Publications by authors named "Alexis Allot"

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AI Workflow, External Validation, and Development in Eye Disease Diagnosis.
Qingyu Chen, Tiarnan D L Keenan, Elvira Agron, Alexis Allot, Emily Guan

JAMA Netw Open· July 2025

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Towards Accountable AI in Eye Disease Diagnosis: Workflow, External Validation, and Development.
Qingyu Chen, Tiarnan D L Keenan, Elvira Agron, Alexis Allot, Emily Guan

ArXiv· July 2025

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PINK1 deficiency rewires early immune responses in a mouse model of Parkinson's disease triggered by intestinal infection.
Sherilyn Junelle Recinto, Alexandra Kazanova, Lin Liu, Brendan Cordeiro, Shobina Premachandran, Alexis Allot

NPJ Parkinsons Dis· May 2025

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Ependymal cells undergo astrocyte-like reactivity in response to neuroinflammation.
Adam M R Groh, Nina Caporicci-Dinucci, Elia Afanasiev, Maxime Bigotte, Brianna Lu, Alexis Allot

J Neurochem· October 2024

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PubTator 3.0: an AI-powered literature resource for unlocking biomedical knowledge.
Chih-Hsuan Wei, Alexis Allot, Po-Ting Lai, Robert Leaman, Shubo Tian

Nucleic Acids Res· July 2024

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Characterizing enteric neurons in dopamine transporter (DAT)-Cre reporter mice reveals dopaminergic subtypes with dual-transmitter content.
Sherilyn Junelle Recinto, Shobina Premachandran, Sriparna Mukherjee, Alexis Allot, Adam MacDonald

Eur J Neurosci· May 2024

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PubTator 3.0: an AI-powered Literature Resource for Unlocking Biomedical Knowledge.
Chih-Hsuan Wei, Alexis Allot, Po-Ting Lai, Robert Leaman, Shubo Tian

ArXiv· January 2024

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Tracking genetic variants in the biomedical literature using LitVar 2.0.
Alexis Allot, Chih-Hsuan Wei, Lon Phan, Timothy Hefferon, Melissa Landrum

Nat Genet· June 2023

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LitCovid in 2022: an information resource for the COVID-19 literature.
Qingyu Chen, Alexis Allot, Robert Leaman, Chih-Hsuan Wei, Elaheh Aghaarabi

Nucleic Acids Res· January 2023

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Comprehensively identifying Long Covid articles with human-in-the-loop machine learning.
Robert Leaman, Rezarta Islamaj, Alexis Allot, Qingyu Chen, W John Wilbur

Patterns (N Y)· January 2023

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LitMC-BERT: Transformer-Based Multi-Label Classification of Biomedical Literature With An Application on COVID-19 Literature Curation.
Qingyu Chen, Jingcheng Du, Alexis Allot, Zhiyong Lu

IEEE/ACM Trans Comput Biol Bioinform· October 2022

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tmVar 3.0: an improved variant concept recognition and normalization tool.
Chih-Hsuan Wei, Alexis Allot, Kevin Riehle, Aleksandar Milosavljevic, Zhiyong Lu

Bioinformatics· September 2022

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Multi-label classification for biomedical literature: an overview of the BioCreative VII LitCovid Track for COVID-19 literature topic annotations.
Qingyu Chen, Alexis Allot, Robert Leaman, Rezarta Islamaj, Jingcheng Du

Database (Oxford)· August 2022

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LitSuggest: a web-based system for literature recommendation and curation using machine learning.
Alexis Allot, Kyubum Lee, Qingyu Chen, Ling Luo, Zhiyong Lu

Nucleic Acids Res· July 2021

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Artificial Intelligence in Action: Addressing the COVID-19 Pandemic with Natural Language Processing.
Qingyu Chen, Robert Leaman, Alexis Allot, Ling Luo, Chih-Hsuan Wei

Annu Rev Biomed Data Sci· July 2021

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Multimodal, multitask, multiattention (M3) deep learning detection of reticular pseudodrusen: Toward automated and accessible classification of age-related macular degeneration.
Qingyu Chen, Tiarnan D L Keenan, Alexis Allot, Yifan Peng, Elvira Agrón

J Am Med Inform Assoc· June 2021

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LitCovid: an open database of COVID-19 literature.
Qingyu Chen, Alexis Allot, Zhiyong Lu

Nucleic Acids Res· January 2021

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Predicting risk of late age-related macular degeneration using deep learning.
Yifan Peng, Tiarnan D Keenan, Qingyu Chen, Elvira Agrón, Alexis Allot

NPJ Digit Med· August 2020

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Ten tips for a text-mining-ready article: How to improve automated discoverability and interpretability.
Robert Leaman, Chih-Hsuan Wei, Alexis Allot, Zhiyong Lu

PLoS Biol· June 2020

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Keep up with the latest coronavirus research.
Qingyu Chen, Alexis Allot, Zhiyong Lu

Nature· March 2020

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LitSense: making sense of biomedical literature at sentence level.
Alexis Allot, Qingyu Chen, Sun Kim, Roberto Vera Alvarez, Donald C Comeau

Nucleic Acids Res· July 2019

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PubTator central: automated concept annotation for biomedical full text articles.
Chih-Hsuan Wei, Alexis Allot, Robert Leaman, Zhiyong Lu

Nucleic Acids Res· July 2019

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LitVar: a semantic search engine for linking genomic variant data in PubMed and PMC.
Alexis Allot, Yifan Peng, Chih-Hsuan Wei, Kyubum Lee, Lon Phan

Nucleic Acids Res· July 2018

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Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species.
Paul Julian Kersey, James E Allen, Alexis Allot, Matthieu Barba, Sanjay Boddu

Nucleic Acids Res· January 2018

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MyGeneFriends: A Social Network Linking Genes, Genetic Diseases, and Researchers.
Alexis Allot, Kirsley Chennen, Yannis Nevers, Laetitia Poidevin, Arnaud Kress

J Med Internet Res· June 2017

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