Journals & Ranking

An academic journal or research journal is a periodical publication in which research articles relating to a particular academic discipline is published, according to Wikipedia. Currently, there are more than 25,000 peer-reviewed journals that are indexed in citation index databases such as Scopus and Web of Science. These indexes are ranked on the basis of various metrics such as CiteScore, H-index, etc. The metrics are calculated from yearly citation data of the journal. A lot of efforts are given to make a metric that reflects the journal's quality.

Journal Ranking Dataset

This is a comprehensive dataset on the academic journals coving their metadata information as well as citation, metrics, and ranking information. Detailed data on their subject area is also given in this dataset. The dataset is collected from the following indexing databases: - Scimago Journal Ranking - Scopus - Web of Science Master Journal List

The data is collected by scraping and then it was cleaned, details of which can be found in HERE.

Key Features

• Rank: Overall rank of journal (derived from sorted SJR index).
• Title: Name or title of journal.
• OA: Open Access or not.
• Country: Country of origin.
• SJR-index: A citation index calculated by Scimago.
• CiteScore: A citation index calculated by Scopus.
• H-index: Hirsh index, the largest number h such that at least h articles in that journal were cited at least h times each.
• Best Quartile: Top Q-index or quartile a journal has in any subject area.
• Best Categories: Subject areas with top quartile.
• Best Subject Area: Highest ranking subject area.
• Best Subject Rank: Rank of the highest ranking subject area.
• Total Docs.: Total number of documents of the journal.
• Total Docs. 3y: Total number of documents in the past 3 years.
• Total Refs.: Total number of references of the journal.
• Total Cites 3y: Total number of citations in the past 3 years.
• Citable Docs. 3y: Total number of citable documents in the past 3 years.
• Cites/Doc. 2y: Total number of citations divided by the total number of documents in the past 2 years.
• Refs./Doc.: Total number of references divided by the total number of documents.
• Publisher: Name of the publisher company of the journal.
• Core Collection: Web of Science core collection name.
• Coverage: Starting year of coverage.
• Active: Active or inactive.
• In-Press: Articles in press or not.
• ISO Language Code: Three-letter ISO 639 code for language.
• ASJC Codes: All Science Journal Classification codes for the journal.

Rest of the features provide further details on the journal's subject area or category: - Life Sciences: Top level subject area. - Social Sciences: Top level subject area. - Physical Sciences: Top level subject area. - Health Sciences: Top level subject area. - 1000 General: ASJC main category. - 1100 Agricultural and Biological Sciences: ASJC main category. - 1200 Arts and Humanities: ASJC main category. - 1300 Biochemistry, Genetics and Molecular Biology: ASJC main category. - 1400 Business, Management and Accounting: ASJC main category. - 1500 Chemical Engineering: ASJC main category. - 1600 Chemistry: ASJC main category. - 1700 Computer Science: ASJC main category. - 1800 Decision Sciences: ASJC main category. - 1900 Earth and Planetary Sciences: ASJC main category. - 2000 Economics, Econometrics and Finance: ASJC main category. - 2100 Energy: ASJC main category. - 2200 Engineering: ASJC main category. - 2300 Environmental Science: ASJC main category. - 2400 Immunology and Microbiology: ASJC main category. - 2500 Materials Science: ASJC main category. - 2600 Mathematics: ASJC main category. - 2700 Medicine: ASJC main category. - 2800 Neuroscience: ASJC main category. - 2900 Nursing: ASJC main category. - 3000 Pharmacology, Toxicology and Pharmaceutics: ASJC main category. - 3100 Physics and Astronomy: ASJC main category. - 3200 Psychology: ASJC main category. - 3300 Social Sciences: ASJC main category. - 3400 Veterinary: ASJC main category. - 3500 Dentistry: ASJC main category. - 3600 Health Professions: ASJC main category.

This file contains a list of journals used to assess publication productivity of the top 10 countries across medical specialties. For the 10 medical specialties, the journal category of the 2020 Scientific Journal Rankings (SJR) was used. These journals are listed in both and PubMed. Three types of journal lists are included: a) ALL dataset, b) 30H dataset, and c) 30P dataset. For the 10 medical specialties, the ALL dataset contains all journals, the 30H dataset contains 30 journals with the highest h-index scores, and the 30P dataset contains 30 journals with the highest number of published articles. For these journals, the actual bibliographic records could be downloaded from the NIH website (http://nlm.nih.gov/databases/download/pubmed_medline.html).

Update — December 7, 2014. – Evidence-based medicine (EBM) is not working for many reasons, for example: 1. Incorrect in their foundations (paradox): hierarchical levels of evidence are supported by opinions (i.e., lowest strength of evidence according to EBM) instead of real data collected from different types of study designs (i.e., evidence). http://dx.doi.org/10.6084/m9.figshare.1122534 2. The effect of criminal practices by pharmaceutical companies is only possible because of the complicity of others: healthcare systems, professional associations, governmental and academic institutions. Pharmaceutical companies also corrupt at the personal level, politicians and political parties are on their payroll, medical professionals seduced by different types of gifts in exchange of prescriptions (i.e., bribery) which very likely results in patients not receiving the proper treatment for their disease, many times there is no such thing: healthy persons not needing pharmacological treatments of any kind are constantly misdiagnosed and treated with unnecessary drugs. Some medical professionals are converted in K.O.L. which is only a puppet appearing on stage to spread lies to their peers, a person supposedly trained to improve the well-being of others, now deceits on behalf of pharmaceutical companies. Probably the saddest thing is that many honest doctors are being misled by these lies created by the rules of pharmaceutical marketing instead of scientific, medical, and ethical principles. Interpretation of EBM in this context was not anticipated by their creators. “The main reason we take so many drugs is that drug companies don’t sell drugs, they sell lies about drugs.” ―Peter C. Gøtzsche “doctors and their organisations should recognise that it is unethical to receive money that has been earned in part through crimes that have harmed those people whose interests doctors are expected to take care of. Many crimes would be impossible to carry out if doctors weren’t willing to participate in them.” —Peter C Gøtzsche, The BMJ, 2012, Big pharma often commits corporate crime, and this must be stopped. Pending (Colombia): Health Promoter Entities (In Spanish: EPS ―Empresas Promotoras de Salud).

