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sbalci committed Jan 1, 2019
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12 changes: 6 additions & 6 deletions BibliographicStudies.Rmd
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Expand Up @@ -4,23 +4,23 @@ subtitle: "Reproducible Bibliometric Analysis of Pathology Articles Using PubMed
author: "Serdar Balcı, MD, Pathologist"
date: '`r format(Sys.Date())`'
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---

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142 changes: 134 additions & 8 deletions BibliographicStudies.html
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<meta name="author" content="Serdar Balcı, MD, Pathologist" />

<meta name="date" content="2018-03-28" />
<meta name="date" content="2019-01-01" />

<title>Bibliographic Studies</title>

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<h1 class="title toc-ignore">Bibliographic Studies</h1>
<h3 class="subtitle"><em>Reproducible Bibliometric Analysis of Pathology Articles Using PubMed, E-direct, WoS, Google Scholar</em></h3>
<h4 class="author"><em>Serdar Balcı, MD, Pathologist</em></h4>
<h4 class="date"><em>2018-03-28</em></h4>
<h4 class="date"><em>2019-01-01</em></h4>

</div>

Expand All @@ -1526,26 +1592,86 @@ <h1><span class="header-section-number">1</span> Introduction</h1>
<p>These studies require too much effort, since the data is generally behind paywalls and restrictions.</p>
<p>I have previously contributed to a research to identify the Articles from Turkey Published in Pathology Journals Indexed in International Indexes; which is published here: <a href="http://www.turkjpath.org/summary_en.php3?id=1423">Turk Patoloji Derg. 2010, 26(2):107-113 doi: 10.5146/tjpath.2010.01006</a></p>
<p>This study had required manual investigation of many excel files, which was time consuming; also redoing and updating the data and results require a similar amount of effort.</p>
<p>In order to automatize these type of analysis in a reproducable fashion, I will be using <!-- list of analysis tools --> <a href="https://rmarkdown.rstudio.com/">R Markdown</a> , <a href="https://rmarkdown.rstudio.com/r_notebooks.html">R Notebook</a> , <a href="https://shiny.rstudio.com/">Shiny</a> and <a href="https://en.0wikipedia.org/wiki/Terminal_(macOS)">Terminal</a> for coding. I also plan to use other bibliographic tools like <a href="http://www.vosviewer.com/">VOSviewer</a>.</p>
<p>Data will be retrieved from <a href="https://www.ncbi.nlm.nih.gov/pubmed">PubMed</a>, <a href="https://dataguide.nlm.nih.gov/edirect/overview.html">E-direct</a>, <a href="www.webofknowledge.com/">WoS</a> and <a href="https://scholar.google.com">Google Scholar</a>.</p>
<hr />
<p>If you want to see the code used in the analysis please click the code button on the right upper corner or throughout the page.</p>
<p>I would like to hear your feedback: <a href="https://goo.gl/forms/YjGZ5DHgtPlR1RnB3" class="uri">https://goo.gl/forms/YjGZ5DHgtPlR1RnB3</a></p>
<p>This document will be continiously updated and the last update was on 2018-03-28.</p>
<p>This document will be continiously updated and the last update was on 2019-01-01.</p>
<hr />
</div>
<div id="analysis" class="section level1">
<h1><span class="header-section-number">2</span> Analysis</h1>
<hr />
<div id="country-based-comparison" class="section level2">
<h2><span class="header-section-number">2.1</span> Country Based Comparison</h2>
<p>To see the analysis comparing number of pathology articles from Turkey, German and Japan see this analysis: <a href="https://sbalci.github.io/pubmed/CountryBasedComparison.html">Country Based Comparison</a></p>
<hr />
</div>
<div id="articles-per-journals-per-country" class="section level2">
<h2><span class="header-section-number">2.2</span> Articles per Journals per Country</h2>
<p>In this analysis we aimed to compare number articles per journals per country. We tried to identify if articles from a country is published in certain journals: <a href="https://sbalci.github.io/pubmed/ArticlesPerJournalsPerCountry.html">Articles Per Journals Per Country</a></p>
</div>
<div id="most-common-mesh-terms-and-keywords-used-in-pathology-articles-from-turkey" class="section level2">
<h2><span class="header-section-number">2.3</span> Most Common MeSH Terms and Keywords used in Pathology Articles from Turkey</h2>
<p>In this analysis we aimed to identify the common research topics Turkish pathologists are interested. We extracted most common MeSH terms and keywords from PubMed articles using EDirect: <a href="https://sbalci.github.io/pubmed/MeSH_Terms_Pathology_Articles_From_Turkey.html">MeSH Terms Pathology Articles From Turkey</a></p>
<hr />
<!-- ## Journals Published Articles From Turkey -->
<hr />
<!-- ## SEER Research Per Countries / Who is doing SEER Research? -->
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<!-- ## Semantic Scholar -->
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<!-- ## neutrophil lymph ratio -->
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<!-- ## retracted pathology articles -->
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<!-- ## correction pathology articles -->
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<!-- ## p values in pathology articles a text analysis of pubmed articles using regular expression -->
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<!-- ## europepmc paketi ile endometriozis analizi -->
<hr />
</div>
</div>
<div id="sources-used-for-analysis" class="section level1">
<h1><span class="header-section-number">3</span> Sources Used For Analysis</h1>
<p>Here are the sources used in these analysis: <a href="https://sbalci.github.io/pubmed/Sources.html">Sources Used For Analysis</a></p>
<hr />
</div>
<div id="feedback" class="section level1">
<h1><span class="header-section-number">3</span> Feedback</h1>
<h1><span class="header-section-number">4</span> Feedback</h1>
<p><a href="https://github.com/sbalci">Serdar Balcı, MD, Pathologist</a> would like to hear your feedback: <a href="https://goo.gl/forms/YjGZ5DHgtPlR1RnB3" class="uri">https://goo.gl/forms/YjGZ5DHgtPlR1RnB3</a></p>
<p>This document will be continiously updated and the last update was on 2018-03-28.</p>
<p>This document will be continiously updated and the last update was on 2019-01-01.</p>
<hr />
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