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A deep learning approach to bilingual lexicon induction in the biomedical domain
A deep learning approach to bilingual lexicon induction in the biomedical domain
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A deep learning approach to bilingual lexicon induction in the biomedical domain

BMC bioinformatics, 2018-07, Vol.19 (1), p.259-259, Article 259 [Peer Reviewed Journal]

COPYRIGHT 2018 BioMed Central Ltd. ;Copyright © 2018. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2018 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-018-2245-8 ;PMID: 29986664

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2
ROBOT: A Tool for Automating Ontology Workflows
ROBOT: A Tool for Automating Ontology Workflows
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ROBOT: A Tool for Automating Ontology Workflows

BMC bioinformatics, 2019-07, Vol.20 (1), p.407-407, Article 407 [Peer Reviewed Journal]

COPYRIGHT 2019 BioMed Central Ltd. ;The Author(s). 2019 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-019-3002-3 ;PMID: 31357927

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3
A comparison of common programming languages used in bioinformatics
A comparison of common programming languages used in bioinformatics
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A comparison of common programming languages used in bioinformatics

BMC bioinformatics, 2008-02, Vol.9 (1), p.82-82, Article 82 [Peer Reviewed Journal]

COPYRIGHT 2008 BioMed Central Ltd. ;Copyright © 2008 Fourment and Gillings; licensee BioMed Central Ltd. 2008 Fourment and Gillings; licensee BioMed Central Ltd. ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/1471-2105-9-82 ;PMID: 18251993

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4
Identifying named entities from PubMed for enriching semantic categories
Identifying named entities from PubMed for enriching semantic categories
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Identifying named entities from PubMed for enriching semantic categories

BMC bioinformatics, 2015-02, Vol.16 (1), p.57-57, Article 57 [Peer Reviewed Journal]

COPYRIGHT 2015 BioMed Central Ltd. ;Kim et al.; licensee BioMed Central. 2015 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-015-0487-2 ;PMID: 25887671

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5
N-gram analysis of 970 microbial organisms reveals presence of biological language models
N-gram analysis of 970 microbial organisms reveals presence of biological language models
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N-gram analysis of 970 microbial organisms reveals presence of biological language models

BMC bioinformatics, 2011-01, Vol.12 (1), p.12-12, Article 12 [Peer Reviewed Journal]

COPYRIGHT 2011 BioMed Central Ltd. ;2011 Osmanbeyoglu and Ganapathiraju; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. ;Copyright ©2011 Osmanbeyoglu and Ganapathiraju; licensee BioMed Central Ltd. 2011 Osmanbeyoglu and Ganapathiraju; licensee BioMed Central Ltd. ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/1471-2105-12-12 ;PMID: 21219653

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6
Predicting probable Alzheimer's disease using linguistic deficits and biomarkers
Predicting probable Alzheimer's disease using linguistic deficits and biomarkers
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Predicting probable Alzheimer's disease using linguistic deficits and biomarkers

BMC bioinformatics, 2017-01, Vol.18 (1), p.34-34, Article 34 [Peer Reviewed Journal]

COPYRIGHT 2017 BioMed Central Ltd. ;Copyright BioMed Central 2017 ;The Author(s) 2017 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-016-1456-0 ;PMID: 28088191

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7
Modeling aspects of the language of life through transfer-learning protein sequences
Modeling aspects of the language of life through transfer-learning protein sequences
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Modeling aspects of the language of life through transfer-learning protein sequences

BMC bioinformatics, 2019-12, Vol.20 (1), p.723-723, Article 723 [Peer Reviewed Journal]

COPYRIGHT 2019 BioMed Central Ltd. ;2019. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s). 2019 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-019-3220-8 ;PMID: 31847804

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8
TMbed: transmembrane proteins predicted through language model embeddings
TMbed: transmembrane proteins predicted through language model embeddings
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TMbed: transmembrane proteins predicted through language model embeddings

BMC bioinformatics, 2022-08, Vol.23 (1), p.1-326, Article 326 [Peer Reviewed Journal]

COPYRIGHT 2022 BioMed Central Ltd. ;2022. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2022 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-022-04873-x ;PMID: 35941534

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9
A two-way interface between limited Systems Biology Markup Language and R
A two-way interface between limited Systems Biology Markup Language and R
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A two-way interface between limited Systems Biology Markup Language and R

BMC bioinformatics, 2004-12, Vol.5 (1), p.190-190, Article 190 [Peer Reviewed Journal]

Copyright © 2004 Radivoyevitch; licensee BioMed Central Ltd. ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/1471-2105-5-190 ;PMID: 15585059

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10
Protein language models can capture protein quaternary state
Protein language models can capture protein quaternary state
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Protein language models can capture protein quaternary state

BMC bioinformatics, 2023-11, Vol.24 (1), p.1-433, Article 433 [Peer Reviewed Journal]

COPYRIGHT 2023 BioMed Central Ltd. ;2023. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-023-05549-w

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11
Using natural language processing and machine learning to identify breast cancer local recurrence
Using natural language processing and machine learning to identify breast cancer local recurrence
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Using natural language processing and machine learning to identify breast cancer local recurrence

