systematic literature review with mendeley

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Mendeley Desktop

Using mendeley desktop for systematic reviews.

• Mendeley applications
• Creating a Mendeley account
• Navigating Mendeley Desktop
• Synchronising Mendeley Desktop & Web
• Exporting from online resources
• Adding a reference manually
• Editing a reference
• Adding PDFs
• Adding references from another reference management package
• Searching your library
• Using Folders
• Deleting references
• Managing full text documents
• Dealing with duplicates
• Sharing references: Mendeley Groups
• Mendeley Cite-O-Matic toolbar
• Inserting citations
• Creating a bibliography
• Editing citations
• Selecting a citation style
• Journal title abbreviations
• Preparing a paper for publishing / Turnitin
• Using Mendeley with Word FAQs
• Further help

Mendeley would not usually be considered as the best choice of software for a full systematic review. Especially if your review involves downloading a large number of references, or you are planning on publishing your review, we would recommend using EndNote software for your review instead of Mendeley. It is much more transparent about which items are identified as duplicates and has much greater flexibility relating to checking and  removing duplicates . This is likely to significantly reduce the risk of accidentally removing items that are not duplicates and is more thorough when working with large sets of references.

Mendeley is only suitable for systematic reviews if you have the desktop version already downloaded, as the replacement, Mendeley Reference Manager offers only a very limited deduplication option. Mendeley Desktop is no longer available to download for new users and will only be available on UCL computers or on your own device using  Desktop@UCL Anywhere  for a limited time. 

Make sure you are aware of the reporting requirements for the methodology of your review and check that Mendeley will be suitable for providing the data  required for that before you start using Mendeley for your review. 

Below is detailed a step by step process for using Mendeley for your review.

Backing up your Mendeley library

Adding references to your library.

• Removing duplicates

Screening references

It's recommended to keep backing up your Mendeley desktop library as you add new sets of references by syncing it with the online version of Mendeley. 

• Synchronising web and desktop

For each source you search, create a folder in Mendeley where you will add these references to your library.

Export the references from each source in turn to the appropriate folder in your Mendeley library.

• Exporting references to Mendeley desktop

Make sure you record the number of references exported from each database before you import the references into Mendeley, as when you add references to your library it will start removing references it recognises as duplicate references. In practice this means while you might export 50 references from a database, there may only be 45 appearing in the folder if some are duplicates. 

It can also be useful to  tag  all references in the folders with the name of the database or other source so you can tell which database the reference was originally downloaded from. To do this, highlight all items in the folder and edit the reference that is open in the right hand pane by adding the name of the database or other source to the tag field, e.g. Medline. This will update all of the tag fields in references in that folder. 

Once you've added your references to your Mendeley library from all your sources, drag all the records from each of the individual folders into another new folder, from which you will remove duplicates. Mendeley may recognise and remove additional duplicates at this stage, so you may find the number of records in this folder does not total the number in your individual folders.

Now use Mendeley's  duplicate checking tool to find the remaining possible duplicates. Click on the folder that includes all your references for your review to do this.

Make sure that you check the duplicates thoroughly by clicking to expand the reference sets before merging them. After you have merged all the duplicates, it is recommended to do a final manual check for duplicates on the folder containing all your references, by clicking on the title column of the central pane to order them alphabetically.

If you're working with multiple reviewers to screen your references and want to use a reference management software to do so, we recommended using EndNote, following the methodology linked on our EndNote guide.

If you are planning to use reference screening software such as Rayaan or Covidence, however, it is possible to export your references from Mendeley as a RIS file, though please note this will export all references in your Mendeley library. The same methodology can be followed as for the instructions on our EndNote guide. It is also recommended to deduplicate references in Mendeley before transferring them to a screening software.

