Journal of Molecular Recognition

Cover image for Vol. 27 Issue 10

Editor-in-Chief: Marc H. V. van Regenmortel

Impact Factor: 2.337

ISI Journal Citation Reports © Ranking: 2013: 43/74 (Biophysics); 183/291 (Biochemistry & Molecular Biology)

Online ISSN: 1099-1352


Author Guidelines


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Author Guidelines


General

Journal of Molecular Recognition (JMR) publishes original research papers and reviews describing molecular recognition phenomena in biology. Molecular recognition refers to the non-covalent specific interaction between two or more biological molecules exemplified by receptor-ligand, antigen-antibody, DNA-protein, sugar-lectin and many other interactions. Biomolecular interactions are studied both at structural level in terms of atomic coordinates and at functional level in terms of kinetic and equilibrium binding constants. In recent years, these studies have been extended to multimacromolecular complexes and various molecular interaction networks as well as to cellular modules and organelles. The focus is on studies that aim to achieve a complete description of recognition sites in terms of structure, dynamics and activity.

JMR provides a forum for research in the field of quantitative biomolecular interaction analysis using biosensors and other solution or surface-mediated experimental techniques including microcalorimetry, atomic force microscopy and molecular imprinting. Since the understanding of molecular recognition at a microscopic level can be aided by theoretical approaches, including electrostatic analysis, molecular dynamics and free energy simulations, these aspects will also be covered. Submission of manuscripts related to the application of other instrumental methods, such as HPLC, LC-MS, CE-MS, NMR/MRI, PET and crystallography employed in the elucidation of the biophysical basis of the pathways of molecular recognition between interacting biological molecules are encouraged.

The design, synthesis and application of structural or topological mimics of naturally occurring molecules in the characterisation of molecular recognition processes represent a further aspect encompassed by JMR. These technologies in conjunction with site directed mutagenesis are providing new insights into the correlation between atomic structure and binding energy and pave the way to improved computer simulation, docking and molecular design of biologically active molecules. JMR also publishes articles on the applications of chemically and biologically generated molecular libraries and the creation of novel functions. p>

JMR publishes the best research presented at the following conferences: Affinity Meetings (organized by the International Society of Molecular Recognition ISMR), AFM BioMed Conferences and the International Conferences on Molecular Recognition (Aegean Conferences).

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Manuscript Submission

All papers must be submitted via the online system. The Journal of Molecular Recognition operates an online submission and peer review system that allows authors to submit articles online and track their progress via a web interface. Please read the remainder of these instructions to authors and then click http://mc.manuscriptcentral.com/jomr to navigate to the Journal of Molecular Recognition online submission site.

IMPORTANT: Please check whether you already have an account in the system before trying to create a new one. If you have reviewed or authored for the journal in the past year it is likely that you will have created an account.

File types. Preferred formats for the text and tables of your manuscript are .doc, .rtf, .ppt, .xls. LaTeX files may be submitted provided that an .eps or .pdf file is provided in addition to the source files. Figures may be provided in .tiff or .eps format.

INITIAL SUBMISSION

NON-LATEX USERS: Editable source files must be uploaded at this stage. Tables must be on separate pages after the reference list, and not be incorporated into the main text. Figures should be uploaded as separate figure files.

LATEX USERS: For reviewing purposes you should upload a single .pdf that you have generated from your source files. You must use the File Designation "Main Document" from the dropdown box.

REVISION SUBMISSION

NON-LATEX USERS: Editable source files must be uploaded at this stage. Tables must be on separate pages after the reference list, and not be incorporated into the main text. Figures should be uploaded as separate figure files.

LATEX USERS: When submitting your revision you must still upload a single .pdf that you have generated from your now revised source files. You must use the File Designation "Main Document" from the dropdown box. In addition you must upload your TeX source files. For all your source files you must use the File Designation "Supplemental Material not for review". Previous versions of uploaded documents must be deleted. If your manuscript is accepted for publication we will use the files you upload to typeset your article within a totally digital workflow.