1. Misinterpretations New technologies or concepts are difficult to understand in the beginning, it doesn’t matter their simplicity, we need to get used to new tools aimed to improve our professional practice. Probably the best explanation is here in these videos (credits to Antonio Villafaina for sharing these videos with me). English https://www.youtube.com/watch?v=pQHX-SjgQvQ&w=420&h=315 Spanish https://www.youtube.com/watch?v=DApozQBrlhU&w=420&h=315 ----------------------- Hypothesis: hierarchical levels of evidence based medicine are wrong Dear Editor, I have data to support the hypothesis described in the title of this letter. Before rejecting the null hypothesis I would like to ask the following open question:Could you support with data that hierarchical levels of evidence based medicine are correct? (1,2) Additional explanation to this question: – Only respond to this question attaching publicly available raw data.– Be aware that more than a question this is a challenge: I have data (i.e., evidence) which is contrary to classic (i.e., McMaster) or current (i.e., Oxford) hierarchical levels of evidence based medicine. An important part of this data (but not all) is publicly available. References
2. Ramirez, Jorge H (2014): The EBM challenge. figshare. http://dx.doi.org/10.6084/m9.figshare.1135873
3. The EBM Challenge Day 1: No Answers. Competing interests: I endorse the principles of open data in human biomedical research Read this letter on The BMJ – August 13, 2014.http://www.bmj.com/content/348/bmj.g3725/rr/762595Re: Greenhalgh T, et al. Evidence based medicine: a movement in crisis? BMJ 2014; 348: g3725. _ Fileset contents Raw data: Excel archive: Raw data, interactive figures, and PubMed search terms. Google Spreadsheet is also available (URL below the article description). Figure 1. Unadjusted (Fig 1A) and adjusted (Fig 1B) PubMed publication trends (01/01/1992 to 30/06/2014). Figure 2. Adjusted PubMed publication trends (07/01/2008 to 29/06/2014) Figure 3. Google search trends: Jan 2004 to Jun 2014 / 1-week periods. Figure 4. PubMed publication trends (1962-2013) systematic reviews and meta-analysis, clinical trials, and observational studies.
   Figure 5. Ramirez, Jorge H (2014): Infographics: Unpublished US phase 3 clinical trials (2002-2014) completed before Jan 2011 = 50.8%. figshare.http://dx.doi.org/10.6084/m9.figshare.1121675 Raw data: "13377 studies found for: Completed | Interventional Studies | Phase 3 | received from 01/01/2002 to 01/01/2014 | Worldwide". This database complies with the terms and conditions of ClinicalTrials.gov: http://clinicaltrials.gov/ct2/about-site/terms-conditions Supplementary Figures (S1-S6). PubMed publication delay in the indexation processes does not explain the descending trends in the scientific output of evidence-based medicine. Acknowledgments I would like to acknowledge the following persons for providing valuable concepts in data visualization and infographics:
4. Maria Fernanda Ramírez. Professor of graphic design. Universidad del Valle. Cali, Colombia.
5. Lorena Franco. Graphic design student. Universidad del Valle. Cali, Colombia. Related articles by this author (Jorge H. Ramírez)
6. Ramirez JH. Lack of transparency in clinical trials: a call for action. Colomb Med (Cali) 2013;44(4):243-6. URL: http://www.ncbi.nlm.nih.gov/pubmed/24892242
7. Ramirez JH. Re: Evidence based medicine is broken (17 June 2014). http://www.bmj.com/node/759181
8. Ramirez JH. Re: Global rules for global health: why we need an independent, impartial WHO (19 June 2014). http://www.bmj.com/node/759151
9. Ramirez JH. PubMed publication trends (1992 to 2014): evidence based medicine and clinical practice guidelines (04 July 2014). http://www.bmj.com/content/348/bmj.g3725/rr/759895 Recommended articles
10. Greenhalgh Trisha, Howick Jeremy,Maskrey Neal. Evidence based medicine: a movement in crisis? BMJ 2014;348:g3725
11. Spence Des. Evidence based medicine is broken BMJ 2014; 348:g22
12. Schünemann Holger J, Oxman Andrew D,Brozek Jan, Glasziou Paul, JaeschkeRoman, Vist Gunn E et al. Grading quality of evidence and strength of recommendations for diagnostic tests and strategies BMJ 2008; 336:1106
13. Lau Joseph, Ioannidis John P A, TerrinNorma, Schmid Christopher H, OlkinIngram. The case of the misleading funnel plot BMJ 2006; 333:597
14. Moynihan R, Henry D, Moons KGM (2014) Using Evidence to Combat Overdiagnosis and Overtreatment: Evaluating Treatments, Tests, and Disease Definitions in the Time of Too Much. PLoS Med 11(7): e1001655. doi:10.1371/journal.pmed.1001655
15. Katz D. A-holistic view of evidence based medicinehttp://thehealthcareblog.com/blog/2014/05/02/a-holistic-view-of-evidence-based-medicine/ ---

United States agricultural researchers have many options for making their data available online. This dataset aggregates the primary sources of ag-related data and determines where researchers are likely to deposit their agricultural data. These data serve as both a current landscape analysis and also as a baseline for future studies of ag research data. Purpose As sources of agricultural data become more numerous and disparate, and collaboration and open data become more expected if not required, this research provides a landscape inventory of online sources of open agricultural data. An inventory of current agricultural data sharing options will help assess how the Ag Data Commons, a platform for USDA-funded data cataloging and publication, can best support data-intensive and multi-disciplinary research. It will also help agricultural librarians assist their researchers in data management and publication. The goals of this study were to establish where agricultural researchers in the United States-- land grant and USDA researchers, primarily ARS, NRCS, USFS and other agencies -- currently publish their data, including general research data repositories, _domain-specific databases, and the top journals compare how much data is in institutional vs. _domain-specific vs. federal platforms determine which repositories are recommended by top journals that require or recommend the publication of supporting data ascertain where researchers not affiliated with funding or initiatives possessing a designated open data repository can publish data Approach The National Agricultural Library team focused on Agricultural Research Service (ARS), Natural Resources Conservation Service (NRCS), and United States Forest Service (USFS) style research data, rather than ag economics, statistics, and social sciences data. To find _domain-specific, general, institutional, and federal agency repositories and databases that are open to US research submissions and have some amount of ag data, resources including re3data, libguides, and ARS lists were analysed. Primarily environmental or public health databases were not included, but places where ag grantees would publish data were considered. Search methods We first compiled a list of known _domain specific USDA / ARS datasets / databases that are represented in the Ag Data Commons, including ARS Image Gallery, ARS Nutrition Databases (sub-components), SoyBase, PeanutBase, National Fungus Collection, i5K Workspace @ NAL, and GRIN. We then searched using search engines such as Bing and Google for non-USDA / federal ag databases, using Boolean variations of “agricultural data” /“ag data” / “scientific data” + NOT + USDA (to filter out the federal / USDA results). Most of these results were _domain specific, though some contained a mix of data subjects. We then used search engines such as Bing and Google to find top agricultural university repositories using variations of “agriculture”, “ag data” and “university” to find schools with agriculture programs. Using that list of universities, we searched each university web site to see if their institution had a repository for their unique, independent research data if not apparent in the initial web browser search. We found both ag specific university repositories and general university repositories that housed a portion of agricultural data. Ag specific university repositories are included in the list of _domain-specific repositories. Results included Columbia University – International Research Institute for Climate and Society, UC Davis – Cover Crops Database, etc. If a general university repository existed, we determined whether that repository could filter to include only data results after our chosen ag search terms were applied. General university databases that contain ag data included Colorado State University Digital Collections, University of Michigan ICPSR (Inter-university Consortium for Political and Social Research), and University of Minnesota DRUM (Digital Repository of the University of Minnesota). We then split out NCBI (National Center for Biotechnology Information) repositories. Next we searched the internet for open general data repositories using a variety of search engines, and repositories containing a mix of data, journals, books, and other types of records were tested to determine whether that repository could filter for data results after search terms were applied. General subject data repositories include Figshare, Open Science Framework, PANGEA, Protein Data Bank, and Zenodo. Finally, we compared scholarly journal suggestions for data repositories against our list to fill in any missing repositories that might contain agricultural data. Extensive lists of journals were compiled, in which USDA published in 2012 and 2016, combining search results in ARIS, Scopus, and the Forest Service's TreeSearch, plus the USDA web sites Economic Research Service (ERS), National Agricultural Statistics Service (NASS), Natural Resources and Conservation Service (NRCS), Food and Nutrition Service (FNS), Rural Development (RD), and Agricultural Marketing Service (AMS). The top 50 journals' author instructions were consulted to see if they (a) ask or require submitters to provide supplemental data, or (b) require submitters to submit data to open repositories. Data are provided for Journals based on a 2012 and 2016 study of where USDA employees publish their research studies, ranked by number of articles, including 2015/2016 Impact Factor, Author guidelines, Supplemental Data?, Supplemental Data reviewed?, Open Data (Supplemental or in Repository) Required? and Recommended data repositories, as provided in the online author guidelines for each the top 50 journals. Evaluation We ran a series of searches on all resulting general subject databases with the designated search terms. From the results, we noted the total number of datasets in the repository, type of resource searched (datasets, data, images, components, etc.), percentage of the total database that each term comprised, any dataset with a search term that comprised at least 1% and 5% of the total collection, and any search term that returned greater than 100 and greater than 500 results. We compared _domain-specific databases and repositories based on parent organization, type of institution, and whether data submissions were dependent on conditions such as funding or affiliation of some kind. Results A summary of the major findings from our data review: Over half of the top 50 ag-related journals from our profile require or encourage open data for their published authors. There are few general repositories that are both large AND contain a significant portion of ag data in their collection. GBIF (Global Biodiversity Information Facility), ICPSR, and ORNL DAAC were among those that had over 500 datasets returned with at least one ag search term and had that result comprise at least 5% of the total collection. Not even one quarter of the _domain-specific repositories and datasets reviewed allow open submission by any researcher regardless of funding or affiliation. See included README file for descriptions of each individual data file in this dataset. Resources in this dataset:Resource Title: Journals. File Name: Journals.csvResource Title: Journals - Recommended repositories. File Name: Repos_from_journals.csvResource Title: TDWG presentation. File Name: TDWG_Presentation.pptxResource Title: Domain Specific ag data sources. File Name: domain_specific_ag_databases.csvResource Title: Data Dictionary for Ag Data Repository Inventory. File Name: Ag_Data_Repo_DD.csvResource Title: General repositories containing ag data. File Name: general_repos_1.csvResource Title: README and file inventory. File Name: README_InventoryPublicDBandREepAgData.txt