• Exporting your Mendeley library as a RIS file
• Exporting your library to screening software The same instructions for EndNote can be followed once you have exported your library as a RIS file.
• Screening references within EndNote
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• Next: Using Mendeley with MS Word >>
• Last Updated: Mar 13, 2024 1:22 PM
• URL: https://library-guides.ucl.ac.uk/mendeley-desktop

Systematic Reviews: Mendeley

• Record Keeping
• Developing Searches
• Deduplication
• Screening Sources
• Registration
• Data Extraction
• Useful Links
• Compiled Resources

Primary User Base

The primary users of Mendeley are professionals who have been published, lecturers in various scientific fields, researchers, librarians, and students.

Upload and Annotate

Mendeley users can upload articles from databases as well as online sources (with the use of a bookmark add-on). Yet, there are limitations to what popular sites Mendeley can upload from. It will only upload articles from supported sites. Users can also drag and drop PDFs into the citation manager. Once in Mendeley, articles can be annotated and highlighted.

Word Processor Integration

Mendeley offers a citation plug-in for Microsoft Word, LibreOffice and BibTex for the ability to cite while writing.

Installation Required?

Desktop installation is not required, but is available for Windows (7, 8.1, 10), macOS and Linux. Mendeley can be used in a browser and there are add-ons to help import articles from supported websites. There is a free mobile app for both android and apple devices. ( https://www.mendeley.com/download-desktop/ )

Collaboration Features

All Mendeley users can create groups and collaborate on research. Each plan (including the free plan) allows users to create 1 private/invite-only group with three members and up to 100 MB shared space (around 30-40 articles). Additional group plans are available for groups if more space or members are needed. ( https://guides.library.pdx.edu/c.php?g=474937&p=3249935 )

Price to Students

There are four versions of Mendeley. There is a free option available with upgrades that provide additional storage space. The free version gives users 2 GB of cloud storage. The Plus plan is recommended for students; it costs $4.99/month and allows up to 5 GB of personal library space. The Pro plan, Mendeley’s most popular plan, costs $9.99 a month and provides more storage (10 GB personal space). Unlimited storage space is available for those with the Max plan, which costs $14.99 a month. (https://www.mendeley.com/settings/upgrade/)

Access After Graduation?

Mendeley is a citation manager open for public use. So, as long as payments continue being made, Mendeley can be used. 

• << Previous: EndNote
• Next: Zotero >>
• Last Updated: Jan 19, 2023 3:10 PM
• URL: https://guides.lib.byu.edu/systematicreviews

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• Research Guides

Literature Reviews

• Researching Your Topic
• What is Mendeley?

Get Started with Mendeley

• Writing a Literature Review
• Reading List
• Citations This link opens in a new window

Mendeley is a web and desktop based application designed to help you gather, organize and cite all your references.

• Get started by creating your Mendeley account on the web, download the desktop application (Microsoft Windows, Mac, Linux) on any number of computers, and access Mendeley Manager web. Sync your Mendeley library between all your workspaces.
• Install the brand-new citation tool, Mendeley Cite  compatible with Microsoft Office 365, Microsoft Word versions 2016 and above and with the Microsoft Word app for iPad ® .
• Install the Web Importer to save citations from databases and websites.​

If you are using an earlier version of Word, you can use the existing Mendeley Citation Plugin for Word available with Mendeley Desktop. The Word Plugin is compatible with Windows Word 2007, 2010, 2013; Mac Word 2011, 2016; and LibreOffice. 

A free Mendeley account provides:

• Personal Web Space with 2GB of storage space (about 2,000 to 8,300 PDFs depending on the size of the PDF).
• Shared Web Space to create private groups with a maximum of 25 people per group.

The  Mendeley Support  site is a great place to look more information on all aspects of the program.

• Mendeley Reference Manager Guide
• Mendeley Blog
• Create a  Mendeley account
• Install Mendeley Reference Manager for Desktop  on your computer
• Install the Web Importer  for your browser

• << Previous: Managing Your Sources
• Next: Zotero >>
• Last Updated: May 1, 2024 7:23 PM
• URL: https://umb.libguides.com/litreview

The International Network for Knowledge about Wellbeing

Putting patients at the heart of research, mendeley and more for systematic reviews, reference manager software for managing your review references and collaboration (with an introduction to mendeley).

