How To Write An Article
How To Write An Article
publishable manuscript!
Vinod Shidham, Martha Pitman and Richard DeMay
CytoJournal. 9.1 (January-December 2012): p1.
Copyright: COPYRIGHT 2012 Medknow Publications and Media Pvt. Ltd.
http://www.cytojournal.com/
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Most of the scientific work presented as abstracts (platforms and posters) at various conferences
have the potential to be published as articles in peer-reviewed journals. This DIY (Do It
Yourself) article on how to achieve that goal is an extension of the symposium presented at the
36 [sup]th European Congress of Cytology, Istanbul, Turkey (presentation available on net at
http://alturl.com/q6bfp). The criteria for manuscript authorship should be based on the ICMJE
(International Committee of Medical Journal Editors) Uniform Requirements for Manuscripts.
The next step is to choose the appropriate journal to submit the manuscript and review the
'Instructions to the authors' for that journal. Although initially it may appear to be an
insurmountable task, diligent organizational discipline with a little patience and perseverance
with input from mentors should lead to the preparation of a nearly perfect publishable manuscript
even by a novice. Ultimately, the published article is an excellent track record of academic
productivity with contribution to the general public good by encouraging the exchange of
experience and innovation. It is a highly rewarding conduit to the personal success and growth
leading to the collective achievement of continued scientific progress. Recent emergences of
journals and publishers offering the platform and opportunity to publish under an open access
charter provides the opportunity for authors to protect their copyright from being lost to
conventional publishers. Publishing your work on this open platform is the most rewarding
mission and is the recommended option in the current modern era. [This open access article can
be linked (copy-paste link from HTML version of this article) or reproduced FREELY if original
reference details are prominently identifiable].
Introduction
This article is an extension of the symposium presented at the 36 [sup]th European Congress of
Cytology (ECC), Istanbul, Turkey: How to write article? CytoJournal perspective !
(Symposium# 9). [sup][1] This four-part symposium was presented by the editors-in-
chief/representative of four of five international, peer-reviewed, premier cytopathology journals.
The message by each of the four presenters had an anticipated overlap. This article is a
modification and expansion of the CytoJournal point of view. It is published for CytoJournal
readership as an exercise in open access charter as requested by some attendees and CytoJournal
readers. The CytoJournal portion of the presentation at ECC is also available on web at
http://alturl.com/q6bfp.
Writing an article can be a reality with appropriate efforts and approach. Once we decide to write
on the topic of our research, the most important factor is to just begin the process! However,
what follows may not seem as simple. As aptly stated by Gene Fowler, "Writing is easy: All you
do is sit staring at a blank sheet of paper until drops of blood form on your forehead ". [sup][2]
Scientific literature is based on the analysis and discussions about experiments, observations, and
experiences with serious and intellectual exchange of information accomplished through a
variety of platforms. In addition to the books, e-books, lectures, and direct conversations among
scientists, publishing the research in peer-reviewed journals is an important exercise for
academic growth at the individual level and advancement of science at the global level.
Even though performing a study and recording the details of the observations are important
components of an academic career, abandoning the process at this stage will not add significantly
to individual academic advancement [Table 1]. [sup][3] Converting these initial scholarly efforts
into the abstract is a nimble start. However, writing an abstract is just not enough. For
appropriate academic credit, one must proceed to the next step of preparing a publishable
manuscript. Unfortunately, fewer than half of all abstracts at the conference went on to become
completed manuscripts. [sup][4] Non-publication of a deserving work is a tremendous personal
and public loss [Table 1]. The fact is that only published articles are considered the true gauge of
academic achievement in the scholarly world as judged by funding entities, department chairs,
colleagues, and peers.{Table 1}
This article is primarily directed towards junior scholars seeking some general guidance in
writing a publishable cytopathology manuscript. Although this article mainly concerns research
papers, the broad principles are applicable to other areas of pathology and science in general.