THE DATABASE CONTAINS THE DATA EXTRACTION FORM USED TO RECORD DATA FROM THE STUDIES INCLUDED IN THE REVIEW, WHICH JOURNAL, YEAR, AUTHORS, TITLE, GEOGRAPHIC AREA OF THE STUDY (WHO REGIONS), AND PARTICIPANTS’ INFORMATION (NUMBER AND MEAN AGE) WERE REPORTED. IN THIS FORM, DATA HAVE BEEN DIVIDED INTO 10 MAIN SECTIONS, ONE FOR EACH WHO PUBLIC HEALTH PILLAR. IN EACH SECTION, A DEFINITION OF THE PUBLIC HEALTH AREA COVERED BY THE PILLAR, THE TOTAL NUMBER OF ARTICLES LINKED TO THE PILLAR, THE TOTAL NUMBER OF AVAILABLE LESSONS CONNECTED TO EACH PILLAR, AS WELL AS THE TOTAL NUMBER OF REFERENCES TO EACH LESSON LEARNED WITHIN EACH PILLAR (WHICH CONSTITUTES THE MAIN RESULT) WAS INCLUDED.

This file contains all relevant publications, datasets and clinical trials from Dimensions that are related to COVID-19. The content has been exported from Dimensions using a query in the openly accessible Dimensions application, which you can access at https://covid-19.dimensions.ai/. Dimensions is updated once every 24 hours, so the latest research can be viewed alongside existing information. With its range of research outputs including datasets and clinical trials, both of which are just as important as journal articles in the face of a potential pandemic, Dimensions is a one-stop shop for all COVID-19 related information. Please share this information with anyone you think would benefit from it. If you have any suggestions as to how we can improve our search terms to maximise the volume of research related to COVID-19, please contact us at support@dimensions.ai.Please note: From October 2021 on the Dimensions COVID-19 dataset will continue to be updated only on Google BigQuery going forward. Please visit https://www.dimensions.ai/covid19/ on how to access the most current dataset.

Abstract Prognostics solutions for mission critical systems require a comprehensive methodology for proactively detecting and isolating failures, recommending and guiding condition-based maintenance actions, and estimating in real time the remaining useful life of critical components and associated subsystems. A major challenge has been to extend the benefits of prognostics to include computer servers and other electronic components. The key enabler for prognostics capabilities is monitoring time series signals relating to the health of executing components and subsystems. Time series signals are processed in real time using pattern recognition for proactive anomaly detection and for remaining useful life estimation. Examples will be presented of the use of pattern recognition techniques for early detection of a number of mechanisms that are known to cause failures in electronic systems, including: environmental issues; software aging; degraded or failed sensors; degradation of hardware components; degradation of mechanical, electronic, and optical interconnects. Prognostics pattern classification is helping to substantially increase component reliability margins and system availability goals while reducing costly sources of "no trouble found" events that have become a significant warranty-cost issue. Bios Aleksey Urmanov is a research scientist at Sun Microsystems. He earned his doctoral degree in Nuclear Engineering at the University of Tennessee in 2002. Dr. Urmanov's research activities are centered around his interest in pattern recognition, statistical learning theory and ill-posed problems in engineering. His most recent activities at Sun focus on developing health monitoring and prognostics methods for EP-enabled computer servers. He is a founder and an Editor of the Journal of Pattern Recognition Research. Anton Bougaev holds a M.S. and a Ph.D. degrees in Nuclear Engineering from Purdue University. Before joining Sun Microsystems Inc. in 2007, he was a lecturer in Nuclear Engineering Department and a member of Applied Intelligent Systems Laboratory (AISL), of Purdue University, West Lafayette, USA. Dr. Bougaev is a founder and the Editor-in-Chief of the Journal of Pattern Recognition Research. His current focus is in reliability physics with emphasis on complex system analysis and the physics of failures which are based on the data driven pattern recognition techniques.

Objective: To determine the top 100-ranked (by impact factor) clinical journals' policies toward publishing research previously published on preprint servers (preprints).

Design: Cross sectional. Main outcome measures: Editorial guidelines toward preprints, journal rank by impact factor.

Results: 86 (86%) of the journals examined will consider papers previously published as preprints (preprints), 13 (13%) determine their decision on a case-by-case basis, and 1 (1%) does not allow preprints.

Conclusions: We found wide acceptance of publishing preprints in the clinical research community, although researchers may still face uncertainty that their preprints will be accepted by all of their target journals.

Methods We examined journal policies of the 100 top-ranked clinical journals using the 2018 impact factors as reported by InCites Journal Citation Reports (JCR). First, we examined all journals with an impact factor greater than 5, and then we manually screened by title and category do identify the first 100 clinical journals. We included only those that publish original research. Next, we checked each journal's editorial policy on preprints. We examined, in order, the journal website, the publisher website, the Transpose Database, and the first 10 pages of a Google search with the journal name and the term "preprint." We classified each journal's policy, as shown in this dataset, as allowing preprints, determining based on preprint status on a case-by-case basis, and not allowing any preprints. We collected data on April 23, 2020.

(Full methods can also be found in previously published paper.)

Summary of major study findings.