Presenter: Dr. Amy Price, MA, MSc, Ph.D. – DPhil student, Department of Primary Health Care Sciences and Department of Continuing Education, The University of Oxford

Sharing, editing and managing review references with multiple authors who use different operating systems and software can be a rewarding but daunting task. This hands-on workshop will share tips and tricks for simple ways of organizing, sharing, importing and exporting references and full PDFs across multiple software packages. We will be sharing more resources for managing and building your systematic review and managing your references.

You will be introduced to the use of bibliographic tools, with a specific emphasis on Mendeley (a free cross-platform, multi-device reference manager program) and Google Scholar. The workshop includes an introduction to the basic functions: importing pdf’s, web importer, reading and annotating, Word plugin and literature search. Easily develop a research network to manage your papers online, discover research trends and statistics, and to connect with like-minded researchers.

This workshop is useful for those who are starting your first review as well as for those of us who have done multiple research projects but find it easier to search on Google than find the resources already saved on the computer. The tools demonstrated can be used on a computer, tablet or even a smartphone

Slideshow outline:

• . Organize. Collaborate. Discover. ww.mendeley.com 1 Introduction to Mendeley School of Health Sciences Presented by Amy Price
• 2. Organize. Collaborate. Discover. www.mendeley.com PLOT-IT Public Led Online Trials Twitter ID: @AmyPricePhD
• 3. Desktop Web Mobile Free Academic Software Cross-Platform (Win/Mac/Linux/Mobile) All Major Browsers What is Mendeley?
• 4. How does Mendeley Help?
• 5. Overview Using Mendeley
• 6. Getting started
• 7. Mendeley Desktop
• 8. Mendeley Web
• 9. Organize Setting Up A Library
• 10. References and Documents
• 11. Adding Documents Select a file or folder to add from your computer Watch a folder Add reference by manually entering details as a last resort Import from another reference manager, or BibTeX
• 12. Finding New Research Mendeley Web Importer Mendeley Research Catalog
• 14. Organize Managing Your Library
• 15. Manage Your Library Use column headings to order your references Mark entries read or unread Entries with attached PDFs can be opened with the PDF Reader Star items to mark them as favorites All items in your personal library Items added in the last two weeks Access your recently read items All items you’ve starred in your library Items in need of review
• 16.  Create and Use Folders References not added to a folder will appear in ‘unsorted’ Your folders will be listed below. Drag and drop to re-order them. Use ‘Create Folder’ to enter a new folder name.
• 17. Search Your Documents Enter your search term in the search field The main view will be filtered accordingly Click on a specific folder to search within it Use the clear button to remove the search filter Mendeley’s search tool will look at reference metadata, but will also search within the full text of PDF papers.
• 18. Search Your Documents Add tags to papers in your library which share a common theme Use the Filter Menu to filter your library view to only include tagged items You can also filter by Author, Author Key-words and Publication
• 19. Checking for duplicates
• 20. PDF Viewer Highlight and Annotate Documents
• 21. The PDF Viewer
• 22. Click for paper DOI fix citation
• 23. Highlighting and Annotating
• 24. Cite Using the Mendeley Citation Plug-In
• 25. Install the Citation Plug-in
• 26. Generate In-Text Citations in Word
• 27. Merging Citations
• 28. Inserting Your Bibliography
• 29. Finding a Citation Style
• 30. Discover New Research, Recommendations, and Impact
• 31. Literature Search, Search the catalogue If the full text is available, you’ll see a download icon: Save new research to your library with one click
• 32. Related Documents 1. Select two or more articles 2. Click ‘Related Documents’ 3. Receive customized recommendations
• 33. Search the Catalog Online Conduct advanced searches or browse by discipline Find new research based on what is popular or the most recently added
• 34. Quickly Add New Research If the article is freely available, it’s a one-click addition to your library
• 35. Google Scholar Button
• 36. Google Scholar Button
• 37. Mixing Citation Software Just Say NO Save Original Copy Append to Original All Authors Use Tracked Changes Edit citations inside Mendeley only
• 38.  Save a copy  Learn to undelete  Beware duplicate file removers Troubleshooting File Corruption or Loss
• 39. Collaborate Join and Create Groups to Share References
• 40. Create Groups See the groups you created, joined or follow. Add documents to a group by dragging and dropping.
• 41. Private Groups Collaborate with Your Research Team Share full-text documents with members of your private group Share highlights and annotations Each group member is assigned a different color for highlighting
• 42. The PRISMA Form Getting to grips with the formatting
• 43. Built in PRISMA Form REF-Man, EPPI Reviewer Distiller SR, Covidence Built in Solutions Difficult to add extra box(s) Format is unstable What is added can vanish
• 44. PRISMA FORM GENERATORS • THETA – Toronto Health Economics and Technology Assessment (THETA) Collaborative http://prisma.thetacollaborative.ca/ Make it in PowerPoint
• 45. Process Maps Use Lucid Chart & Edu-Licence https://www.lucidchart.com Guidance for Diagrams and More
• 46. Showcase Your Publications 1. Add your own publications 2. Mendeley adds the PDFs to the public database 3. Showcase them on your profile
• 47. Browse & Join Public Groups Browse by discipline to discover new groups
• 48. Create your research profile Connect with colleagues and join new communities Share your work with other researchers Promote your work and interests to a global audience Receive personal stats on how your work is used
• 49. Get Statistics Social statistics help you learn about others using this paper
• 50. Talk to Us Let us know if you need help or resources We have set up some resources for systematic reviews on ThinkWell http://ithinkwell.org/systematic-reviews-help
• 51. Organize. Collaborate. Discover. www.mendeley.com. Thanks for coming!

