabolism distinguishes the action of Peroxisome Proliferator-Activated Receptor delta from Peroxisome Proliferator-Activated Receptor gamma in the Ob/Ob mouse. EPJ Nonlinear Biomed Phys 2009, 1:115.

refers to article 115 from Volume 1 of the journal.

Why publish your article in EPJ Nonlinear Biomedical Physics?

High visibility

EPJ Nonlinear Biomedical Physics's open access policy allows maximum visibility of articles published in the journal as they are available to a wide, global audience. Articles that have been especially highly accessed are highlighted with a 'Highly accessed' graphic, which appears on the journal's contents pages and search results.

Speed of publication

EPJ Nonlinear Biomedical Physics offers a fast publication schedule whilst maintaining rigorous peer review; all articles must be submitted online, and peer review is managed fully electronically (articles are distributed in PDF form, which is automatically generated from the submitted files). Articles will be published with their final citation after acceptance, in both fully browsable web form, and as a formatted PDF; the article will then be available through EPJ Nonlinear Biomedical Physics and SpringerOpen.

Flexibility

Online publication in EPJ Nonlinear Biomedical Physics gives authors the opportunity to publish large datasets, large numbers of color illustrations and moving pictures, to display data in a form that can be read directly by other software packages so as to allow readers to manipulate the data for themselves, and to create all relevant links (for example to relevant databases and papers).

Promotion and press coverage

Articles published in EPJ Nonlinear Biomedical Physics are included in article alerts and regular email updates. Some may be included in abstract books mailed to academics and are highlighted on EPJ Nonlinear Biomedical Physics's pages and on the SpringerOpen homepage.

In addition, articles published in EPJ Nonlinear Biomedical Physics may be promoted by press releases to the general or scientific press. These activities increase the exposure and number of accesses for articles published in EPJ Nonlinear Biomedical Physics.

Authors of articles published in EPJ Nonlinear Biomedical Physics retain the copyright of their articles and are free to reproduce and disseminate their work (for further details, see the SpringerOpen copyright and license agreement).

For further information about the advantages of publishing in a journal from SpringerOpen, please click here.