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Briefings in Bioinformatics  
Volume 25 Issue 2
 
March 2024
 
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Articles
 
 
 
 
GMFGRN: a matrix factorization and graph neural network approach for gene regulatory network inference 
 
Shuo Li, Yan Liu, Long-Chen Shen, He Yan, Jiangning Song ...
 
 
 
Reconstructing complex admixture history using a hierarchical model border=  
 
Shi Zhang, Rui Zhang, Kai Yuan, Lu Yang, Chang Liu ...
 
 
 
Reliable method for predicting the binding affinity of RNA-small molecule interactions using machine learning border= 
 
Sowmya R Krishnan, Arijit Roy, M Michael Gromiha
 
 
 
A kinetic model for solving a combination optimization problem in ab-initio Cryo-EM 3D reconstruction border= 
 
Jiaxuan Liu, Yonggang Lu, Li Zhu
 
 
 
epidecodeR: a functional exploration tool for epigenetic and epitranscriptomic regulation 
 
Kandarp Joshi, Dan O Wang
 
 
 
 
scCorrector: a robust method for integrating multi-study single-cell data border= 
 
Zhen-Hao Guo, Yan-Bin Wang, Siguo Wang, Qinhu Zhang, De-Shuang Huang
 
 
 
MyoV: a deep learning-based tool for the automated quantification of muscle fibers border= 
 
Shuang Gu, Chaoliang Wen, Zhen Xiao, Qiang Huang, Zheyi Jiang ...
 
 
 
CRISPR-DIPOFF: an interpretable deep learning approach for CRISPR Cas-9 off-target prediction border= 
 
Md Toufikuzzaman, Md Abul Hassan Samee, M Sohel Rahman
 
 
 
Recognition of rare antinuclear antibody patterns based on a novel attention-based enhancement framework border= 
 
Junxiang Zeng, Xiupan Gao, Limei Gao, Youyou Yu, Lisong Shen ...
 
 
 
SPANN: annotating single-cell resolution spatial transcriptome data with scRNA-seq data 
 
Musu Yuan, Hui Wan, Zihao Wang, Qirui Guo, Minghua Deng
 
 
 
 
Interpretable feature extraction and dimensionality reduction in ESM2 for protein localization prediction 
 
Zeyu Luo, Rui Wang, Yawen Sun, Junhao Liu, Zongqing Chen ...
 
 
 
CAP-RNAseq: an integrated pipeline for functional annotation and prioritization of co-expression clusters border= 
 
Merve Vural-Ozdeniz, Kubra Calisir, Rana Acar, Aysenur Yavuz, Mustafa M Ozgur ...
 
 
 
Identification, characterization and expression analysis of circRNA encoded by SARS-CoV-1 and SARS-CoV-2 border= 
 
Mengting Niu, Chunyu Wang, Yaojia Chen, Quan Zou, Lei Xu
 
 
 
The CUT&RUN greenlist: genomic regions of consistent noise are effective normalizing factors for quantitative epigenome mapping border= 
 
Fabio N de Mello, Ana C Tahira, Maria Gabriela Berzoti-Coelho, Sergio Verjovski-Almeida
 
 
 
Multi-modal features-based human-herpesvirus protein'protein interaction prediction by using LightGBM border= 
 
Xiaodi Yang, Stefan Wuchty, Zeyin Liang, Li Ji, Bingjie Wang ...
 
 
 
scMMT: a multi-use deep learning approach for cell annotation, protein prediction and embedding in single-cell RNA-seq data border= 
 
Songqi Zhou, Yang Li, Wenyuan Wu, Li Li
 
 
 
labelSeg: segment annotation for tumor copy number alteration profiles border=  
 
Hangjia Zhao, Michael Baudis
 
 
 
Structure prediction of linear and cyclic peptides using CABS-flex border=  
 
Aleksandra Badaczewska-Dawid, Karol Wróblewski, Mateusz Kurcinski, Sebastian Kmiecik
 
 
 
Species-agnostic transfer learning for cross-species transcriptomics data integration without gene orthology border= 
 
Youngjun Park, Nils P Muttray, Anne-Christin Hauschild
 
 
 
MoDAFold: a strategy for predicting the structure of missense mutant protein based on AlphaFold2 and molecular dynamics border= 
 
Lingyan Zheng, Shuiyang Shi, Xiuna Sun, Mingkun Lu, Yang Liao ...
 
