Instructions for Authors, ISMB02 Proceedings
Acceptance
When accepted by the editors, authors should send the files of the final
copy to the Proceedings Production office at the ftp site link on the Paper
Submission page http://www.ismb02.org/paper.html
.
If it is necessary we may request one hard copy of the manuscript and figures.
The files are used for typesetting, and most Macintosh or PC-based word
processing packages, including LATEX, are acceptable (with images printed
to a postscript file). Authors are also required to complete and submit
a signed copyright transfere form, see link to PDF file on http://www.ismb02.org/paper.html
Software
Authors please note that software should be available for a full TWO YEARS
after publication of the manuscript.
Manuscript Length
In contrast to what we wrote to you in our acceptance letter, we do NOT
need the camera-ready version. Instead, we need the manuscript in
on of the formats
specified below. The final publication must occupy no more that
9 journal pages, including all text, figures and tables. Submission
in LaTex using the templates supplied at http://www.ismb02.org/paper.html
will give you an excellent estimate. If you are submitting in another
format, Word for example, the rule of thumb is that 2 journal pages will
hold 1400 words or one figure plus 1000 words. If you need to submit
in some format other than LaTex or Word, contact wgallin@ualberta.ca to
discuss the submission. When submitting, please send copies fo all
figures as individual EPS format files in addition to the mansucript.
If submitting as a LaTex file, please include an ASCII text file with the
text of the manuscript as well as .tex, .dvi. and a PDF or PS view of the
final paper. Please direct all questions regarding submission to
wgallin@ualberta.ca
Sections of the manuscript
Please subdivide manuscripts into the following sequence of sections:
Title page, Abstract, Introduction, System and methods, Algorithm, Implementation,
Discussion, References.
Title page
The title should be short, specific and informative, avoiding if possible
version number and the words: tool, package, application, software (and
similar). The surname and initials of each author should be followed by
his/her department, Institution, city with postal code and country. Any
changes of address may be added to the footnotes. The author to whom offprint
requests are to be sent should be indicated by an asterisk and the footnote
'To whom correspondence should be addressed'. Please provide a running
head of not more than 50 characters.
Structured Abstract (see recent issues of journal for examples)
Abstracts are structured with a standard layout such that the text
is divided into sub-sections under the following five headings: Motivation,
Results, Availability, Contact and Supplementary Information. In cases
where authors feel the headings inappropriate, some flexibility is allowed.
The abstracts should be succinct and contain only material relevant to
the headings. A maximum of 150 words is recommended. If internet hyperlinks
are available for any part of the abstract, then this should be given in
the form of 'clickable text', i.e.{{http://www...}}.
Motivation: This section should specifically state the scientific
question within the context of the field of study.
Results: This section should summarize the scientific advance
or novel results of the study, and its impact on computational biology.
Availability: This section should state software availability
(academic or commercial) if the paper focuses mainly on software development
or on the implementation of an algorithm. Examples are: free availability
over the internet on WWW or ftp server; available on request from the authors;
or available as a commercial package. The complete address (URL) should
be given. In the electronic version of the journal, URLs will appear as
active hyperlinks. Software that is the main focus of the paper should
also be available to the referees. Papers will not be accepted if the software
is not freely available. Where possible authors are encouraged to place
their academic software on the EMBL file server (send E-mail to Software@embl-ebi.ac.uk)
or the Indiana University software repository (ftp://iubio.bio.indiana.edu/).
Contact: Full electronic mail address to be given, preferably
an institution e-mail address.
Supplementary Information: Links to figures/data on web pages
or to files located on the OUP server. These links can point to specialised
details that are of interest to small audiences.
Introduction, Systems and Methods, Algorithm, Implementation, Discussion
and Conclusion
These should conform to standard scientific reporting style. Previous work
in the field should be mentioned. Sufficient information should be given
so that an application can be reimplemented. A test data set and results
must be provided (where appropriate).
References
Authors are responsible for the accuracy of the References. Published articles
and those in press (state the journal which has accepted them) may be included.
In the text, a reference should be cited by author and date and enclosed
by round brackets; not more than 2 authors may be cited per reference;
if there are more than 2 authors use et al. References must NOT be numbered.
At the end of the manuscript, the citations should be given in alphabetical
order, with the author's surname followed by the initial. References should
include in the following order: author name(s), year, paper title, journal
title, volume number, inclusive page numbers. The name of the journal should
be abbreviated according to the World List of Scientific Periodicals. Book
references should also include the editors and the name and address of
the publisher. References should therefore be listed as follows:
-
Myasnikova,E., Samsonova,A., Kozlov,K., Samsonova,M. and Reinitz,J. (2000)
Registration of the expression patterns of Drosophila segmentation genes
by two independent methods, Bioinformatics, 17 ,3-12.