We conducted an unmatched case-control study of 1,225,285 infants from a North Carolina Birth Cohort (2003-2015). Ozone and PM2.5 during critical exposure periods (gestational weeks 3-8) were estimated using residential address and a national spatiotemporal model at census tract centroid. Here we describe data sources for outcome (i.e., congenital heart defects) and exposure (i.e., ozone and PM2.5) data. This dataset is not publicly accessible because: EPA cannot release personally identifiable information regarding living individuals, according to the Privacy Act and the Freedom of Information Act (FOIA). This dataset contains information about human research subjects. Because there is potential to identify individual participants and disclose personal information, either alone or in combination with other datasets, individual level data are not appropriate to post for public access. Restricted access may be granted to authorized persons by contacting the party listed. It can be accessed through the following means: The North Carolina Birth Cohort data are not publicly available as it contains personal identifiable information. Data may be requested through the NCDHHS, Division of Public Health with proper approvals. Air pollutant concentrations for ozone and PM2.5 from the national spatiotemporal model are publicly available from EPA's website. Format: Birth certificate data from the State Center for Health Statistics of the NC Department of Health and Human Services linked with data from the Birth Defects Monitoring Program (NC BDMP) to create a birth cohort of all infants born in NC between 2003-2015. The NC BDMP is an active surveillance system that follows NC births to obtain birth defect diagnoses up to 1 year after the date of birth as well as identify infant deaths during the first year of life and include relevant information from the death certificate. A national spatiotemporal model provided data on predicted ozone PM2.5 concentrations over critical prenatal and time periods. The prediction model used data from research and regulatory monitors as well as a large (>200) array of geographic covariates to create fine scale spatial and temporal predictions. The model has a cross-validated R2 of 0.89 for PM2.5. Concentrations were predicted for daily throughout the study period at the centroid of each 2010 census tract in NC. This dataset is associated with the following publication: Arogbokun, O., T. Luben, J. Stingone, L. Engel, C. Martin, and A. Olshan. Racial disparities in maternal exposure to ambient air pollution during pregnancy and prevalence of congenital heart defects. AMERICAN JOURNAL OF EPIDEMIOLOGY. Johns Hopkins Bloomberg School of Public Health, 194(3): 709-721, (2025).

News dissemination plays a vital role in supporting people to incorporate beneficial actions during public health emergencies, thereby significantly reducing the adverse influences of events. Based on big data from YouTube, this research study takes the declaration of COVID-19 National Public Health Emergency (PHE) as the event impact and employs a DiD model to investigate the effect of PHE on the news dissemination strength of relevant videos. The study findings indicate that the views, comments, and likes on relevant videos significantly increased during the COVID-19 public health emergency. Moreover, the public’s response to PHE has been rapid, with the highest growth in comments and views on videos observed within the first week of the public health emergency, followed by a gradual decline and returning to normal levels within four weeks. In addition, during the COVID-19 public health emergency, in the context of different types of media, lifestyle bloggers, local media, and institutional media demonstrated higher growth in the news dissemination strength of relevant videos as compared to news & political bloggers, foreign media, and personal media, respectively. Further, the audience attracted by related news tends to display a certain level of stickiness, therefore this audience may subscribe to these channels during public health emergencies, which confirms the incentive mechanisms of social media platforms to foster relevant news dissemination during public health emergencies. The proposed findings provide essential insights into effective news dissemination in potential future public health events.

Background This bibliometric analysis examines the top 50 most-cited articles on COVID-19 complications, offering insights into the multifaceted impact of the virus. Since its emergence in Wuhan in December 2019, COVID-19 has evolved into a global health crisis, with over 770 million confirmed cases and 6.9 million deaths as of September 2023. Initially recognized as a respiratory illness causing pneumonia and ARDS, its diverse complications extend to cardiovascular, gastrointestinal, renal, hematological, neurological, endocrinological, ophthalmological, hepatobiliary, and dermatological systems. Methods Identifying the top 50 articles from a pool of 5940 in Scopus, the analysis spans November 2019 to July 2021, employing terms related to COVID-19 and complications. Rigorous review criteria excluded non-relevant studies, basic science research, and animal models. The authors independently reviewed articles, considering factors like title, citations, publication year, journal, impact fa..., A bibliometric analysis of the most cited articles about COVID-19 complications was conducted in July 2021 using all journals indexed in Elsevier’s Scopus and Thomas Reuter’s Web of Science from November 1, 2019 to July 1, 2021. All journals were selected for inclusion regardless of country of origin, language, medical speciality, or electronic availability of articles or abstracts. The terms were combined as follows: (“COVID-19†OR “COVID19†OR “SARS-COV-2†OR “SARSCOV2†OR “SARS 2†OR “Novel coronavirus†OR “2019-nCov†OR “Coronavirus†) AND (“Complication†OR “Long Term Complication†OR “Post-Intensive Care Syndrome†OR “Venous Thromboembolism†OR “Acute Kidney Injury†OR “Acute Liver Injury†OR “Post COVID-19 Syndrome†OR “Acute Cardiac Injury†OR “Cardiac Arrest†OR “Stroke†OR “Embolism†OR “Septic Shock†OR “Disseminated Intravascular Coagulation†OR “Secondary Infection†OR “Blood Clots† OR “Cytokine Release Syndrome†OR “Paediatric Inflammatory Multisystem Syndrome†OR “Vaccine..., , # Data of top 50 most cited articles about COVID-19 and the complications of COVID-19

This dataset contains information about the top 50 most cited articles about COVID-19 and the complications of COVID-19. We have looked into a variety of research and clinical factors for the analysis.

Description of the data and file structure

The data sheet offers a comprehensive analysis of the selected articles. It delves into specifics such as the publication year of the top 50 articles, the journals responsible for publishing them, and the geographical region with the highest number of citations in this elite list. Moreover, the sheet sheds light on the key players involved, including authors and their affiliated departments, in crafting the top 50 most cited articles.

Beyond these fundamental aspects, the data sheet goes on to provide intricate details related to the study types and topics prevalent in the top 50 articles. To enrich the analysis, it incorporates clinical data, capturing...