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Copyright and Permissions

If your paper is accepted, the author identified as the formal corresponding author for the paper will receive an email prompting them to login into Author Services; where via the Wiley Author Licensing Service (WALS) they will be able to complete the license agreement on behalf of all authors on the paper.

For authors signing the copyright transfer agreement
If the OnlineOpen option is not selected the corresponding author will be presented with the copyright transfer agreement (CTA) to sign. The terms and conditions of the CTA can be previewed in the samples associated with the Copyright FAQs below:
CTA Terms and Conditions http://authorservices.wiley.com/bauthor/faqs_copyright.asp

For authors choosing OnlineOpen
If the OnlineOpen option is selected the corresponding author will have a choice of the following Creative Commons License Open Access Agreements (OAA):

  • Creative Commons Attribution License OAA
  • Creative Commons Attribution Non-Commercial License OAA
  • Creative Commons Attribution Non-Commercial -NoDerivs License OAA

To preview the terms and conditions of these open access agreements please visit the Copyright FAQs hosted on Wiley Author Services http://authorservices.wiley.com/bauthor/faqs_copyright.asp and visit http://www.wileyopenaccess.com/details/content/12f25db4c87/Copyright--License.html.

If you select the OnlineOpen option and your research is funded by The Wellcome Trust and members of the Research Councils UK (RCUK) you will be given the opportunity to publish your article under a CC-BY license supporting you in complying with Wellcome Trust and Research Councils UK requirements. For more information on this policy and the Journal's compliant self-archiving policy please visit: http://www.wiley.com/go/funderstatement.

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English Editing

Papers must be in English. Oxford English Dictionary or American spelling is acceptable, provided usage is consistent within the manuscript.

Manuscripts that are written in English that is ambiguous or incomprehensible, in the opinion of the Editor, will be returned to the authors with a request to resubmit once the language issues have been improved. This policy does not imply that all papers must be written in "perfect" English, whatever that may mean. Rather, the criterion will require that the intended meaning of the authors must be clearly understandable, i.e., not obscured by language problems, by referees who have agreed to review the paper.

Authors for whom English is a second language may choose to have their manuscript professionally edited before submission to improve the English. A list of independent suppliers of editing services can be found at http://www.blackwellpublishing.com/bauthor/english_language.asp Japanese authors can also find a list of local English improvement services at http://www.wiley.co.jp/journals/editcontribute.html All services are paid for and arranged by the author, and use of one of these services does not guarantee acceptance or preference for publication.

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Presentation of papers

Manuscript style. Use a standard font of the 12-point type: Times, Helvetica, or Courier is preferred. It is not necessary to double-line space your manuscript.

Tables must be on separate pages after the reference list, and not be incorporated into the main text. Figures should be uploaded as separate figure files.

  • During the submission process you must enter 1) the full title 2) the short title of up to 70 characters 3) names and affiliations of all authors and 4) the full address, including email, telephone and fax of the author who is to check the proofs.
  • Include the name(s) of any sponsor(s) of the research contained in the paper, along with grant number(s).
  • Enter an abstract of no more than 250 words for all articles. Please see the guidance below on acceptable abstract writing for JMR.
  • Keywords. Authors should prepare no more than 10 keywords for their manuscript

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Writing Abstracts

An abstract is a concise summary of the whole paper, not just the conclusions. The abstract should be no more than 250 words and convey the following:

1. An introduction to the work. This should be accessible by scientists in any field and express the necessity of the experiments executed

2. Some scientific detail regarding the background to the problem

3. A summary of the main result

4. The implications of the result

5. A broader perspective of the results, once again understandable across scientific disciplines

It is crucial that the abstract convey the importance of the work and be understandable without reference to the rest of the manuscript to a multidisciplinary audience. Abstracts should not contain any citation to other published works.

Nomenclature

Nomenclature, abbreviations and symbols should follow the latest rules of the International Union of Pure and Applied Chemistry (IUPAC). In IUPAC nomenclature, isotopic substitution is indicated by a prefix consisting of (1) any necessary locant numeral or numerals; (2) the atomic symbol with the mass number as a superscript to the left of the symbol; and (3) a subscript (other than the unity) indicating the number of such atoms. Trivial names should be avoided unless the compound is to be mentioned often in the text, in which case a systematic name should also be given the first time the trivial name is used.