 
 
Deqformer: high-definition and scalable deep learning probe design method border=  
 
Yantong Cai, Jia Lv, Rui Li, Xiaowen Huang, Shi Wang ...
 
 
 
Challenges in distinguishing functional proteins from polyproteins in databases: implications for drug discovery border= 
 
Ariadna Llop-Peiró, Gerard Pujadas, Santiago Garcia-Vallvé
 
 
 
ChIP-GPT: a managed large language model for robust data extraction from biomedical database records border= 
 
Olivier Cinquin
 
 
 
scDecouple: decoupling cellular response from infected proportion bias in scCRISPR-seq border= 
 
Qiuchen Meng, Lei Wei, Kun Ma, Ming Shi, Xinyi Lin ...
 
 
 
Integrative open workflow for confident annotation and molecular networking of metabolomics MSE /DIA data border= 
 
Albert Katchborian-Neto, Matheus F Alves, Paula C P Bueno, Karen de Jesus Nicácio, Miller S Ferreira ...
 
 
 
Spatially contrastive variational autoencoder for deciphering tissue heterogeneity from spatially resolved transcriptomics border= 
 
Yaofeng Hu, Kai Xiao, Hengyu Yang, Xiaoping Liu, Chuanchao Zhang ...
 
 
 
TG468: a text graph convolutional network for predicting clinical response to immune checkpoint inhibitor therapy border= 
 
Kun Wang, Jiangshan Shi, Xiaochu Tong, Ning Qu, Xiangtai Kong ...
 
 
 
Likelihood-based feature representation learning combined with neighborhood information for predicting circRNA'miRNA associations border= 
 
Lu-Xiang Guo, Lei Wang, Zhu-Hong You, Chang-Qing Yu, Meng-Lei Hu ...
 
 
 
SynergyX: a multi-modality mutual attention network for interpretable drug synergy prediction border= 
 
Yue Guo, Haitao Hu, Wenbo Chen, Hao Yin, Jian Wu ...
 
 
 
Introducing Ïeuro -HelixNovo for practical large-scale de novo peptide sequencing border=  
 
Tingpeng Yang, Tianze Ling, Boyan Sun, Zhendong Liang, Fan Xu ...
 
 
 
ImmuneMirror: A machine learning-based integrative pipeline and web server for neoantigen prediction border= 
 
Gulam Sarwar Chuwdhury, Yunshan Guo, Chi-Leung Chiang, Ka-On Lam, Ngar-Woon Kam ...
 
 
 
Enhancing protein dynamics analysis with hydrophilic polyethylene glycol cross-linkers border= 
 
Min Sun, Jing Chen, Chang Zhao, Lihua Zhang, Maili Liu ...
 
 
 
PREDAC-CNN: predicting antigenic clusters of seasonal influenza A viruses with convolutional neural network border= 
 
Jing Meng, Jingze Liu, Wenkai Song, Honglei Li, Jiangyuan Wang ...
 
 
 
PB-LKS: a python package for predicting phage'bacteria interaction through local K-mer strategy border= 
 
Jingxuan Qiu, Wanchun Nie, Hao Ding, Jia Dai, Yiwen Wei ...
 
 
 
scHybridBERT: integrating gene regulation and cell graph for spatiotemporal dynamics in single-cell clustering border= 
 
Zhang Wei, Wu Chenjun, Xing Feiyang, Jiang Mingfeng, Zhang Yixuan ...
 
 
 
VirGrapher: a graph-based viral identifier for long sequences from metagenomes border= 
 
Yan Miao, Zhenyuan Sun, Chenjing Ma, Chen Lin, Guohua Wang ...
 
 
 
Should we really use graph neural networks for transcriptomic prediction? border=  
 
Céline Brouard, Raphaël Mourad, Nathalie Vialaneix
 
 
 
Self-supervised deep learning of gene'gene interactions for improved gene expression recovery border= 
 
Qingyue Wei, Md Tauhidul Islam, Yuyin Zhou, Lei Xing
 
 
 
eccDNA-pipe: an integrated pipeline for identification, analysis and visualization of extrachromosomal circular DNA from high-throughput sequencing data border= 
 
Minghao Fang, Jingwen Fang, Songwen Luo, Ke Liu, Qiaoni Yu ...
 