About the Presenter Dr Amy Price

Amy Price is a Trustee of the ThinkWell charity where she leads the PLOT-IT (Public Led Online Trials-Infrastructure and Tools) project. Her goal is to build clear channels to propel evidence into practice by supplying the public, and those in low resource areas, with tools to make evidence-based healthcare choices. Responsible shared decision-making requires access to standardized and accurate shared knowledge. Her desire is to mentor others to reach their full potential.

Amy’s experience has shown her that shared knowledge, interdisciplinary collaboration and evidence-based research is the voice that will shape and develop the future. Her background in international relief work, clinical neurocognitive rehabilitation, service on the boards of multiple patient and medical organizations, and as a trauma survivor has equipped her with the flexible mindset to relate to all stakeholders and cultures and to adapt quickly to new technology and help others bridge this gap.

Her desire is to mentor others to reach their full potential. Amy’s experience has shown her that shared knowledge, interdisciplinary collaboration and evidence-based research is the voice that will shape and develop the future. Her background in international relief work, clinical neurocognitive rehabilitation, service on the boards of multiple patient and medical organizations, and as a trauma survivor has equipped her with the flexible mindset to relate to all stakeholders and cultures and to adapt quickly to new technology and help others bridge this gap.

The views expressed here belong to the author and do not necessarily reflect the views and opinions of ThinkWell.

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• Cambridge Libraries

Study Skills

Systematic reviews: screening.

• Is a systematic review appropriate for my topic?
• Reporting Standards
• Search Strategy
• Grey Literature
• Snowballing
• Hand Searching
• Follow up with reference lists
• Critical Appraisal
• Further Support

Screening software

Referencing software such as Endnote  (link opens in new window) , EndnoteWeb  (link opens in new window) , Mendeley  (link opens in new window) or Zotero  (link opens in new window) .

Systematic review screening software such as Covidence (requires you or your department to purchase a subscription; link opens in new window) or Rayyan (most features free; link opens in new window). There is a good guide to using Rayyan  (link opens in new window) produced by Carrie Price, Health Professions Librarian at Towson University.

Our top tips guides and tutorial videos  (link opens in new window) will help you use these various pieces of software. The Medical Library also runs training sessions on using referencing software:

• Endnote  (link opens in new window)
• Mendeley  (link opens in new window)
• Zotero  (link opens in new window)

Best practice for screening

Screening large numbers of articles can be complicated and time-consuming. It is a good idea to establish a well-structured, clear process for all reviewers to follow. This journal article: Best practice guidelines for abstract screening large-evidence systematic reviews and meta-analyses (link opens in new window) suggests some best practice processes to follow when screening for a systematic review.