Journal of Molecular Recognition also touches on biology and medicine, and therefore a wide range of nomenclature rules apply.

For biological and biochemical nomenclature authors should conform to the (identical) guidelines published in J Biol Chem 260:16-42 (1985) and Eur J Biochem 138:9-37 (1984)

For biomedical nomenclature authors should conform to rules given in the Uniform Requirements for Manuscripts Submitted to Biomedical Journals prepared by the International Steering Committee of Medical Editors. Reprints of this document are available from the Editor, Annals of Internal Medicine.

For questions of style, usage and punctuation, refer to The Chicago Manual of Style, which will be the final authority.

Reference Style

References should be quoted in the text as name and year within brackets, and listed at the end of the paper alphabetically. All references must be complete and accurate and must use Index Medicus journal abbreviations for links to MEDLINE. To check for correct abbreviations please see http://www.ncbi.nlm.nih.gov/entrez/jrbrowser.cgi.. If necessary, cite unpublished or personal work in the text but do not include it in the reference list. Online citations should include date of access. Where possible the DOI for the reference should be included at the end of the reference. References should be listed in the following style:


Journal

Hartig S, Fries S, Balcarcel RR. 2005. Reduced mitochondrial membrane potential and metabolism correspond to acute chloroform toxicity of in vitro hepatocytes. J. Appl. Toxicol. 25:310-317. DOI: 10.1002/jat.1067.


Book

Magnusson B, Kligman AM. 1970. Allergic Contact Dermatitis in the Guinea Pig: Identification of Contact Allergens. Charles C. Thomas: Springfield.


Chapter in Book

Luthy J, Benn M. 1980. Cyanoepithioalkanes: some chemical and toxicological studies. In Natural Sulfur Compounds: Novel Biochemical and Structural Aspects, Cavillini D, Gaull GE, Zappia V (eds). Plenum Press: New York; 381-389


Website

The Oncology Website. http://www.mit.co/oncology/ [24 April 1999]

Illustrations and ChemDraw Rules

Upload each figure as a separate file in either .tiff or .eps format, with the figure number and the top of the figure indicated. Compound figures e.g. 1a, b, c should be uploaded as one figure. Tints are not acceptable. Lettering must be of a reasonable size that would still be clearly legible upon reduction, and consistent within each figure and set of figures. Where a key to symbols is required, please include this in the artwork itself, not in the figure legend. All illustrations must be supplied at the correct resolution:

Black and white and colour photos - 300 dpi

Graphs, drawings, etc - 800 dpi preferred; 600 dpi minimum

Combinations of photos and drawings (black and white and colour) - 500 dpi

Tables should be part of the the main document and should be placed after the references. If the table is created in excel the file should be uploaded separately.

Chemical structures should be prepared in ChemDraw either 80mm (one column) or 175mm (two column) widths, and should be embedded in the Word file. However, the one-column format should be used whenever possible as this allows greater flexibility in the layout of the manuscript.Use this ChemDraw Download or use the following settings:

Drawing Settings:

  • Chain Angle: 120°
  • Bond Spacing: 18% of length
  • Fixed Length: 17 pt
  • Bond Width: 2 pt
  • Line Width: 0.75 pt
  • Margin Width: 2 pt
  • Hash Spacing: 2.6 pt
  • Bond Width: 2.6 pt

Text Settings:

  • Font: Arial
  • Size: 12 pt

Preferences:

  • Units: Points
  • Tolerances: 5 pixels

Authors using different structural drawing programs should choose settings consistent with those above. Compound numbers should be bold, but not atom labels or captions.


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Graphical Table of Contents

JMR’s table of contents will be presented in graphical form with a brief abstract.

The table of contents entry must include the article title, the authors' names, no more than 80 words or 3 sentences of text summarising the key findings presented in the paper and a figure that best represents the scope of the paper (see the section on abstract writing for more guidance).

Table of contents entries should be submitted to ScholarOne Manuscripts (formerly known as Manuscript Central) in one of the generic file formats and uploaded as ‘Supplementary material for review’ during the initial manuscript submission process.

