Publication of Research Article

1. Dr. S. Umesha, PhD. Associate Professor DOS in Biotechnology University of Mysore Manasagangotri Mysore- 570006 Publication of Research Article Nov, 2011

2. Table of Contents • Introduction • Part I: Publication & Peer Review • Deciding to Publish • Submitting Your Paper • After Submission • Overview of Peer Review • Purpose of Peer Review • How It Works • The Role of Editor • Limitations and Issues

3. Table of Contents Cont’d • Part II: Writing a Scientific Manuscript • The Scientific Manuscript • Word Choice • The Abstract • The Introduction • The Methods & Materials Section • The Results Section • The Discussion Section • Figures, Tables, Equations, and References

4. “There is no way to get experience except through experience.”

5. Editorial Office Reviewer Author Scientific Publication is a Team Effort Submission, Editorial Screening, Reviewing and Editorial Decision Processes are similar to those presented in previous talks

6. Journal Reviewer Authors Scientific Publication is a Team Effort

7. Part I: Publication & Peer Review: Part I: Publication & Peer Review: Deciding to Publish and Submitting Your Paper • What to publish? • abstract vs. full report • Choosing your forum • Which type of journal is best for you? • What audience are you targeting? • Research the journal • Publication guidelines • Article style

8. “The Seven Deadly Sins” • Data manipulation, falsification • Duplicate manuscripts • Redundant publication • Plagiarism • Author conflicts of interest • Animal use concerns • Humans use concerns Publish and perish

9. No What constitutes redundant publication? Yes Maybe OK if later Data in conference abstract? Same data, different journal? Data on website? Data included in review article? Expansion of published data set? Yes

10. What makes a good research paper? Good science/Arts & Humanities/ Business & management/ Education Good writing Publication in good journals

11. What constitutes good Research? Novel – new and not resembling something formerly known or used(can be novel but not important) Mechanistic – testing a hypothesis - determining the fundamental processes involved in or responsible for an action, reaction, or other natural phenomenon Descriptive – describes how are things are but does not test how things work – hypotheses are not tested.

12. What constitutes a good journal? Impact factor – average number of times published papers are cited up to two years after publication. Immediacy Index – average number of times published papers are cited during year of publication.

13. Journal Citation Report Journal Impact Factor Immediacy Index Nature 30.979 06.679 Science 29.162 05.589 Economics & Human Biol. 02.630 00.838 Economics of Edu Rev 01.260 00.842 Am J Math 00.962 00.122 Ann Math 01.505 00.564

14. Things to consider before writing 1. Time to write the paper? - has a significant advancement been made? - is the hypothesis straightforward? - did the experiments test the hypothesis? - are the controls appropriate and sufficient? - can you describe the study in 1 or 2 minutes? - can the key message be written in 1 or 2 sentences? “Those who have the most to say usually say it with the fewest words”

15. Things to consider before writing 1. Time to write the paper? - has a significant advancement been made? - is the hypothesis straightforward? - did the experiments test the hypothesis? - are the controls appropriate and sufficient? - can you describe the study in 1 or 2 minutes? - can the key message be written in 1 or 2 sentences? 2. Tables and figures - must be clear and concise - should be self-explanatory 3. Read references - will help in choosing journal - better insight into possible reviewers

16. Things to consider before writing 4. Choose journal - study “instructions to authors” - think about possible reviewers - quality of journal “impact factor” 5. Tentative title and summary 6. Choose authors

17. After Submission • Publication Procedure (6-12 months) • Author submits • Editor is assigned to manuscript • Editor assigns reviewers (associate editors) to inspect • Reviewers decide on whether to review paper • Several reviewers inspect and edit • Editor decides on accuracy of revisions and whether to accept paper • If accepted, editor sends paper back to author with revisions • Author revises paper and sends it back • Possibility of second review process • Publication!

18. Authorship Guidelines on authorshop, International committee of Medical Journal Editors, Reprinted by kind permission of the Editor of the British Medical Journal of Sept 14, 1985. J Clin Pathol 39: 110, 1986

19. What is Peer Review? • Review process for scientists by scientists • Purpose • To filter what is published as “Science/Research” • To provide researchers with perspective • Where is peer review used? • Scientific publication • Grant review • Tenure promotion

20. Constraints of Peer Review “Editors and scientists portray peer review as a quasi-sacred process that helps to make science our most objective truth teller. But we know that the system of peer review is biased, unjust, unaccountable, incomplete, easily fixed, often insulting, usually ignorant, occasionally foolish, and frequently wrong.” -- Richard Horton, editor of The Lancet, • Slow • Conflicting views • Confronting theory bias • Personal views • Objective vs. personal edits • Fraud • Data manipulation and invention