These principles are also applicable to other categories of publications including case reports and
review articles, as well as brief reports and editorials. [sup][5]
Writing a research manuscript and shaping it into a published article (paper) is a structured
process with ample potential for frustration unless honed by the wisdom of appropriate
mentorship. Most of the resources are available freely on the web, but this article consolidates
these resources in one place with prime emphasis on cytopathology manuscripts. Beginners are
especially recommended and encouraged to study these resources. [sup][6],[7],[8],[9],[10],[11],
[12]
There are many steps in writing a publishable manuscript, beginning with the decision to
perform a study and culminating in its publication in a peer-reviewed scientific journal,
preferably the one with ability to generate high impact of your work in the scientific arena. The
impact factor of any journal measures the number of citations to its articles published in other
scientific journals. It is a proxy for the relative importance of a journal within its field. The
magnitude to which an individual article has been cited by other authors is thus the important
factor conventionally used for measuring the scientific achievements. [sup][13] Indirectly, any
journal achieving widest, barrier-free broadcasting of your article would increase its visibility
with enhanced opportunities to attract a higher number of citations. [sup][14]
Research and publication process may be broadly divided in to three main steps:
*Performing the research *Analyzing the data (results) *Preparing the manuscript
The first two steps are not the main topic of this article, and so these will be addressed only
briefly with the following lists of important points to be considered for achieving the goal of
publishing an article in a scientific peer-reviewed journal.
The problem should be such that it matters what the answer is!
Any perceived challenge is a potential opportunity for research with an attempt to resolve it
successfully.
In reality, research is the art of finding a simple solution to a perplexing problem. Once a topic
has been preliminarily chosen, then the pertinent literature is searched to determine the potential
of a publishable research before making a final decision to proceed with the project.
A senior mentor could be a good resource to help guide the research project.
For human research, the project must first be approved by the Institutional Review Board (IRB)
or a comparable entity .
Before starting the study you may have to explore resources and expertise in a variety of
technical and academic areas. Communicating and networking with colleagues already doing
research in a particular area is recommended. Collaboration and collegiality are critical for
academic success. Design the study with application of statistical tools as needed for appropriate
collection of data. If necessary, consult a statistician. [sup][15],[16],[17]
Science involves formulating and testing hypotheses which are capable of being proven false by
observed data. The null hypothesis is the statement being tested, typically that there is no
statistical difference in observed events. It is usually paired with an alternative hypothesis and
the researcher tries to disprove the null hypothesis . The results then may be:
EITHER
Simple statistical tools, including tutorials [sup][18] and calculators [sup][19] for statistical
analysis required for most of the clinical-translational research are available on the web.
Manuscript preparation is the main focus of this article. The goal of this step is to share research
results with scientific peers and ultimately, the general public. However, even before embarking
upon this crucial step, it is important to consider and evaluate the following seemingly innocuous
but critical and pertinent issues, which may otherwise be neglected with unintended long term
consequences. [sup][1]
Authorship
Authorship acknowledges the scholars for their work. With authorship comes the burden of
responsibility. The authors are responsible for the integrity of their published data including its
analysis and interpretation. [sup][20] It is prudent to discuss authorship in advance with all
involved participants with perceived stake in the publication process of the manuscript under
preparation. The scholar writing and performing the study should be the first author and the
mentor could be the senior or last author. All authors should fulfill the criteria described by
ICMJE. [sup][21] Anyone who claims authorship should have made a significant contribution to
the study.
Some of these ethical standards may be open to interpretation, which may result in
disagreements and even occasional scandals. [sup][22],[23],[24],[25],[26] WAME (World
Association of Medical Editors) may help address disagreements. [sup][27] Unearned
authorship, not fulfilling the ICJME criteria, is unacceptable to the academic community.