 
 
Modeling genotype'protein interaction and correlation for Alzheimer's disease: a multi-omics imaging genetics study border= 
 
Jin Zhang, Zikang Ma, Yan Yang, Lei Guo, Lei Du
 
 
 
ULDNA: integrating unsupervised multi-source language models with LSTM-attention network for high-accuracy protein'DNA binding site prediction border= 
 
Yi-Heng Zhu, Zi Liu, Yan Liu, Zhiwei Ji, Dong-Jun Yu
 
 
 
KGE-UNIT: toward the unification of molecular interactions prediction based on knowledge graph and multi-task learning on drug discovery border= 
 
Chengcheng Zhang, Tianyi Zang, Tianyi Zhao
 
 
 
FEOpti-ACVP: identification of novel anti-coronavirus peptide sequences based on feature engineering and optimization border= 
 
Jici Jiang, Hongdi Pei, Jiayu Li, Mingxin Li, Quan Zou ...
 
 
 
scEVOLVE: cell-type incremental annotation without forgetting for single-cell RNA-seq data border= 
 
Yuyao Zhai, Liang Chen, Minghua Deng
 
 
 
ChemMORT: an automatic ADMET optimization platform using deep learning and multi-objective particle swarm optimization border= 
 
Jia-Cai Yi, Zi-Yi Yang, Wen-Tao Zhao, Zhi-Jiang Yang, Xiao-Chen Zhang ...
 
 
 
Lactylation prediction models based on protein sequence and structural feature fusion border= 
 
Ye-Hong Yang, Jun-Tao Yang, Jiang-Feng Liu
 
 
 
ADH-Enhancer: an attention-based deep hybrid framework for enhancer identification and strength prediction border= 
 
Faiza Mehmood, Shazia Arshad, Muhammad Shoaib
 
 
 
BiGATAE: a bipartite graph attention auto-encoder enhancing spatial domain identification from single-slice to multi-slices border= 
 
Yuhao Tao, Xiaoang Sun, Fei Wang
 
 
 
Multiple and Optimal Screening Subset: a method selecting global characteristic congeners for robust foodomics analysis border= 
 
Rui Xu, Huan Zhang, Michael W Crowder, Jiangjiang Zhu
 
 
 
Continually adapting pre-trained language model to universal annotation of single-cell RNA-seq data border= 
 
Hui Wan, Musu Yuan, Yiwei Fu, Minghua Deng
 
 
 
Kled: an ultra-fast and sensitive structural variant detection tool for long-read sequencing data border= 
 
Zhendong Zhang, Tao Jiang, Gaoyang Li, Shuqi Cao, Yadong Liu ...
 
 
 
STW-MD: a novel spatio-temporal weighting and multi-step decision tree method for considering spatial heterogeneity in brain gene expression data border= 
 
Shanjun Mao, Xiao Huang, Runjiu Chen, Chenyang Zhang, Yizhu Diao ...
 
 
 
Language model enables end-to-end accurate detection of cancer from cell-free DNA border= 
 
Hongru Shen, Jilei Liu, Kexin Chen, Xiangchun Li
 
 
 
Hound: a novel tool for automated mapping of genotype to phenotype in bacterial genomes assembled de novo border= 
 
Carlos Reding, Naphat Satapoomin, Matthew B Avison
 
 
 
TransGCN: a semi-supervised graph convolution network'based framework to infer protein translocations in spatio-temporal proteomics border= 
 
Bing Wang, Xiangzheng Zhang, Xudong Han, Bingjie Hao, Yan Li ...
 
 
 
Biolinguistic graph fusion model for circRNA'miRNA association prediction border=  
 
Lu-Xiang Guo, Lei Wang, Zhu-Hong You, Chang-Qing Yu, Meng-Lei Hu ...
 
 
 
Deeply integrating latent consistent representations in high-noise multi-omics data for cancer subtyping border= 
 
Yueyi Cai, Shunfang Wang
 
 
 
Adjustment of scRNA-seq data to improve cell-type decomposition of spatial transcriptomics border= 
 
Lanying Wang, Yuxuan Hu, Lin Gao
 
 
 
CRISPRlnc: a machine learning method for lncRNA-specific single-guide RNA design of CRISPR/Cas9 system border= 
 
Zitian Yang, Zexin Zhang, Jing Li, Wen Chen, Changning Liu
 
 
 
Dual-channel hypergraph convolutional network for predicting herb'disease associations border= 
 
Lun Hu, Menglong Zhang, Pengwei Hu, Jun Zhang, Chao Niu ...
 