'Too many' results?

Systematic review searches will typically yield thousands, or even tens of thousands of search results. Of these, it is likely only a small handful will be relevant and ultimately included in the review. This journal article:  Precision of healthcare systematic review searches in a cross-sectional sample  (link opens in new window) finds that on average most systematic reviews only include 3% of all results found in the search, with the majority being discarded at the screening stage. This is why it's so important to have robust screening criteria, and a well-organised system for doing the screening.

After you have completed your database and grey literature searches, and identified other papers through hand-searching, you will need to screen the titles and abstracts to determine if they meet the criteria for inclusion. These criteria should be pre-defined (i.e. stated in your protocol before you begin the searches). Inclusion criteria might relate to the following:

• Date range of publication
• Study design type
• Whether a study focuses on your specific disease, condition, or patient population
• Whether a study focuses mainly on your specific intervention
• Whether a study took place in a certain country or hospital context

This list is not exhaustive, and there are many other inclusion criteria you may wish to use. It is important that they are stated clearly in the Methods section of your protocol and systematic review, and that all co-authors understand them.

Generally articles are screened against these criteria independently by at least two authors. Initially you should screen the titles and abstracts, which will leave you with three groups of articles: Include (those which meet all inclusion criteria), Exclude (those which do not meet at least one of the inclusion criteria) and Doubt (those for which it is unclear from their title and abstract if they meet all inclusion criteria). Once you have screen the titles and abstracts in this way, the full text for each article in the Doubt group should be obtained, and the same procedure applied. Therefore, at the end of the screening process you will be left with two groups of articles: Include, and Exclude.

PRISMA flow diagram

When writing up your systematic review, you will need to include a flow diagram indicating the number of papers found, and the number removed after various stages of screening. There is a standard PRISMA template for this diagram, and an online tool  (link opens in new window) you can use to generate PRISMA flow diagrams.

Cochrane Crowd

Cochrane Crowd  (link opens in new window) is a 'collaborative volunteer effort to help categorise and summarise healthcare evidence so that we can make better healthcare decisions.' Get involved if you want to gain experience in the systematic review process without committing to a full scale systematic review immediately.

• << Previous: Follow up with reference lists
• Next: Critical Appraisal >>
• Last Updated: Apr 15, 2024 3:01 PM
• URL: https://libguides.cam.ac.uk/systematic-reviews

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Literature Review Tips & Tools

• Tips & Examples

Get started with Mendeley

A freely-available reference manager that we currently offer support for is Mendeley.

Learn more about Mendeley - and who to contact for help - on the  Citation Managers at UMass  guide.

• Mendeley Reference Management introductory page for Mendeley
• Mendeley Guides Help guides available from Mendeley
• Mendeley Basics from University of Michigan Library

Mendeley Reference Manager has replaced Mendeley Desktop as Mendeley's primary reference manager. Currently both reference managers are available and can be installed at the same time. There will be a notice period before Mendeley Desktop is retired. 

There are four components of Mendeley that will help you to collect, organize, and cite research. Follow these steps to get started. 

• Go to mendeley.com to create an account.  This will create your Mendeley Web Library account.   
• Add Mendeley Web Importer to your browser.  This will identify the browser that you are using and is compatible for UMass Community members with Firefox, Safari, and Edge. Mendeley Web Importer cannot currently be added to Chrome because of UMass IT security settings.  
• Download Mendeley Reference Manager . This is the desktop client that will sync to your Mendeley Web Library account.   
• Install Mendeley Cite  for Word.  This will allow to import citations into your documents. 
• << Previous: Zotero
• Last Updated: Apr 2, 2024 4:46 PM
• URL: https://guides.library.umass.edu/litreviews

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How to Undertake an Impactful Literature Review: Understanding Review Approaches and Guidelines for High-impact Systematic Literature Reviews

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Computer Science > Cryptography and Security

Title: large language models for cyber security: a systematic literature review.