21. Scientific Misconduct • Gift Authorship • Redundant Publication • Plagiarism • Fabrication • Falsification • Conflict of Interest

22. Part II: Writing a Scientific/ Research Manuscript

23. Writing Style and Audience • Checklist: • Void of anecdotes or stories • Reports facts not outlandish conclusions • No misspellings • Grammatical accuracy • Meets formatting guidelines • Avoids using the first person • Who’s the audience? • Write for your target audience

24. Words and expressions to avoid Jargon Preferred use a considerable amount of much on account of because a number of several Referred to as called In a number of cases some Has the capacity to can It is clear that clearly It is apparent that apparently Employ use Fabricate make Day, RA. “How to write and publish a scientific paper,” 5th edition, Oryx Press, 1998.

25. Word Choice • Examine vs. Analyze • Activity to gain knowledge vs. Describing the analysis of that knowledge • Bloom’s Taxonomy • Knowledge • Comprehension • Application • Analysis • Synthesis • Evaluation

26. Word Choice • Bloom’s Taxonomy • Knowledge: Recitation of fact • Found, identified, labeled • Comprehension: State a problem or interpret fact • Discuss, predict, compare • Application: Apply old information to solve new problems • Solve, show, examine, classify • Analysis: Used to explain patterns or meaning • Analyze, investigate, compare, contrast • Synthesis: Making predictions or discussing possibilities • Predict, plan, devise, propose • Evaluation: Drawing conclusions, making recommendations • Justify, verify, argue, recommend, determine

27. Manuscript Structure • Abstract • Introduction • Body of Article • Results • Discussion and Conclusions • Acknowledgements • References • Figures and Tables

28. Abstract • Summary of Manuscript (200-300 Words) • Problem investigated • Purpose of Research • Methods • Results • Conclusion

29. Abstract • Common Mistakes • Too much background or methods information • Figures or images • References to other literature, figures or images • Abbreviations or acronyms

30. Introduction • Broad information on topic • Previous research • Narrower background information • Need for study • Focus of paper • Hypothesis • Summary of problem (selling point) • Overall 300-500 words

31. Introduction • Common Mistakes • Too much or not enough information • Unclear purpose • Lists • Confusing structure • First-Person anecdotes

32. Methods and Materials • Provides instruction on exactly how to repeat experiment • Subjects • Sample preparation techniques • Sample origins • Field site description • Data collection protocol • Data analysis techniques • Any computer programs used • Description of equipment and its use

33. Methods and Materials • Common Mistakes • Too little information • Information from Introduction • Verbosity • Results/ sources of error reported

34. Results • Objective presentation of experiment results • Summary of data • NOT a Discussion! • Common mistakes • Raw data • Redundancy • Discussion and interpretation of data • No figures or tables • Methods/materials reported

35. Discussion • Interpret results • Did the study confirm/deny the hypothesis? • If not, did the results provide an alternative hypothesis? What interpretation can be made? • Do results agree with other research? Sources of error/anomalous data? • Implications of study for field • Suggestions for improvement and future research? • Relate to previous research

36. Discussion • Common Mistakes • Combined with Results • New results discussed • Broad statements • Incorrectly discussing inconclusive results • Ambiguous data sources • Missing information

37. Figures and Tables • Tables • Presents lists of numbers/ text in columns • Figures • Visual representation of results or illustration of concepts/methods (graphs, images, diagrams, etc.) • Captions • Must be stand-alone

38. Figures and Tables • Guidelines for Figures and Tables • High resolution • Neat, legible labels • Simple • Clearly formatted • Indicate error • Detailed captions

39. References • Check specific referencing style of journal • Should reference: • Peer-reviewed journal articles, abstracts, books • Should not reference: • Non-peer-reviewed works, textbooks, personal communications • Common Mistakes • Format, Format, Format • (Figures & Tables, Equations, and References) • Redundant Information • Text, Figures, Tables, and Captions • Type of Reference

40. Process of Research Completion of research Preparation of manuscript Submission of manuscript Assignment and review Decision Rejection Revision Resubmission Re-review Acceptance Rejection Publication

41. Day, RA. “How to write and publish a scientific paper,” 5th edition, Oryx Press, 1998. Fischer BA, Zigmond MJ. “Components of a research article.” survival@pitt.edu Marshal GS. “Writing a peer reviewed article.” http://dor.umc.edu/ARCHIVES/GMarshallPublishingarticle.ppt Hall, JE. “Writing research papers (and getting them published)” http://dor.umc.edu/ARCHIVES/GMarshallPublishingarticle.ppt Benos, D., Reich, M. “Peer review and publication in APS journals.” http://www.the-aps.org/careers/careers1/EBSymposia/Benos2003.ppt Resources

43. THANK YOU