 
 
scAMAC: self-supervised clustering of scRNA-seq data based on adaptive multi-scale autoencoder border= 
 
Dayu Tan, Cheng Yang, Jing Wang, Yansen Su, Chunhou Zheng
 
 
 
Innovative super-resolution in spatial transcriptomics: a transformer model exploiting histology images and spatial gene expression border= 
 
Chongyue Zhao, Zhongli Xu, Xinjun Wang, Shiyue Tao, William A MacDonald ...
 
 
 
High-dimensional generalized median adaptive lasso with application to omics data border= 
 
Yahang Liu, Qian Gao, Kecheng Wei, Chen Huang, Ce Wang ...
 
 
 
Exploring miRNA'target gene pair detection in disease with coRmiT border=  
 
Jose Cordoba-Caballero, James R Perkins, Federico García-Criado, Diana Gallego, Alicia Navarro-Sánchez ...
 
 
 
RNAdvisor: a comprehensive benchmarking tool for the measure and prediction of RNA structural model quality border= 
 
Clement Bernard, Guillaume Postic, Sahar Ghannay, Fariza Tahi
 
 
 
Benchmarking enrichment analysis methods with the disease pathway network border=  
 
Davide Buzzao, Miguel Castresana-Aguirre, Dimitri Guala, Erik L L Sonnhammer
 
 
 
scDOT: enhancing single-cell RNA-Seq data annotation and uncovering novel cell types through multi-reference integration border= 
 
Yi-Xuan Xiong, Xiao-Fei Zhang
 
 
 
Integrating network pharmacology and in silico analysis deciphers Withaferin-A's anti-breast cancer potential via hedgehog pathway and target network interplay border= 
 
Mythili Srinivasan, Apeksha Gangurde, Ashwini Y Chandane, Amol Tagalpallewar, Anil Pawar ...
 
 
 
Partial order relation'based gene ontology embedding improves protein function prediction border= 
 
Wenjing Li, Bin Wang, Jin Dai, Yan Kou, Xiaojun Chen ...
 
 
 
Diff-AMP: tailored designed antimicrobial peptide framework with all-in-one generation, identification, prediction and optimization border= 
 
Rui Wang, Tao Wang, Linlin Zhuo, Jinhang Wei, Xiangzheng Fu ...
 
 
 
A novel approach to study multi-domain motions in JAK1's activation mechanism based on energy landscape border= 
 
Shengjie Sun, Georgialina Rodriguez, Gaoshu Zhao, Jason E Sanchez, Wenhan Guo ...
 
 
 
Multiscale topology in interactomic network: from transcriptome to antiaddiction drug repurposing border= 
 
Hongyan Du, Guo-Wei Wei, Tingjun Hou
 
 
 
Enhancer-MDLF: a novel deep learning framework for identifying cell-specific enhancers border= 
 
Yao Zhang, Pengyu Zhang, Hao Wu
 
 
 
Single-residue linear and conformational B cell epitopes prediction using random and ESM-2 based projections border= 
 
Sapir Israeli, Yoram Louzoun
 
 
 
metaProbiotics: a tool for mining probiotic from metagenomic binning data based on a language model border= 
 
Shufang Wu, Tao Feng, Waijiao Tang, Cancan Qi, Jie Gao ...
 
 
 
MRSL: a causal network pruning algorithm based on GWAS summary data border=  
 
Lei Hou, Zhi Geng, Zhongshang Yuan, Xu Shi, Chuan Wang ...
 
 
 
MHCpLogics: an interactive machine learning-based tool for unsupervised data visualization and cluster analysis of immunopeptidomes border= 
 
Mohammad Shahbazy, Sri H Ramarathinam, Chen Li, Patricia T Illing, Pouya Faridi ...
 
 
 
PANCDR: precise medicine prediction using an adversarial network for cancer drug response border= 
 
Juyeon Kim, Sung-Hye Park, Hyunju Lee
 
 
 
High-throughput prediction of enzyme promiscuity based on substrate'product pairs border= 
 
Huadong Xing, Pengli Cai, Dongliang Liu, Mengying Han, Juan Liu ...
 
 
 
scGIR: deciphering cellular heterogeneity via gene ranking in single-cell weighted gene correlation networks border= 
 
Fei Xu, Huan Hu, Hai Lin, Jun Lu, Feng Cheng ...
 
 
 
Deep reinforcement learning identifies personalized intermittent androgen deprivation therapy for prostate cancer border= 
 
Yitao Lu, Qian Chu, Zhen Li, Mengdi Wang, Robert Gatenby ...
 