Unacceptable justifications for authorship include: "I was around at the time of the study," "It is
my topic," "I suggested the study," "The paper will not be published without my name on the
author list," and "I need authorship for my promotion." One of the most egregiously abusive
practices is the department chair who demands authorship because "I am the one who made it
possible for you to do this study." [sup][28] Additional inadequate justifications for authorship
include: "I signed out this case or these cases," "I did all the technical work such as staining or
immunostaining," "I pulled out all the cases," and so on. Many of these deserve credit, but may
not fulfill criteria to be listed as an author. However, these contributions may be recognized
under acknowledgements.
Ongoing efforts to avoid unethical authorship claims are encouraging advances in authorship
standards. Due to the complexity of authorship disputes, senior scholars and mentors should help
junior colleagues to avoid egregious authorship violations. General guidelines are available at
ICMJE. [sup][21]
Authorship should be appropriately addressed both for the abstract and the final paper. A brief
initial communication as abstract of Platform or Poster presentation to the appropriate audience
at various meetings is encouraged to elicit feedback from peers to improve the final manuscript.
Journal selection
The focus at this stage is to consider what is the most appropriate journal in which to publish the
manuscript?
The issues to be considered include personal goals as well as the contribution to the public
domain. A lack of serious thought to this issue may have seriously negative consequences.
Faster, wider, and perennial dissemination of the publication should be the most important
consideration.
Whichever journal is chosen, a poorly prepared manuscript will likely be rejected. Believing that
inclusion of a prominent co-author will ensure acceptance of a poor quality manuscript is a
common misconception and should be strongly discouraged.
Many journals allow recommending the most suitable reviewers for your work or who should be
excluded because of conflict of interest, academic competition, or potential of bias. Journals may
consider these recommendations to improve the review process. [sup][29] However, these
recommendations are only suggestions and the final selection of reviewers is at the discretion of
the journal's editorial team.
The audience
Select the meeting (for publication of abstract) followed by finalization of the journal (for
publication of the manuscript) most suitable for communicating your research to your potential
audience. Although many authors aspire to publish in prestigious journals such as the New
England Journal of Medicine , it may be more rewarding to publish in a journal dedicated to your
specialty. For cytopathology, it is appropriate to select a cytopathology journal.
The rewards to the authors also include the intellectual property rights as copyright for the
article. Although traditionally the copyright has been transferred to other interests, many
consider this to be a flawed practice. Today, the option of open access charter prevents this loss
of copyright without compromising the publication. Additional benefits include more rapid and
wider dissemination of the work in a free environment. Open access journals such as
CytoJournal extend this alternative platform and resources to maintain the author's copyright in
the public domain.
The entire enterprise, from performance of the research to publication of the article, is directly
based on your intellectual efforts. Protecting your intellectual property by retaining your
copyright is not only to your benefit, but is also your responsibility. Open access charter allows
the retention of copyright by the authors to be shared in a public domain. [sup][13] The list of
Open Access journals is available at The Directory of Open Access Journals (DOAJ). [sup][30]
Journals offering rapid, real time, ubiquitous, barrier-free perennial access to the article would be
an excellent choice for publishing your article. Journals, such as CytoJournal, which emphasize
modern, online dissemination allow many other benefits including instant translation into many
languages to reach a world wide audience.
Potential for high impact (short and long term) with real time tracking
In addition to the many benefits mentioned above, internet-based journals allow verification of
multiple quality indices related to the individual articles and the journal with easily available free
tools on web in real time instead of static data. [sup][1] Some of these tools are listed below:
E.g. ''Publish or Perish'' from Harzing.com *SJR (SCImago Journal Rank Indicator)
http://www.scimagojr.com/aboutus.php
Online articles in CytoJournal can provide additional matrices (such as number of views,
downloads, prints, and citations by other articles) directly related to a particular article in its
HTML version. This data can be accessed and verified by anybody at any time in real time on
web.
