- Jul 2023
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www.biorxiv.org www.biorxiv.org
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- Title
- The landscape of biomedical research
- Authors
- Rita González-Márquez,
- Luca Schmidt,
- Benjamin M. Schmidt,
- Philipp Berens
- Dmitry Kobak
- Date
- April 11, 2023
- Source
- Abstract
- The number of publications in biomedicine and life sciences
- has rapidly grown over the last decades,
- with over 1.5 million papers now published every year.
- This makes it difficult to
- keep track of new scientific works and
- to have an overview of the evolution of the field as a whole.
- Here we
- present a 2D atlas of the entire corpus of biomedical literature, and
- argue that it provides
- a unique and
- useful overview
- of the life sciences research.
- We base our atlas on the abstract texts of
- 21 million English articles from the PubMed database.
- To embed the abstracts into 2D, we use
- a large language model PubMedBERT, combined with
- t-SNE tailored to handle samples of our size.
- We use our atlas to study
- the emergence of the Covid-19 literature,
- the evolution of the neuroscience discipline,
- the uptake of machine learning, and
- the distribution of gender imbalance in academic authorship.
- Furthermore, we present an interactive web version of our atlas that
- allows easy exploration and
- will enable further insights and facilitate future research.
- Title
-
- May 2022
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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Embryonal rhabdomyosarcoma (ERMS) of the uterus has recently been shown to frequently harbor DICER1 mutations.
HGNCID:
Tags
- Mutation: c.5428G>T
- case mut: f 28-67
- Zygosity: Some Cases displayed homozygosity
- PMID (PubMed ID): 33846547
- Disease Entity: Embryonal rhabdomyosarcoma (ERMS)
- GeneName: DICER1
- pathogenicity: only 2 of 17 patients died from disease
- Inheritance Pattern: Non- inheritance(DNA methylation)
- Mutation: c5113G>A
- Mutation: c.5125G > A
- Mutation: c.3580delA
- Mutation: c.5438 A> C
- Mutation: 5428 G>C
- Mutation: c.4420A>G
- case wt: m&f 0.5-19
- Variant: Clinvar ID not identified
- Family Information: not identified
- Mutation: c.4267G>T
Annotators
URL
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pubmed.ncbi.nlm.nih.gov pubmed.ncbi.nlm.nih.gov
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GeneName: DICER1 syndrome (pleuropulmonary blastoma familial tumor susceptibility syndrome), PMID (PubMed ID): 29762508, HGNCID: 17098, Inheritance pattern: autosomal-dominant disease, Disease entity: Plueropulomary Blastoma, Mutation: Somatic, Zygosity: heterozygous, Variant: multiple variants, Family information: NA, Case: young children, CasePresentingHPO: N/A, CasePreviousTesting: N/A, Gnomade #: N/A , Mutation type: deletion
-
- Apr 2022
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www.nature.com www.nature.com
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Chawla, D. S. (2021). Hundreds of ‘predatory’ journals indexed on leading scholarly database. Nature. https://doi.org/10.1038/d41586-021-00239-0
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- Jan 2022
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twitter.com twitter.com
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Helder Nakaya. (2022, January 14). 75 years of research on human diseases in 1 minute https://t.co/1QtdijRTtJ [Tweet]. @helder_nakaya. https://twitter.com/helder_nakaya/status/1482095277813157888
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- Oct 2021
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pubmed.ncbi.nlm.nih.gov pubmed.ncbi.nlm.nih.gov
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A cup of coffee reduced iron absorption from a hamburger meal by 39% as compared to a 64% decrease with tea, which is known to be a potent inhibitor of iron absorption.
Кофе как риск фактор анемии
Tags
Annotators
URL
-
- Aug 2020
-
pubmed.ncbi.nlm.nih.gov pubmed.ncbi.nlm.nih.gov
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65 results
Resultados busqueda general Pubmed 19/Ago/2020
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pubmed.ncbi.nlm.nih.gov pubmed.ncbi.nlm.nih.gov
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0 Pre Prints al respecto
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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Desde 2009 resalta la importancia de la información en el contexto de la salúd pública e incluso se propone como util para predecir brotes y epidemias.
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- Jun 2020
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twitter.com twitter.com
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Baxter, N. MD PhD. (2020, May 20). "RT @enenbee: There are now over 14,000 COVID-19 citations indexed by Pubmed. That's bananas. Use with caution..." Twitter. https://twitter.com/SciBeh/status/1263010114820354048
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- Dec 2019
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sites.google.com sites.google.com
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The whole country was in mental chaos and I never had been in such a destructive mental state at the time. It was hard to believe that someone would do this following a faith that is supposedly promotes peace
Following the 9/11 and 7/7 attacks Islamophobia intensified, which can be understood, at the psychological level, as an internal racist defence against overwhelming anxiety."
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sites.google.com sites.google.com
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The whole country was in mental chaos and I never had been in such a destructive mental state at the time. It was hard to believe that someone would do this following a faith that is supposedly promotes peace
"Following the 9/11 and 7/7 attacks Islamophobia intensified, which can be understood, at the psychological level, as an internal racist defence against overwhelming anxiety."
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- Oct 2018
- Apr 2018
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post.queensu.ca post.queensu.ca
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This page
This page is the main page through which the other pages are accessed, and to which they redirect when finished. Some pages have directions to the PubMed Commons pages that in 2013 began facilitating the annotation of articles in the bioscience literature. Sadly, this was stopped in 2018, but comments can be retrieved through the Hypothesis site as detailed on my Laboratory Page.
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- Jan 2018
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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Combination therapy strategies for improving PD-1 blockade efficacy
Methods of augmenting PD-1 blockade against cancer involve concomitant CTLA-4 inhibition among others. Here is a visual representation of common biological pathways and cell types between these genes.
https://www.biovista.com/vizit-research/#!bv_gid=1357fa5ee3b610d1918476e21c7be00c
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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A visual exploration of Tau protein related post-translational modifications in Alzheimers disease (and other tauopathies). Created with Biovista Vizit.
https://www.biovista.com/vizit-research/#!bv_gid=ba502df811e83f68ff3db71d2f33fff3
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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