Dataset with annotated 12-lead ECG records. The exams were taken in 811 counties in the state of Minas Gerais/Brazil by the Telehealth Network of Minas Gerais (TNMG) between 2010 and 2016. And organized by the CODE (Clinical outcomes in digital electrocardiography) group. Requesting access Researchers affiliated to educational or research institutions might make requests to access this data dataset. Requests will be analyzed on an individual basis and should contain: Name of PI and host organisation; Contact details (including your name and email); and, the scientific purpose of data access request. If approved, a data user agreement will be forwarded to the researcher that made the request (through the email that was provided). After the agreement has been signed (by the researcher or by the research institution) access to the dataset will be granted. Openly available subset: A subset of this dataset (with 15% of the patients) is openly available. See: "CODE-15%: a large scale annotated dataset of 12-lead ECGs" https://doi.org/10.5281/zenodo.4916206. Content The folder contains: A column separated file containing basic patient attributes. The ECG waveforms in the wfdb format. Additional references The dataset is described in the paper "Automatic diagnosis of the 12-lead ECG using a deep neural network". https://www.nature.com/articles/s41467-020-15432-4. Related publications also using this dataset are: - [1] G. Paixao et al., “Validation of a Deep Neural Network Electrocardiographic-Age as a Mortality Predictor: The CODE Study,” Circulation, vol. 142, no. Suppl_3, pp. A16883–A16883, Nov. 2020, doi: 10.1161/circ.142.suppl_3.16883.- [2] A. L. P. Ribeiro et al., “Tele-electrocardiography and bigdata: The CODE (Clinical Outcomes in Digital Electrocardiography) study,” Journal of Electrocardiology, Sep. 2019, doi: 10/gf7pwg.- [3] D. M. Oliveira, A. H. Ribeiro, J. A. O. Pedrosa, G. M. M. Paixao, A. L. P. Ribeiro, and W. Meira Jr, “Explaining end-to-end ECG automated diagnosis using contextual features,” in Machine Learning and Knowledge Discovery in Databases. European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML-PKDD), Ghent, Belgium, Sep. 2020, vol. 12461, pp. 204--219. doi: 10.1007/978-3-030-67670-4_13.- [4] D. M. Oliveira, A. H. Ribeiro, J. A. O. Pedrosa, G. M. M. Paixao, A. L. Ribeiro, and W. M. Jr, “Explaining black-box automated electrocardiogram classification to cardiologists,” in 2020 Computing in Cardiology (CinC), 2020, vol. 47. doi: 10.22489/CinC.2020.452.- [5] G. M. M. Paixão et al., “Evaluation of mortality in bundle branch block patients from an electronic cohort: Clinical Outcomes in Digital Electrocardiography (CODE) study,” Journal of Electrocardiology, Sep. 2019, doi: 10/dcgk.- [6] G. M. M. Paixão et al., “Evaluation of Mortality in Atrial Fibrillation: Clinical Outcomes in Digital Electrocardiography (CODE) Study,” Global Heart, vol. 15, no. 1, p. 48, Jul. 2020, doi: 10.5334/gh.772.- [7] G. M. M. Paixão et al., “Electrocardiographic Predictors of Mortality: Data from a Primary Care Tele-Electrocardiography Cohort of Brazilian Patients,” Hearts, vol. 2, no. 4, Art. no. 4, Dec. 2021, doi: 10.3390/hearts2040035.- [8] G. M. Paixão et al., “ECG-AGE FROM ARTIFICIAL INTELLIGENCE: A NEW PREDICTOR FOR MORTALITY? THE CODE (CLINICAL OUTCOMES IN DIGITAL ELECTROCARDIOGRAPHY) STUDY,” Journal of the American College of Cardiology, vol. 75, no. 11 Supplement 1, p. 3672, 2020, doi: 10.1016/S0735-1097(20)34299-6.- [9] E. M. Lima et al., “Deep neural network estimated electrocardiographic-age as a mortality predictor,” Nature Communications, vol. 12, 2021, doi: 10.1038/s41467-021-25351-7.- [10] W. Meira Jr, A. L. P. Ribeiro, D. M. Oliveira, and A. H. Ribeiro, “Contextualized Interpretable Machine Learning for Medical Diagnosis,” Communications of the ACM, 2020, doi: 10.1145/3416965.- [11] A. H. Ribeiro et al., “Automatic diagnosis of the 12-lead ECG using a deep neural network,” Nature Communications, vol. 11, no. 1, p. 1760, 2020, doi: 10/drkd.- [12] A. H. Ribeiro et al., “Automatic Diagnosis of Short-Duration 12-Lead ECG using a Deep Convolutional Network,” Machine Learning for Health (ML4H) Workshop at NeurIPS, 2018.- [13] A. H. Ribeiro et al., “Automatic 12-lead ECG classification using a convolutional network ensemble,” 2020. doi: 10.22489/CinC.2020.130.- [14] V. Sangha et al., “Automated Multilabel Diagnosis on Electrocardiographic Images and Signals,” medRxiv, Sep. 2021, doi: 10.1101/2021.09.22.21263926.- [15] S. Biton et al., “Atrial fibrillation risk prediction from the 12-lead ECG using digital biomarkers and deep representation learning,” European Heart Journal - Digital Health, 2021, doi: 10.1093/ehjdh/ztab071. Code: The following github repositories perform analysis that use this dataset: - https://github.com/antonior92/automatic-ecg-diagnosis- https://github.com/antonior92/ecg-age-prediction Related Datasets: - CODE-test: An annotated 12-lead ECG dataset (https://doi.org/10.5281/zenodo.3765780)- CODE-15%: a large scale annotated dataset of 12-lead ECGs (https://doi.org/10.5281/zenodo.4916206)- Sami-Trop: 12-lead ECG traces with age and mortality annotations (https://doi.org/10.5281/zenodo.4905618) Ethics declarations The CODE Study was approved by the Research Ethics Committee of the Universidade Federal de Minas Gerais, protocol 49368496317.7.0000.5149.

Request I believe the above scheme needs to be put in place urgently. Can you please answer the following questions: 1. How many people have applied to you for Ill Health Retirement with Long Covid? 2. How many people have been rejected for Tier One and/or Tier Two levels of IHR when applying with Long Covid? 3. What evidence (listing guidance and research evidence) are being used to reject or confirm applications for IHR with Long Covid? Response Question 1 & 2 A copy of the information is attached. Question 3 Each Scheme Medical Adviser (SMA) is expected to adopt evidence-based practice in arriving at a decision. They do this by combining the following: Medical evidence provided in the Scheme member’s application, Further medical evidence that the SMA may have requested from the Scheme member’s treating healthcare professionals, Information that the employer may have provided in Part A of Form AW33E (e.g. demands of the work duties, any workplace adjustments tried, and the effectiveness of such adjustments), Information that the Scheme member may have provided in Part B of Form AW33E (for example, how long COVID affects them), Current medical literature on long COVID, And the SMA’s occupational health expertise. When assessing ill-health retirement applications from scheme members who have long COVID, the SMA might consult the following guidance and research evidence: • The Society of Occupational Medicine (SOM): ‘Long COVID and Return to Work – What Works?’ (https://www.som.org.uk/sites/som.org.uk/files/Long_COVID_and_Return_to_Work_What_Works_0.pdf) • The Faculty of Occupational Medicine (FOM): ‘Guidance for healthcare professionals on return to work for patients with post-COVID syndrome’ (https://www.fom.ac.uk/wp-content/uploads/FOM-Guidance-post-COVID_healthcare-professionals.pdf) • Occupational and Environmental Medicine (academic journal of the FOM: https://oem.bmj.com) • Occupational Medicine (academic journal of the SOM: https://academic.oup.com/occmed?login=false) • Industrial Injuries Advisory Council publication: ‘COVID-19 and Occupational Impacts’ (https://assets.publishing.service.gov.uk/government/uploads/system/uploads/attachment_data/file/1119955/covid-19-and-occupational-impacts.pdf) • NICE: https://cks.nice.org.uk/topics/long-term-effects-of-coronavirus-long-covid • Nature. An example of a recent publication in this journal is Davis, H., McCorkell, L., Vogel, J. M., & Topol, E. J. (2023). Long covid: major findings, mechanisms and recommendations. Nature Reviews Microbiology, 21(3), 133-146. Full text available at https://www.nature.com/articles/s41579-022-00846-2 • British Medical Journal (BMJ) • Journal of the American Medical Association (JAMA) • The Lancet • New England Journal of Medicine In summary, the SMA is expected to adopt an individual approach to each case and use careful clinical judgement when applying the medical research literature and guidance to the specific medical circumstances of a Scheme member with long COVID. Data Queries If you have any queries regarding the data provided, or if you plan on publishing the data please contact foirequests@nhsbsa.nhs.uk ensuring you quote the above reference. This is important to ensure that the figures are not misunderstood or misrepresented. If you plan on producing a press or broadcast story based upon the data please contact communicationsteam@nhsbsa.nhs.uk This is important to ensure that the figures are not misunderstood or misrepresented.