Once the appropriate journal is chosen, review the instructions to the authors of the selected
journal . The instructions should be followed meticulously. These instructions are published in
the journal and are also usually available on the journal's homepage (which could be found
through commonly used search engines, such as Google). For instance, CytoJournal author
instructions can be downloaded from 'Author corner' at
http://www.cytojournal.com/contributors.asp. [sup][31]
Visiting journal web sites will also give additional information such as the scope of the journal
and details on the peer-review process. Peer-review is an important component of the publication
process, but varies by journal. CytoJournal's peer-review process is double-blind, in which the
author identity is kept unknown to the reviewers and vice versa . [sup][32] The journal's website
is also a valuable resource for samples of the journal's style. Failure to comply the journal's
instructions could result in rejection of the manuscript.
Additional help may be obtained from books on the topic, [sup][9],[10],[11],[12],[33] various
resources on the web, [sup][6],[7],[8],[34] and most importantly your mentors and senior
colleagues.
Remainder of the article will now cover step by step hints for writing a publishable
cytopathology manuscript . In general, it is similar to writing any other scientific manuscript with
various stages such as brainstorming, prewriting, drafting, revising, and editing ultimately
leading to a publishable manuscript. [sup][27],[35],[36],[37]
The Materials and Methods section is one of the most important of any scientific manuscript.
The description should communicate to the reader all critical details. For example, manuscripts
with immunological and molecular methodologies should provide explicit details on
temperatures, clones of antibodies, titers, diluents, pH, molarity, buffers, primer sequences,
incubation temperature, duration, etc. (preferably as a table) so that the results could be
reproduced by others. In addition, how to read the results including actual criteria with
appropriate images and sketches should be mentioned in a very easy to understand fashion.
Already published areas may be mentioned in brief with appropriate citation.
Studies involving human subjects must first be approved by the Institutional Review Board. Such
approval (as well as informed consent, if appropriate) must be included in the manuscript.
Similarly, if the study involved animals, approval from the appropriate review board is also
required with appropriate statement in the manuscript.
Most of the details required under Materials and Methods should be in your ''study protocol'' and
may be copy-pasted from there. Include details on the population such as age, sex, race, etc.,
relevant to the study. If you must use abbreviations, Materials and Methods is a good place to
introduce them.
Methods of maintaining patient safety and confidentiality may be included if relevant. Many
studies involve comparison and so randomization process and statistical methods should be
explained. As previously mentioned, it may be prudent to involve a statistician from the
beginning to help devise the study and report the findings.
Step 2: Organize your results
The results are the soul of your study and a critical part of the manuscript. The scientific peers, in
addition to scrutinizing how you conducted the study, will want to know what your findings
were! The Results section is for communicating these findings in an easily understood manner.
The arrangement of data should match the methodology and should communicate as much
information as relevant. At this stage, avoid interpreting the result which should be left to the
Discussion section. To help organize presentation of data, first prepare tables, graphs, sketches,
and photographs, and then describe them in the text. Visual representation of your data makes it
easier for the reader to understand.
With current software programs, many different options are available for organizing data. Select
graphs and tables appropriate to best communicate your data. Readers often miss trends of data
in tables; therefore, use graphs to highlight trends. One should strike a balance between too few
and too many visual aids. Include brief titles and legends for each visual representation. Avoid
abbreviations if possible, but define them if used.
Describe the important details of the visual representations in the Results section and cite all the
representations in the text. It is not necessary to describe every data point in this section.
However, the text should guide the reader in interpretation of the visual representations and
facilitate understanding of the discussion.
Step 3: Discussion
The discussion is where the authors analyze their findings and put them into a broader scientific
context. The length of the discussion depends on the type of study and generally should focus on
the points related to the results observed in the study. [sup][38]
Determine which results are most important. Devote about three sentences to these main findings
in the first paragraph. In the next paragraph, explain the methodology. This is the place to justify
your choice of techniques, protocols, selection criteria, methods of data analysis, etc.
Next, show how your study compares with other scientific studies, including citations to
appropriate key references. You should indicate how your findings confirm or deny already
published data . The length of this portion may run into a several paragraphs, with the goal of
covering the important points. It is also imperative to convey statistical versus clinical
significance and how it might impact clinical practice and patient care. [sup][39]
Most studies have some limitations, and so it is appropriate to acknowledge the limitations of
your study, if you know of any. If appropriate, you could include concerns with methods, sample
population, study power, sampling issue, uncontrollable variables, etc.