Abstract: The rapid advancement of Large Language Models (LLMs) has opened up new opportunities for leveraging artificial intelligence in various domains, including cybersecurity. As the volume and sophistication of cyber threats continue to grow, there is an increasing need for intelligent systems that can automatically detect vulnerabilities, analyze malware, and respond to attacks. In this survey, we conduct a comprehensive review of the literature on the application of LLMs in cybersecurity (LLM4Security). By comprehensively collecting over 30K relevant papers and systematically analyzing 127 papers from top security and software engineering venues, we aim to provide a holistic view of how LLMs are being used to solve diverse problems across the cybersecurity domain. Through our analysis, we identify several key findings. First, we observe that LLMs are being applied to a wide range of cybersecurity tasks, including vulnerability detection, malware analysis, network intrusion detection, and phishing detection. Second, we find that the datasets used for training and evaluating LLMs in these tasks are often limited in size and diversity, highlighting the need for more comprehensive and representative datasets. Third, we identify several promising techniques for adapting LLMs to specific cybersecurity domains, such as fine-tuning, transfer learning, and domain-specific pre-training. Finally, we discuss the main challenges and opportunities for future research in LLM4Security, including the need for more interpretable and explainable models, the importance of addressing data privacy and security concerns, and the potential for leveraging LLMs for proactive defense and threat hunting. Overall, our survey provides a comprehensive overview of the current state-of-the-art in LLM4Security and identifies several promising directions for future research.

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SYSTEMATIC REVIEW article

The view of synthetic biology in the field of ethics: a thematic systematic review provisionally accepted.

• 1 Ankara University, Türkiye
• 2 Department of Medical History and Ethics, School of Medicine, Ankara University, Ankara, Türkiye, Türkiye

The final, formatted version of the article will be published soon.

Synthetic biology is designing and creating biological tools and systems for useful purposes. It uses knowledge from biology, such as biotechnology, molecular biology, biophysics, biochemistry, bioinformatics, and other disciplines, such as engineering, mathematics, computer science, and electrical engineering. It is recognized as both a branch of science and technology. The scope of synthetic biology ranges from modifying existing organisms to gain new properties to creating a living organism from non-living components. Synthetic biology has many applications in important fields such as energy, chemistry, medicine, environment, agriculture, national security, and nanotechnology. The development of synthetic biology also raises ethical and social debates. This article aims to identify the place of ethics in synthetic biology. In this context, the theoretical ethical debates on synthetic biology from the 2000s to 2020, when the development of synthetic biology was relatively faster, were analyzed using the systematic review method. Based on the results of the analysis, the main ethical problems related to the field, problems that are likely to arise, and suggestions for solutions to these problems are included. The data collection phase of the study included a literature review conducted according to protocols, including planning, screening, selection and evaluation. The analysis and synthesis process was carried out in the next stage, and the main themes related to synthetic biology and ethics were identified. Searches were conducted in Web of Science, Scopus, PhilPapers and MEDLINE databases. Theoretical research articles and reviews published in peer-reviewed journals until the end of 2020 were included in the study. The language of publications was English. According to preliminary data, 1453 publications were retrieved from the four databases. Considering the inclusion and exclusion criteria, 58 publications were analyzed in the study. Ethical debates on synthetic biology have been conducted on various issues. In this context, the ethical debates in this article were examined under five themes: the moral status of synthetic biology products, synthetic biology and the meaning of life, synthetic biology and metaphors, synthetic biology and knowledge, and expectations, concerns, and problem solving: risk versus caution.

Keywords: Synthetic Biology, Ethics, Bioethics, Systematic review, Technology ethics, Responsible research and innovation

Received: 08 Mar 2024; Accepted: 10 May 2024.

Copyright: © 2024 Kurtoglu, Yıldız and Arda. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY) . The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: PhD. Ayse Kurtoglu, Ankara University, Ankara, Türkiye

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