BMC bioinformatics, 2018-12, Vol.19 (Suppl 17), p.498-498, Article 498 [Peer Reviewed Journal]

COPYRIGHT 2018 BioMed Central Ltd. ;Copyright © 2018. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s). 2018 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-018-2466-x ;PMID: 30591037

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12
Leveraging pre-trained language models for mining microbiome-disease relationships
Leveraging pre-trained language models for mining microbiome-disease relationships
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Leveraging pre-trained language models for mining microbiome-disease relationships

BMC bioinformatics, 2023-07, Vol.24 (1), p.290-290 [Peer Reviewed Journal]

2023. The Author(s). ;COPYRIGHT 2023 BioMed Central Ltd. ;2023. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2023 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-023-05411-z ;PMID: 37468830

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13
xCAPT5: protein-protein interaction prediction using deep and wide multi-kernel pooling convolutional neural networks with protein language model
xCAPT5: protein-protein interaction prediction using deep and wide multi-kernel pooling convolutional neural networks with protein language model
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xCAPT5: protein-protein interaction prediction using deep and wide multi-kernel pooling convolutional neural networks with protein language model

BMC bioinformatics, 2024-03, Vol.25 (1), p.106-106 [Peer Reviewed Journal]

2024. The Author(s). ;COPYRIGHT 2024 BioMed Central Ltd. ;2024. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2024 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-024-05725-6 ;PMID: 38461247

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14
KEGG orthology prediction of bacterial proteins using natural language processing
KEGG orthology prediction of bacterial proteins using natural language processing
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KEGG orthology prediction of bacterial proteins using natural language processing

BMC bioinformatics, 2024-04, Vol.25 (1), p.146-146 [Peer Reviewed Journal]

2024. The Author(s). ;COPYRIGHT 2024 BioMed Central Ltd. ;2024. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2024 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-024-05766-x ;PMID: 38600441

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15
ODAE: Ontology-based systematic representation and analysis of drug adverse events and its usage in study of adverse events given different patient age and disease conditions
ODAE: Ontology-based systematic representation and analysis of drug adverse events and its usage in study of adverse events given different patient age and disease conditions
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ODAE: Ontology-based systematic representation and analysis of drug adverse events and its usage in study of adverse events given different patient age and disease conditions

BMC bioinformatics, 2019-05, Vol.20 (Suppl 7), p.199-199, Article 199 [Peer Reviewed Journal]

2019. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s). 2019 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-019-2729-1 ;PMID: 31074377

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16
Tpgen: a language model for stable protein design with a specific topology structure
Tpgen: a language model for stable protein design with a specific topology structure
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Tpgen: a language model for stable protein design with a specific topology structure

BMC bioinformatics, 2024-01, Vol.25 (1), p.35-35, Article 35 [Peer Reviewed Journal]

2024. The Author(s). ;COPYRIGHT 2024 BioMed Central Ltd. ;2024. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2024 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-024-05637-5 ;PMID: 38254030

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17
Extracting cancer concepts from clinical notes using natural language processing: a systematic review
Extracting cancer concepts from clinical notes using natural language processing: a systematic review
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Extracting cancer concepts from clinical notes using natural language processing: a systematic review

BMC bioinformatics, 2023-10, Vol.24 (1), p.1-405, Article 405 [Peer Reviewed Journal]

COPYRIGHT 2023 BioMed Central Ltd. ;2023. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2023 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-023-05480-0 ;PMID: 37898795

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18
GPAD: a natural language processing-based application to extract the gene-disease association discovery information from OMIM
GPAD: a natural language processing-based application to extract the gene-disease association discovery information from OMIM
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GPAD: a natural language processing-based application to extract the gene-disease association discovery information from OMIM

BMC bioinformatics, 2024-02, Vol.25 (1), p.84-84 [Peer Reviewed Journal]

2024. The Author(s). ;COPYRIGHT 2024 BioMed Central Ltd. ;2024. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2024 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-024-05693-x ;PMID: 38413851

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19
External features enriched model for biomedical question answering
External features enriched model for biomedical question answering
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External features enriched model for biomedical question answering

BMC bioinformatics, 2021-05, Vol.22 (1), p.1-272, Article 272 [Peer Reviewed Journal]

COPYRIGHT 2021 BioMed Central Ltd. ;2021. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2021 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-021-04176-7 ;PMID: 34039273

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20
SamQL: a structured query language and filtering tool for the SAM/BAM file format
SamQL: a structured query language and filtering tool for the SAM/BAM file format
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SamQL: a structured query language and filtering tool for the SAM/BAM file format

BMC bioinformatics, 2021-10, Vol.22 (1), p.1-474, Article 474 [Peer Reviewed Journal]

COPYRIGHT 2021 BioMed Central Ltd. ;2021. This work is licensed under http://creativecommons.org/licenses/by/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. ;The Author(s) 2021 ;ISSN: 1471-2105 ;EISSN: 1471-2105 ;DOI: 10.1186/s12859-021-04390-3 ;PMID: 34600480

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