A system for producing indexing recommendations to assist in the indexing process at NLM. Currently provides indexing recommendations to more than 100 journals based on the NLM Medical Subject Headings (MeSH) vocabulary.

MTI is the main product of the Indexing Initiative project and has been providing indexing recommendations based on the Medical Subject Headings (MeSH®) vocabulary since 2002. In 2011, NLM expanded MTI's role by designating it as the first-line indexer (MTIFL) for a few journals; today the MTIFL workflow includes over 350 journals and continues to increase. The close collaboration of the NLM Index Section, Lister Hill National Center for Biomedical Communications, and Office of Computer & Communications Systems continues to expand and refine the ability of MTI to provide assistance to the indexers.

About

The COTIDIANA Dataset is a holistic, multimodal, and multidimensional dataset that captures three dimensions in which patients are frequently impacted by Rheumatic and Musculoskeletal Diseases (RMDs), namely, (a) mobility and physical activity, due to joint stiffness, fatigue, or pain; (b) finger dexterity, due to finger joint stiffness or pain; or (c) mental health (anxiety/depression level), due to the functional impairments or pain.

We release this dataset to facilitate research in rheumatology, while contributing to the characterisation of RMD patients using smartphone-based sensor and log data.

We gathered smartphone and self-reported data from 31 patients with RMDs and 28 age-matched controls, including (i) inertial sensors, (ii) keyboard metrics, (iii) communication logs, and (iv) reference tests/scales. We provide both raw and (pre-)processed dataset versions, to enable researchers or developers to use their own methods or benefit from the computed variables. Additional materials containing (a) illustrations, (b) visualization charts, and (c) variable descriptions can be consulted through this link.

Citing

When using this dataset, please cite P. Matias, R. Araújo, R. Graça, A. R. Henriques, D. Belo, M. Valada, N. N. Lotfi, E. Frazão Mateus, H. Radner, A. M. Rodrigues, P. Studenic, F. Nunes (2024) COTIDIANA Dataset – Smartphone-Collected Data on the Mobility, Finger Dexterity, and Mental Health of People With Rheumatic and Musculoskeletal Diseases, in IEEE Journal of Biomedical and Health Informatics, vol. 28, no. 11, pp. 6538-6547, DOI: 10.1109/JBHI.2024.3456069.

Data structure

The data is organised by participant and includes:

• Inertial Sensor Data, retrieved from accelerometer, gyroscope, and magnetometer sensors collected during three distinct walking exercises (Timed Up and Go, Daily Living Activity, and Simple Walk);

• Keyboard Dynamic Metrics, collecting 38 raw variables related with the keyboard typing performance while writing 10 sentences (e.g., number of errors, words-per-minute);

• Communication Logs, e.g., with weekly averages of number of calls and SMS sent or received;

• Validated Clinical Questionnaires, such as general Health (EQ-5D-5L), Multidimensional Health Assessment Questionnaire (MDHAQ), Hospital Anxiety and Depression Scale (HADS);

• Validated Functional Tests, including time to perform the Timed Up and Go (TUG) and Moberg Pick-Up Test (fine motor skills);

• Characterization Questionnaire, containing sociodemographic and clinical information.

cotidiana_dataset
├── info
│ ├── codebook.xlsx
│ ├── missings_report.csv
├── processed
│ ├── com_calls
│ │ └── features.csv
│ ├── com_sms
│ │ └── features.csv
│ ├── full
│ │ └── cotidiana_dataset.csv
│ ├── hd_kst
│ │ └── features.csv
│ ├── hd_mpu
│ │ └── features.csv
│ ├── mob_dla
│ │ └── features.csv
│ ├── mob_sw
│ │ └── features.csv
│ ├── mob_tug
│ │ └── features.csv
│ ├── quest
│ └── features.csv
├── raw
│ ├── com_calls
│ │ └── p[0-58]
│ │ └── calls_log.csv
│ ├── com_sms
│ │ └── p[0-58]
│ │ └── sms_log.csv
│ ├── hd_kst
│ │ └── p[0-58]
│ │ ├── imu
│ │ │ ├── Accelerometer_s[0-9].csv
│ │ │ ├── Gyroscope_s[0-9].csv
│ │ │ └── Magnetometer_s[0-9].csv
│ │ └── keyboard
│ │ └── kb_metrics.csv
│ ├── hd_mpu
│ │ └── p[0-58]
│ │ └── mpu_time.csv
│ ├── mob_dla
│ │ └── p[0-58]
│ │ ├── bag
│ │ │ ├── Accelerometer.csv
│ │ │ ├── Gyroscope.csv
│ │ │ ├── Magnetometer.csv
│ │ │ └── Annotation.csv
│ │ └── pocket
│ │ ├── Accelerometer.csv
│ │ ├── Gyroscope.csv
│ │ ├── Magnetometer.csv
│ │ └── Annotation.csv
│ ├── mob_sw
│ │ └── p[0-58]
│ │ ├── ann
│ │ │ └── walk_ann.csv
│ │ ├── bag
│ │ │ ├── Accelerometer.csv
│ │ │ ├── Gyroscope.csv
│ │ │ ├── Magnetometer.csv
│ │ │ └── Annotation.csv
│ │ └── pocket
│ │ ├── Accelerometer.csv
│ │ ├── Gyroscope.csv
│ │ ├── Magnetometer.csv
│ │ └── Annotation.csv
│ ├── mob_tug
│ │ └── p[0-58]
│ │ ├── bag
│ │ │ ├── Accelerometer.csv
│ │ │ ├── Gyroscope.csv
│ │ │ ├── Magnetometer.csv
│ │ │ └── Annotation.csv
│ │ └── pocket
│ │ ├── Accelerometer.csv
│ │ ├── Gyroscope.csv
│ │ ├── Magnetometer.csv
│ │ └── Annotation.csv
│ ├── quest
│ └── features.csv

Overview

MicrobiomeHD is a standardized database of human gut microbiome studies in health and disease. This database includes publicly available 16S data from published case-control studies and their associated patient metadata. Raw sequencing data for each study was downloaded and processed through a standardized pipeline.

To be included in MicrobiomeHD, datasets have:

• publicly available raw sequencing data (fastq or fasta)
• publicly available metadata with at least case and control labels for each patient
• at least 15 case patients

Currently, MicrobiomeHD is focused on stool samples. Additional samples may be included in certain datasets, as indicated in the metadata.

Files

Additional information about the datasets included in this MicrobiomeHD release are in the MicrobiomeHD github repo https://github.com/cduvallet/microbiomeHD, in the file db/dataset_info.yaml. Top-level identifiers correspond to the dataset IDs used in Duvallet et al. 2017. Sample sizes in the yaml file are those that were described in the papers, and may not exactly reflect the actual data (due to missing/extra data, samples which didn't pass quality control, etc).

Each dataset was downloaded and processed through a standardized pipeline. The raw processing results are available in the *.tar.gz files here. Each file has the same directory structure and files, as described in the pipeline documentation: http://amplicon-sequencing-pipeline.readthedocs.io/en/latest/output.html.

Specific files of interest include:

• summary_file.txt: this file contains a summary of all parameters used to process the data
• datasetID.metadata.txt: the metadata associated with the samples. Note that some samples in the metadata may not have sequencing data, and vice versa.
• RDP/datasetID.otu_table.100.denovo.rdp_assigned: the 100% OTU tables with Latin taxonomic names assigned using the RDP classifier.
• datasetID.otu_seqs.100.fasta: representative sequences for each OTU in the 100% OTU table. OTU labels in the OTU table end with d_denovoID - these denovoIDs correspond to the sequences in this file. Processing

The raw data was acquired as described in the supplementary materials of Duvallet et al.'s "Meta analysis of microbiome studies identifies shared and disease-specific patterns".