The image supplied should fit within the dimensions of 50mm x 60mm, and be fully legible at this size.

Examples for arranging the text and figures as well as paper title and authors' names are shown below.

sample figure

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Citing EarlyView Articles

To include the DOI in a citation to an article, simply append it to the reference as in the following example:

R. K. Harris, A. Nordon, K. D. M. Harris, Rapid. Commun. Mass Spec. 2007, DOI: 10.1002/rcm.21464.

To link to an article from the author’s homepage, take the DOI (digital object identifier) and append it to "http://dx.doi.org/" as per following example:

DOI: 10.1002/jmr.928, becomes http://dx.doi.org/10.1002/jmr.928.

Supporting Material

Data that are (i) not amenable to presentation in a traditional print format, (ii) of interest primarily to specialists and do not require Journal page space, or (iii) particularly useful to the community in electronic (downloadable) form can be published online as supplementary material hosted within Wiley Online Library.

Article formats published in Journal of Molecular Recognition

Journal of Molecular Recognition publishes Reviews, Research Articles and Recognition Highlights & Commentaries. Submitted manuscripts should not have been previously published and should not be submitted for publication elsewhere while they are under consideration by Wiley. Receipt of papers will be acknowledged. Submitted material will not be returned to the author, unless specifically requested.

Research Articles must either be of current general interest or of great significance to a more specialized readership. They are peer-reviewed and report details of studies that have not been published previously, except in the form of a preliminary communication (reprint requested). Manuscripts should be between 15 and 20 pages in length (double spaced), and be divided into sections in the following order: introduction, materials & methods, results, discussion, conclusions, references.

Reviews. Review articles deal with topics of current interest in all relevant areas of molecular recognition. A critically selected treatment of the material is desired; unsolved problems and possible developments should also be discussed. Although review articles are generally written upon invitation of the editors, unsolicited manuscripts are also welcome provided they are in keeping with the character of the journal. Reviews should start with an abstract. This text should not be a mere summary but rather should arouse the readers' interest. The first section of the review article itself, the Introduction, should primarily introduce the non-specialist to the subject in as clear a way as possible. A review should conclude with a section entitled Summary, in which the achievements of and new challenges for the subject are presented succinctly. In addition, if the authors of reviews wish to do so, biographical sketches (maximum length 600 characters) and portrait-quality black-and-white photographs of the correspondence authors can be submitted with your revised manuscript. A Review manuscript should consist of a maximum of 50 double-spaced pages of text, footnotes, literature citations, tables, and legends, plus formulas, schemes, and figures in a number appropriate to the text and topic.

Recognition Highlights & Commentaries . Highlights describe very important new results of original research, in general given by a third person, with a view to instruct and to highlight their significance. The results should be presented clearly, but as succinctly as possible, without the comprehensive details required for an original article. Highlights should be not more than 6 - 8 double-spaced pages of text and include only essential formulas and figures as well as a minimal number of references. For Highlights a short abstract and a maximum of ten keywords should be given at the top of the manuscript.

Commentaries. Critical comments on publications in the Journal of Molecular Recognition are welcome if they contribute to the scientific discussion. The author of the publication the correspondence refers to will have the opportunity to reply.

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Further Information

For accepted manuscripts the publisher will supply proofs to the submitting author prior to publication. This stage is to be used only to correct errors that may have been introduced during the production process. Prompt return of the corrected proofs, preferably within two days of receipt, will minimise the risk of the paper being held over to a later issue. Free access to the final PDF offprint or your article will be available via Author Services only. Please therefore sign up for Author Services if you would like to access your article PDF offprint and enjoy the many other benefits the service offers.

Manuscript accepted for publication? If so, check out our suite of tools and services for authors and sign up for:

  • Article Tracking
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Ethical Treatment of Humans and Animals

All human and animal studies must be approved by an appropriate ethics committee or review board (depending on local arrangements), and a statement to this effect should be included in the methods section, or the reasons why it was not necessary if this is the case. All clinical investigations must have been conducted according to the principles expressed in the Declaration of Helsinki ( http://www.wma.net).

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