At this stage, you should complete the discussion with a summary of the findings or realistic
conclusions based only on your results. This last paragraph should be, preferably, short with no
more than a few sentences. Avoid exaggerating or understating your claims. Finish with
suggestions for future investigation in the area of your study.
After writing most of your manuscript, then draft an introduction. The introduction is critical in
attracting the reader's attention. Use brief sentences. [sup][40]
Use the introduction to state why your study is necessary. A brief review of literature can be
cited in support. This section generally should not be more than one double spaced typed page.
*Identify the clinical or scientific problem. *Explain the unknown issues related to the problem.
*Address any identifiable challenges in study design. *End with an unambiguous statement
about the hypothesis of the study.
The primary hypothesis is one of the most critical components of any manuscript. It should be
spelled out very early in the planning stages of any study.
Step 5: References
References should be carefully documented so that other investigators can consult them. The
authors should follow the citation guidelines used by the individual journal. [sup][31],[41]
Although the abstract appears first in the article, it is better to write it last, after all the details are
well worked out. Each journal has specific guidelines for writing an abstract. The CytoJournal
abstracts are structured under four different areas: Background, Material and Methods, Results,
and Conclusions as explained in the ''Instructions for CytoJournal authors.'' [sup][31]
Stay within the word limit, but provide all critical key information, especially the results and
conclusion or summary. The abstract summarizes the article. Many readers will only review the
abstracts, at least initially, so it is vitally important.
The ideal title should be brief, catchy, and self-explanatory. In addition to the title, the title page
should provide the author information required for publication.
Depending on the particular journal, the title page may be submitted as part of the manuscript or
as a separate file. CytoJournal, for example, requests a separate ''title page'' to facilitate double
blind peer-review [Table 2]. [sup][31] {Table 2}
Authors for CytoJournal should provide all of the following in the title page file: names of all
authors, their degrees, affiliations and institutions, e-mail addresses, and contact details including
phone number and fax number. Depending on the type of the article (research versus case report
versus review versus others), the additional details required for CytoJournal include-
Acknowledgement, Competing Interest Statement by all Authors, Authorship Statement by all
Authors, Ethics Statement by all Authors, and any other related information. [sup][31]
Step 8: Rewrite-rewrite-rewrite
Review your manuscript with your own brutally honest criticism. Revise until you are satisfied
and the manuscript is the best it can be. Check for appropriate flow to the manuscript without
abrupt transitions. Any statement not supported by your findings or the published literature
should be deleted. [sup][42]
Read aloud and check for common preventable errors, such as a missing ''not'' or ''no.'' Similarly,
check to make sure that all tables, figures, and references are appropriately cited.
Once satisfied with self-review, circulate the manuscript. The coauthors should review the
manuscript critically and participate in its finalization. As mentioned previously, all authors of
the manuscript are responsible for its content. You should also ask others for their opinion,
including junior and senior colleagues, trainees, mentors, and secretarial staff depending on the
topic and its breadth.
Every manuscript can benefit from honest input from readers. However, their input may be
incorporated, modified, or ignored based on careful consideration of the authors. Authors with
English as a second language should take extra efforts with copy editing the manuscript using
professional help if needed.
Brief statements, such as "the manuscript is OK as is" should be taken with caution. If there is
compelling evidence that the contributor has not participated in the review and there is a lack of
intellectual ownership, they should be deleted from the author list. Coauthors should have
appropriate opinions and input in various areas such as tables, figures, algorithms, etc. Lack of
critical analysis and honest criticism may lead to rejection of the manuscript.
