Briefings in functional genomics

01 9 January 2026

DOI 10.1093/bfgp/elag011

A comprehensive review on RNA subcellular localization prediction

Open DOI

Cece Zhang, Xuehuan Zhu, Nick Peterson et al.

The subcellular localization of RNAs, including long non-coding RNAs, messenger RNAs, microRNAs and other smaller RNAs, plays a critical role in determining their biological functions. Understanding RNA localization sheds light on proces...

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02 9 January 2026

DOI 10.1093/bfgp/elag009

Knowledge-guided graph fusion of mRNA profiles for interpretable cancer subtyping

Open DOI

Jie Ni, Xinting Zhang, Mingyang Li et al.

Accurate cancer subtype classification from single-transcriptome data remains challenging because of biological heterogeneity, measurement noise, and limited sample sizes. This study examined whether disease–gene priors add predictive in...

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03 9 January 2026

DOI 10.1093/bfgp/elag008

Supervised clustering of bacterial promoter identifies two groups with different relevant positions at −10

Open DOI

Paulo Cambranis-Boldo, Gustavo Sganzerla Martinez, André Borges Farias et al.

Promoters are DNA sequences responsible for the specific recognition of the transcriptional machinery in all the biological systems. In bacteria, two main groups of promoters have been described, the σ70-like family, which includes the h...

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04 9 January 2026

DOI 10.1093/bfgp/elag010

AGRN activates GPX4 via the Wnt/beta-catenin signaling pathway to suppress ferroptosis in cervical cancer cells

Open DOI

Aizhen Fu, Jiayi Cai, Ruitao Chen et al.

Cervical cancer remains a leading cause of cancer-related deaths among women worldwide. Targeting ferroptosis, a regulated form of cell death driven by lipid peroxidation, has emerged as a promising therapeutic strategy. This study aimed...

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05 9 January 2026

DOI 10.1093/bfgp/elag007

Combining co-expression analysis and machine learning to explore the diagnostic value of complement and coagulation cascade-related genes in asthma and the functional role of SERPINB2

Open DOI

Jingjing Feng, Chengfang Xie, Weiduo Jin et al.

Background: Optimizing diagnostic strategies for asthma is crucial for alleviating its high global disease burden. In recent years, the complement and coagulation cascades (CCC), as a central hub of innate immunity and inflammatory respo...

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06 9 January 2026

DOI 10.1093/bfgp/elag006

Multi-view knowledge-guided flow subgraphs with substructure initialization for explainable DDI prediction

Open DOI

Yugui Xu, Zhigan Zhou, Hao Yuan et al.

Polypharmacy has become essential in managing complex and chronic conditions, yet it introduces significant clinical risks due to potential drug–drug interactions (DDIs). Existing computational models struggle to provide accurate and int...

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07 9 January 2026

DOI 10.1093/bfgp/elag005

Language model-based self-training reduces labeled data requirements by 99% for biological sequence classification

Open DOI

Jingwen Liu, Danmo Gao, Yan Yuan et al.

The prediction of a biological sequence’s function is an exploding field that could prove to be an invaluable tool in deciphering molecular mechanisms of diseases and genetic variation. However, existing techniques suffer from a very low...

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08 9 January 2026

DOI 10.1093/bfgp/elag002

Whole-transcriptome sequencing reveals hypoxic esophageal squamous cell carcinoma–derived migrasomes driving cancer-associated fibroblast activation

Open DOI

Guan’EN Qiao, Zhongping Wang, Meng Wang et al.

Cancer-associated fibroblasts (CAFs) activated by intercellular communication contribute to the progression of esophageal squamous cell carcinoma (ESCC). Migrasomes represent a novel mode of intercellular communication. However, the char...

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09 9 January 2026

DOI 10.1093/bfgp/elag001

An integrative meta-analysis of SARS-CoV-2 RNA–protein interactomes identifies conserved host factors shared with other RNA viruses

Open DOI

Kuerbannisha Amahong, Yuhong Liu, Zheng Zhang et al.

RNA viruses cause substantial global disease burden and depend on host RNA-binding proteins and translation machinery. However, it remains unclear which host factors are robustly engaged across independent Severe Acute Respiratory Syndro...

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10 9 January 2026

DOI 10.1093/bfgp/elaf027

An integrated complete-genome sequencing and systems biology approach to predict antimicrobial resistance genes in the virulent bacterial strains of Moraxella catarrhalis

Open DOI

Sadia Afrin Bristy, Arju Hossain, Imran Hasan et al.

Moraxella catarrhalis is a symbiotic as well as mucosal infection-causing bacterium unique to humans. Currently, it is considered as one of the leading factors of acute middle ear infection in children. As M. catarrhalis is resistant to ...

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