 
 
Incorporating network diffusion and peak location information for better single-cell ATAC-seq data analysis border= 
 
Jiating Yu, Jiacheng Leng, Zhichao Hou, Duanchen Sun, Ling-Yun Wu
 
 
 
DeTox: a pipeline for the detection of toxins in venomous organisms border=  
 
Allan Ringeval, Sarah Farhat, Alexander Fedosov, Marco Gerdol, Samuele Greco ...
 
 
 
scENCORE: leveraging single-cell epigenetic data to predict chromatin conformation using graph embedding 
 
Ziheng Duan, Siwei Xu, Shushrruth Sai Srinivasan, Ahyeon Hwang, Che Yu Lee ...
 
 
 
FusionNW, a potential clinical impact assessment of kinases in pan-cancer fusion gene network border= 
 
Chengyuan Yang, Himansu Kumar, Pora Kim
 
 
 
scMLC: an accurate and robust multiplex community detection method for single-cell multi-omics data border= 
 
Yuxuan Chen, Ruiqing Zheng, Jin Liu, Min Li
 
 
 
Effective multi-modal clustering method via skip aggregation network for parallel scRNA-seq and scATAC-seq data border= 
 
Dayu Hu, Ke Liang, Zhibin Dong, Jun Wang, Yawei Zhao ...
 
 
 
ReHoGCNES-MDA: prediction of miRNA-disease associations using homogenous graph convolutional networks based on regular graph with random edge sampler border= 
 
Yufang Zhang, Yanyi Chu, Shenggeng Lin, Yi Xiong, Dong-Qing Wei
 
 
 
GPCR-IPL score: multilevel featurization of GPCR'ligand interaction patterns and prediction of ligand functions from selectivity to biased activation border= 
 
Surendra Kumar, Mahesh K Teli, Mi-hyun Kim
 
 
 
polyGBLUP: a modified genomic best linear unbiased prediction improved the genomic prediction efficiency for autopolyploid species border= 
 
Hailiang Song, Qin Zhang, Hongxia Hu
 
 
 
pathMap: a path-based mapping tool for long noisy reads with high sensitivity border=  
 
Ze-Gang Wei, Xiao-Dan Zhang, Xing-Guo Fan, Yu Qian, Fei Liu ...
 
 
 
DDK-Linker: a network-based strategy identifies disease signals by linking high-throughput omics datasets to disease knowledge border= 
 
Xiangren Kong, Lihong Diao, Peng Jiang, Shiyan Nie, Shuzhen Guo ...
 
 
 
DEMO-EM2: assembling protein complex structures from cryo-EM maps through intertwined chain and domain fitting border= 
 
Ziying Zhang, Yaxian Cai, Biao Zhang, Wei Zheng, Lydia Freddolino ...
 
 
 
MoCoLo: a testing framework for motif co-localization border=  
 
Qi Xu, Imee M A del Mundo, Maha Zewail-Foote, Brian T Luke, Karen M Vasquez ...
 
 
 
Reviews
 
 
 
 
>From G1 to M: a comparative study of methods for identifying cell cycle phases border= 
 
Xinyu Guo, Liang Chen
 
 
 
Prediction of cancer driver genes and mutations: the potential of integrative computational frameworks border= 
 
Mona Nourbakhsh, Kristine Degn, Astrid Saksager, Matteo Tiberti, Elena Papaleo
 
 
 
Bioinformatics of germline variant discovery for rare disease diagnostics: current approaches and remaining challenges border= 
 
Yury A Barbitoff, Mikhail O Ushakov, Tatyana E Lazareva, Yulia A Nasykhova, Andrey S Glotov ...
 
 
 
The landscape of the methodology in drug repurposing using human genomic data: a systematic review 
 
Lijuan Wang, Ying Lu, Doudou Li, Yajing Zhou, Lili Yu ...
 
 
 
Benchmarking of computational methods for m6A profiling with Nanopore direct RNA sequencing border= 
 
Simone Maestri, Mattia Furlan, Logan Mulroney, Lucia Coscujuela Tarrero, Camilla Ugolini ...
 
 
 
Network propagation for GWAS analysis: a practical guide to leveraging molecular networks for disease gene discovery border= 
 
Giovanni Visonà, Emmanuelle Bouzigon, Florence Demenais, Gabriele Schweikert
 
 
 
On the core segmentation algorithms of copy number variation detection tools border=  
 
Yibo Zhang, Wenyu Liu, Junbo Duan
 
 
 
Veterinary systems biology for bridging the phenotype'genotype gap via computational modeling for disease epidemiology and animal welfare border= 
 
Rajesh Kumar Pathak, Jun-Mo Kim
 
 
 
New techniques to identify the tissue of origin for cancer of unknown primary in the era of precision medicine: progress and challenges border= 
 
Wenyuan Ma, Hui Wu, Yiran Chen, Hongxia Xu, Junjie Jiang ...
 