There are some obvious errors in the manuscript that can lead to rejection [Table 3]. Although
these may not be enumerated specifically by the journals, some of the features which may be
highlighted are: [sup][28],[43],[44]
Common questions
Peer reviewers are the most critical component of scientific publications and they extend you the
opportunity to improve the final publication. They spend a significant amount of time and efforts
by participating in this final goal as your peer.
In general, the editors of the journals are polite in communicating the decision and act as
intermediaries between authors and reviewers. Please read the editor communication carefully.
Request for a revision does not equate with possibility of acceptance. It is just the message that
the reviewers have identified some concerns and the authors have the opportunity to address
these issues to improve the manuscript and increase the chance of final acceptance.
Although reviewers avoid harsh comments, it is not uncommon for the authors to be angry at the
reviewers. Nevertheless, it was meant to be a flawless manuscript submitted after pain-staking,
meticulous efforts thriving for a nearly perfect manuscript almost ready to be accepted.
Receiving pages of criticisms from the reviewers may be frustrating. In general, many of the
sentinel papers are the ones which generate the most extensive criticism by the reviewers!
The role of reviewers is to challenge and prevent the author(s) from publishing a flawed
manuscript on one hand or helping them to hone their manuscript into a revolutionizing high-
powered publication on the other. It is crucial to acknowledge the underestimated fact that all
reviewers devote their expertise and time as passion for the science in your specialty and are
generally there to help you with their best intentions. Reviewers generally have experience and
expertise in their subspecialty with significant insights into evaluation of the manuscript of your
topic. [sup][45]
Authors should analyze the editor's and reviewers' comments with a plan to address them one by
one. It is obviously annoying to see a revision of the manuscript which has failed to address the
reviewer's suggestions.
Meticulously drafted documents ( response form ) explaining how each of the criticisms has been
addressed in the revision are an important part of the revised submission for the reviewers to
understand the response by the authors. Depending on the topic and type of the manuscript this
may be longer than the original manuscript. It is prudent to thank the reviewers for suggesting
the changes to which you agree as the author. In case you do not agree with the criticism, the
disagreement may be addressed in a polite manner in the response form. If the controversy is
important to be shared with the readership and has a bigger picture component, it is preferable to
address the controversy in the discussion section of the manuscript in proper perspective with
cited references. It is recommended to highlight the areas of modifications in the revised
manuscript, so that the editor and the reviewers can locate them easily.
Plagiarism is defined as using ideas and words of other person without citing the source. It is a
significant unethical behavior in the scholarly exercise of publishing. [sup][46] It could be a
major challenge to the reviewers and editorial component of the article publication. Although the
current availability of software programs to check plagiarism are of significant help, [sup][47] it
is the commitment and conscious efforts by the scientific community which can only make a
significant impact. Additional details and guidelines on the topic are available on WAME web
site. [sup][48]
The acceptance of your manuscript has been your final goal and you deserve a huge
congratulation for achieving it! You should celebrate and share the achievement with all the
colleagues and parties participating in the successful culmination of your project. Thank all
contributing colleagues and communicate the acceptance decision by the journal to all, including
your department chair.
Soon, you should receive the page proofs. Please, read them carefully and correct them as
needed. Check the spellings and affiliation details of all authors, including the entire article and
areas such as the conflict of interest, disclosures, and the legends to all figures. Share the
corrections with all the contributors and submit the consolidated final corrections to the
publisher. This will be your last chance to avoid any errors in the final published version. Failure
to correct at this stage may cost you your academic reputation. It is a good practice to extend
personal thanks to all involved with the paper at various stages including those mentioned under
the acknowledgements section.
Summary
Performing this exercise of publishing research under the open access charter is now possible in
the modern era with the advent of internet. This will retain your copyright and still achieve
broadcasting of your research achievements in the public domain. [sup][13],[39]
Acknowledgments
The authors thank Kathy Rost for her secretarial help. We also thank Anushree Shidham and
Anjani Shidham for their copy editing support. Evaluation of the final drafts with constructive
criticism by Dr. Tranchida, Dr. Bandyopadhyay and Dr. Nazeer is appreciated.
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