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Lonsdale,D.M., Hodge,T.P. and Stoehr,P.J. (1984) A computer program for
the management of small cosmid banks. In Soll,D. and Roberts,R.J. (eds),
The
Applications of Computers to Research on Nucleic Acids II Part 2. IRL
Press, Oxford, pp. 429-436.
A maxium of 10 authors' names should be included in the citation; if there
are more than ten authors, replace those names with "et al."
Personal communications (J.Smith, personal communication) should be
authorized by those involved in writing, and unpublished data should be
cited as (unpublished data). Both should be used as sparingly as possible
and only when the unpublished data referred to is peripheral rather than
central to the discussion. References to manuscripts submitted but not
yet accepted should be included in the list of references.
Acknowledgements
These should be included at the end of the text and not in footnotes.
Tables
Tables should be included separately from the text and be numbered consecutively.
Tables should be self-explanatory and include a brief descriptive title.
Footnotes to tables should be indicated by lower case letters but should
not include extensive experimental detail.
Figures
All figures should be referred to in the text as Figure 1 etc. They should
follow the main body of the text and their approximate final positions
indicated in the margin of the text. Where available, the figures should
be submitted in electronic form e.g. as a PDF file. Please label figures
lightly on the back with number, first author and manuscript title. An
arrow should be used to indicate the top of the figure. All figures should
be formatted to fit into, or be reduced to, a single (86 mm) or double
(178 mm) column width. Figure legends should appear on a separate page.
Web screen dumps: Authors are encouraged to avoid screen dumps
as figures, unless really necessary - a table or figure is much preferred
by the editors. All figures should have a white background to increase
the contrast between the illustration and the background, so that the figure
is easy to read.
Line illustrations: These must be of sufficient quality for publication
as submitted, i.e. clear, sharp, clean and of even density. Figures will
NOT be redrawn or relabelled. Any lettering or text should be in proportion
with the rest of the figure.
Photographs: These must be of sufficient quality with respect
to detail, contrast, and fineness of grain to withstand the unavoidable
loss of contrast inherent in the printing process.
Colour plates: Inclusion of colour plates is subject to a special
charge of £750. The online version of the paper will be in colour.
Conventions
In general, the journal follows the conventions of the CBE Style Manual(Council
of Biology Editors, Bethesda, MD, 1983, 5th edition). Follow Chemical
Abstracts and its indices for chemical names. For guidance in the use
of biochemical terminology follow the recommendations issued by the IUPAC-IUB
Commission on Biochemical Nomenclature, as given in Biochemical Nomenclature
and Related Documents, published by the Biochemical Society, UK. For
enzymes, use the recommended name assigned by the IUPAC-IUB Committee on
Biochemical Nomenclature, 1978, as given in Enzyme Nomenclature,
published by Academic Press, New York, 1980. Where possible, use the recommended
SI units. Genotypes should be italicized. Phenotypes should not be italicized.
For bacterial agents nomenclature follow Demarc et al. (1966) Genetics,54,
61-76.
LATEX
TEX-based manuscripts should be produced using the LATEX article style
format only. The document style options used must indicate two-column text
with 86 mm column widths. The final version should be supplied containing
.tex, .dvi, .ps and ascii files (Templates can be downloaded from http://www.ismb02.org/paper.html).
Hard copies of both text and figures should be supplied in the conventional
way. Authors will receive proofs.
Page charges
Page charges are NOT levied.
Proofs
Authors are sent page proofs. These should be checked immediately and returned
to the ISMB02 Proceedings Production Staff by express post, telephone or
fax, to:
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Warren Gallin
-
ISMB02 Proceedings Production
-
Department of Biological Sciences
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University of Alberta
-
Edmonton
-
Alberta T6G 2E9
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Canada
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Tel: 780-492-1285; Fax: 780-492-9234
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E-mail: wgallin@gpu.srv.ualberta.ca
A charge is made to authors who insist on amendment within the text at
the page proof stage.
Copyright
It is a condition of publication in Bioinformatics that authors
assign copyright. A completed copyright form must be returned with
the proofs. This ensures that requests from third parties to reproduce
articles are handled efficiently and consistently and will also allow the
article to be as widely disseminated as possible. In assigning copyright,
authors may use their own material in other publications provided that
Bioinformatics
is acknowledged as the original place of publication.
Offprints
There are no free reprints from the Proceedings. The Proceedings
will be mounted for public access on the web site fo the journal Bioinformatics.
Reprints can be ordered by the authors when they return final page proofs.
A pricing schedule will be mounted soon.