Raw sequencing data was processed with the Alm lab's in-house 16S processing pipeline: https://github.com/thomasgurry/amplicon_sequencing_pipeline

Pipeline documentation is available at: http://amplicon-sequencing-pipeline.readthedocs.io/

Metadata was extracted from the original papers and/or data sources, and formatted manually.

Contributing

MicrobiomeHD is a resource that can be used to extract disease-specific microbiome signals in individual case-control studies. Many microbes respond non-specifically to health and disease, and the majority of bacterial associations within individual studies overlap with this "core" response. Researchers should cross-check their results with the data presented here to ensure that their identified microbial associations are specific to their disease under study.

We provide an updated list of "core" microbes here, as well as the raw OTU tables for anyone who wishes to reproduce and adapt this analysis to their study question.

If you would like to include your case-control dataset in MicrobiomeHD, please email duvallet[at]mit.edu.

For us to process your data through our standard pipeline, you will need to provide the following files and information about your data:

• raw sequencing data in fastq or fasta format (preferably fastq)
• information about which processing steps will be required (e.g. removing primers or barcodes, merging paired-end reads, etc)
• sample IDs associated with the sequencing data (either mapped to barcodes still in the sequences, or to each de-multiplexed sequencing file)
• case/control metadata of each sample
• other relevant metadata (e.g. sampling site, if not all samples are stool; sampling time point, if multiple samples per patient were taken; etc)

By using MicrobiomeHD in your own analyses, you agree to contribute your dataset to this database and to make your raw sequencing data (i.e. fastq files) publicly available.

Citing MicrobiomeHD

The MicrobiomeHD database and original publications for each of these datasets are described in Duvallet et al. (2017): http://biorxiv.org/content/early/2017/05/08/134031

If you use any of these datasets in your analysis, please cite both MicrobiomeHD (Duvallet et al. (2017)) and the original publication for each dataset that you use.

The code used to process and analyze this data in Duvallet et al. (2017) is available on github: https://github.com/cduvallet/microbiomeHD

Files

Core genera

file-S3.core_genera.txt: Supplemental Table 3 from Duvallet et al. (2017), listing the core health- and disease-associated microbes.

Datasets

Note that MicrobiomeHD contains all 28 datasets from Duvallet et al. (2017), as well as additional datasets which did not meet the inclusion criteria for the meta-analysis presented in the paper. Additional information about the datasets included in this MicrobiomeHD release are in the original publications and the MicrobiomeHD github repo https://github.com/cduvallet/microbiomeHD, in the file db/dataset_info.yaml.

The sample sizes listed here reflect what was reported in the original publications. Some may have discrepancies between what is reported and what is in the actual data due to missing data, quality issues, barcode mismatches, etc.

• asd_son_results.tar.gz (asd_son): NT: 44, ASD: 59
  • http://dx.doi.org/10.1371/journal.pone.0137725

  </li>
  <li><strong>autism_kb_results.tar.gz</strong> (<em>asd_kang</em>): H: 20, ASD: 20
  <ul>
    <li>http://dx.doi.org/10.1371/journal.pone.0068322</li>
  </ul>
  </li>
  <li><strong>cdi_schubert_results.tar.gz</strong> (<em>noncdi_schubert</em>): H: 155, nonCDI: 89, CDI: 94
  <ul>
    <li>http://dx.doi.org/10.1128/mBio.01021-14</li>
  </ul>
  </li>
  <li><strong>cdi_vincent_v3v5_results.tar.gz</strong> (<em>cdi_vincent</em>): H: 25, CDI: 25
  <ul>
    <li>http://dx.doi.org/10.1186/2049-2618-1-18</li>
  </ul>
  </li>
  <li><strong>cdi_youngster_results.tar.gz</strong> (<em>cdi_youngster</em>): H: 4, CDI: 19
  <ul>
    <li>http://dx.doi.org/10.1093/cid/ciu135</li>
  </ul>
  </li>
  <li><strong>crc_baxter_results.tar.gz</strong> (<em>crc_baxter</em>): adenoma: 198, H: 172, CRC: 120
  <ul>
    <li>http://dx.doi.org/10.1186/s13073-016-0290-3</li>
  </ul>
  </li>
  <li><strong>crc_xiang_results.tar.gz</strong> (<em>crc_chen</em>): H: 22, CRC: 21
  <ul>
    <li>http://dx.doi.org/10.1371/journal.pone.0039743</li>
  </ul>
  </li>
  <li><strong>crc_zackular_results.tar.gz</strong> (<em>crc_zackular</em>): adenoma: 30, H: 30, CRC: 30
  <ul>
    <li>http://dx.doi.org/10.1158/1940-6207.CAPR-14-0129</li>
  </ul>
  </li>
  <li><strong>crc_zeller_results.tar.gz</strong> (<em>crc_zeller</em>): H: 75, CRC: 41
  <ul>
    <li>http://dx.doi.org/10.15252/msb.20145645</li>
  </ul>
  </li>
  <li><strong>crc_zhao_results.tar.gz</strong> (<em>crc_wang</em>): H: 56, CRC: 46
  <ul>
    <li>http://dx.doi.org/10.1038/ismej.2011.109}</li>
  </ul>
  </li>
  <li><strong>edd_singh_results.tar.gz</strong> (<em>edd_singh</em>): STEC: 28, CAMP: 71, SALM: 66, SHIG: 34, H: 75
  <ul>
    <li>http://dx.doi.org/10.1186/s40168-015-0109-2</li>
  </ul>
  </li>
  <li><strong>hiv_dinh_results.tar.gz</strong> (<em>hiv_dinh</em>): H: 16, HIV: 21
  <ul>
    <li>http://dx.doi.org/10.1093/infdis/jiu409</li>
  </ul>
  </li>
  <li><strong>hiv_lozupone_results.tar.gz</strong> (<em>hiv_lozupone</em>): H: 13, HIV: 25
  <ul>
    <li>http://dx.doi.org/10.1016/j.chom.2013.08.006</li>
  </ul>
  </li>
  <li><strong>hiv_noguerajulian_results.tar.gz</strong> (<em>hiv_noguerajulian</em>): H: 34, HIV: 206
  <ul>
    <li>https://doi.org/10.1016%2Fj.ebiom.2016.01.032</li>
  </ul>
  </li>
  <li><strong>ibd_alm_results.tar.gz</strong> (<em>ibd_papa</em>): IBDundef: 1, nonIBD: 24, UC: 43, CD: 23
  <ul>
    <li>http://dx.doi.org/10.1371/journal.pone.0039242</li>
  </ul>
  </li>
  <li><strong>ibd_engstrand_maxee_results.tar.gz</strong> (<em>ibd_willing</em>): CCD: 12, H: 35, ICD: 15, UC: 16, ICCD: 2
  <ul>
    <li>http://dx.doi.org/10.1053/j.gastro.2010.08.049</li>
  </ul>
  </li>
  <li><strong>ibd_gevers_2014_results.tar.gz</strong> (<em>ibd_gevers</em>): H: 31, CD: 224
  <ul>
    <li>http://dx.doi.org/10.1016/j.chom.2014.02.005</li>
  </ul>
  </li>
  <li><strong>ibd_huttenhower_results.tar.gz</strong> (<em>ibd_morgan</em>): H: 18, UC: 48, CD: 62
  <ul>
    <li>http://dx.doi.org/10.1186/gb-2012-13-9-r79</li>
  </ul>
  </li>
  <li><strong>mhe_zhang_results.tar.gz</strong> (<em>liv_zhang</em>): CIRR: 25, H: 26, MHE: 26
  <ul>
    <li>http://dx.doi.org/10.1038/ajg.2013.221</li>
  </ul>
  </li>
  <li><strong>nash_chan_results.tar.gz</strong> (<em>nash_wong</em>): H: 22, NASH: 16
  <ul>
    <li>http://dx.doi.org/10.1371/journal.pone.0062885</li>
  </ul>
  </li>
  <li><strong>nash_ob_baker_results.tar.gz</strong> (<em>nash_zhu</em>): H: 16, NASH: 22, OB: 25
  <ul>
    <li>http://dx.doi.org/10.1002/hep.26093</li>
  </ul>
  </li>
  <li><strong>ob_goodrich_results.tar.gz</strong> (<em>ob_goodrich</em>): OW: 322, H: 433, OB: 183
  <ul>
    <li>http://dx.doi.org/10.1016/j.cell.2014.09.053</li>
  </ul>
  </li>
  <li><strong>ob_gordon_2008_v2_results.tar.gz</strong> (<em>ob_turnbaugh</em>): H: 61, OB:
  

Data from influenza A virus (IAV) infected ferrets (Mustela putorius furo) provides invaluable information towards the study of novel and emerging viruses that pose a threat to human health. This gold standard animal model can recapitulate many clinical signs of infection present in IAV-infected humans, support virus replication of human and zoonotic strains without prior adaptation, and permit evaluation of virus transmissibility by multiple modes. While ferrets have been employed in risk assessment settings for >20 years, results from this work are typically reported in discrete stand-alone publications, making aggregation of raw data from this work over time nearly impossible. Here, we describe a dataset of 746 ferrets inoculated with 129 unique IAV, conducted by a single research group (NCIRD/ID/IPB/Pathogenesis Laboratory Team) under a uniform experimental protocol. This collection of morbidity, mortality, and viral titer data represents the largest publicly available dataset to date of in vivo-generated IAV infection outcomes on a per-individual ferret level.

Published Data Descriptor for more information: Kieran TJ, Sun X, Creager HM, Tumpey TM, Maine TR, Belser JA. 2024. An aggregated dataset of serial morbidity and titer measurements from influenza A virus-infected ferrets. Sci Data 11, 510. https://doi.org/10.1038/s41597-024-03256-6

Additional publications using and describing data: Kieran TJ, Sun X, Maines TR, Beauchemin CAA, Belser JA. 2024. Exploring associations between viral titer measurements and disease outcomes in ferrets inoculated with 125 contemporary influenza A viruses. J Virol. 98:e01661-23. https://doi.org/10.1128/jvi.01661-23

Belser JA, Kieran TJ, Mitchell ZA, Sun X, Mayfield K, Tumpey TM, Spengler JR, Maines TR. 2024. Key considerations to improve the normalization, interpretation and reproducibility of morbidity data in mammalian models of viral disease. Dis Model Mech; 17 (3): dmm050511. https://doi.org/10.1242/dmm.050511

Kieran TJ, Sun X, Maines TR, Belser JA. 2024. Machine learning approaches for influenza A virus risk assessment identifies predictive correlates using ferret model in vivo data. Communications Biology 7, 927. https://doi.org/10.1038/s42003-024-06629-0

Additional publications supporting responsible use and interpretation of data by others: Kieran TJ, Maine TR, Belser JA. 2025. Eleven quick tips to unlock the power of in vivo data science. PLoS Comput Biol, 21(4):e1012947. https://doi.org/10.1371/journal.pcbi.1012947

Kieran TJ, Maine TR, Belser JA. 2025. Data alchemy, from lab to insight: Transforming in vivo experiments into data science gold. PLoS Pathog, 20(8):e1012460. https://doi.org/10.1371/journal.ppat.1012460

Change / Update Log: Nov 7, 2024: Corrected typographical errors in Origin column for A/Ohio/13/2017 and A/Hawaii/28/2020

July 1, 2025: Added 3 viruses (A/Texas/36/1991, A/Texas/37/2024, A/Michigan/90/2024, total n=18 new rows)

Journal of Clinical Periodontology CiteScore 2024-2025 - ResearchHelpDesk - Journal of Clinical Periodontology was founded by the British, Dutch, French, German, Scandinavian, and Swiss Societies of Periodontology. The aim of the Journal of Clinical Periodontology is to provide the platform for exchange of scientific and clinical progress in the field of Periodontology and allied disciplines, and to do so at the highest possible level. The Journal also aims to facilitate the application of new scientific knowledge to the daily practice of the concerned disciplines and addresses both practicing clinicians and academics. The Journal is the official publication of the European Federation of Periodontology but wishes to retain its international scope. The Journal publishes original contributions of high scientific merit in the fields of periodontology and implant dentistry. Its scope encompasses the physiology and pathology of the periodontium, the tissue integration of dental implants, the biology and the modulation of periodontal and alveolar bone healing and regeneration, diagnosis, epidemiology, prevention and therapy of periodontal disease, the clinical aspects of tooth replacement with dental implants, and the comprehensive rehabilitation of the periodontal patient. Review articles by experts on new developments in basic and applied periodontal science and associated dental disciplines, advances in periodontal or implant techniques and procedures, and case reports which illustrate important new information are also welcome. Keywords periodontology, periodontium, periodontal, periodontal disease, periodontal science, instrumentation, physiology, pathology Abstracting and Indexing Information Abstracts on Hygiene & Communicable Diseases (CABI) Academic Search (EBSCO Publishing) Academic Search Alumni Edition (EBSCO Publishing) Academic Search Premier (EBSCO Publishing) Biocontrol News & Information (CABI) Biological Science Database (ProQuest) Botanical Pesticides (CABI) CAB Abstracts® (CABI) CAS: Chemical Abstracts Service (ACS) Current Contents: Clinical Medicine (Clarivate Analytics) Dairy Science Abstracts (CABI) Global Health (CABI) Health & Medical Collection (ProQuest) Health Research Premium Collection (ProQuest) HEED: Health Economic Evaluations Database (Wiley-Blackwell) Hospital Premium Collection (ProQuest) Journal Citation Reports/Science Edition (Clarivate Analytics) Leisure, Recreation & Tourism Abstracts (CABI) MEDLINE/PubMed (NLM) Natural Science Collection (ProQuest) Nutrition Abstracts & Reviews Series A: Human & Experimental (CABI) ProQuest Central (ProQuest) Public Health Database (ProQuest) PubMed Dietary Supplement Subset (NLM) Research Alert (Clarivate Analytics) Review of Aromatic & Medicinal Plants (CABI) Review of Medical & Veterinary Mycology (CABI) Rural Development Abstracts (CABI) Science Citation Index (Clarivate Analytics) Science Citation Index Expanded (Clarivate Analytics) SciTech Premium Collection (ProQuest) Soybean Abstracts Online (CABI) Sugar Industry Abstracts (CABI) Tropical Diseases Bulletin (CABI) Veterinary Bulletin (CABI)

Main results of meta-analysis.