 
 
Chromosome structure modeling tools and their evaluation in bacteria border=  
 
Tong Liu, Qin-Tian Qiu, Kang-Jian Hua, Bin-Guang Ma
 
 
 
ABAG-docking benchmark: a non-redundant structure benchmark dataset for antibody'antigen computational docking border= 
 
Nan Zhao, Bingqing Han, Cuicui Zhao, Jinbo Xu, Xinqi Gong
 
 
 
A comprehensive computational benchmark for evaluating deep learning-based protein function prediction approaches border= 
 
Wenkang Wang, Yunyan Shuai, Qiurong Yang, Fuhao Zhang, Min Zeng ...
 
 
 
New classifications for quantum bioinformatics: Q-bioinformatics, QCt-bioinformatics, QCg-bioinformatics, and QCr-bioinformatics border= 
 
Majid Mokhtari, Samane Khoshbakht, Kobra Ziyaei, Mohammad Esmaeil Akbari, Sayyed Sajjad Moravveji
 
 
 
Cracking the black box of deep sequence-based protein'protein interaction prediction border= 
 
Judith Bernett, David B Blumenthal, Markus List
 
 
 
Prediction of protein'ligand binding affinity via deep learning models border=  
 
Huiwen Wang
 
 
 
Deep learning in spatially resolved transcriptfomics: a comprehensive technical view border= 
 
Roxana Zahedi, Reza Ghamsari, Ahmadreza Argha, Callum Macphillamy, Amin Beheshti ...
 
 
 
Benchmarking multi-omics integration algorithms across single-cell RNA and ATAC data border= 
 
Chuxi Xiao, Yixin Chen, Qiuchen Meng, Lei Wei, Xuegong Zhang
 
 
 
Translational bioinformatics and data science for biomarker discovery in mental health: an analytical review border= 
 
Krithika Bhuvaneshwar, Yuriy Gusev
 
 
 
Comparative analysis of models in predicting the effects of SNPs on TF-DNA binding using large-scale in vitro and in vivo data border= 
 
Dongmei Han, Yurun Li, Linxiao Wang, Xuan Liang, Yuanyuan Miao ...
 
 
 
Case Study
 
 
 
 
Computational insights into the cross-talk between medin and Abeta : implications for age-related vascular risk factors in Alzheimer's disease border= 
 
Fengjuan Huang, Xinjie Fan, Ying Wang, Yu Zou, Jiangfang Lian ...
 
 
 
Deciphering principles of nucleosome interactions and impact of cancer-associated mutations from comprehensive interaction network analysis border= 
 
Wang Xu, Houfang Zhang, Wenhan Guo, Lijun Jiang, Yunjie Zhao ...
 
 
 
Genomic hallmarks and therapeutic targets of ribosome biogenesis in cancer border=  
 
Yue Zang, Xia Ran, Jie Yuan, Hao Wu, Youya Wang ...
 
 
 
Standigm ASKâ"¢: knowledge graph and artificial intelligence platform applied to target discovery in idiopathic pulmonary fibrosis border= 
 
Seokjin Han, Ji Eun Lee, Seolhee Kang, Minyoung So, Hee Jin ...
 
 
 
Ion entropy and accurate entropy-based FDR estimation in metabolomics border=  
 
Shaowei An, Miaoshan Lu, Ruimin Wang, Jinyin Wang, Hengxuan Jiang ...
 
 
 
Elevated incidence of somatic mutations at prevalent genetic sites border=  
 
Mengyao Wang, Shuai Cheng Li, Bairong Shen
 
 
 
Enhanced polygenic risk score incorporating gene'environment interaction suggests the association of major depressive disorder with cardiac and lung function border= 
 
Chuyu Pan, Bolun Cheng, Xiaoyue Qin, Shiqiang Cheng, Li Liu ...
 
 
 
SuperCUT, an unsupervised multimodal image registration with deep learning for biomedical microscopy border= 
 
Istvan Grexa, Zsanett Zsófia Iván, Ede Migh, Ferenc Kovács, Hella A Bolck ...
 
 
 
Ovarian cancer is detectable from peripheral blood using machine learning over T-cell receptor repertoires border= 
 
Miriam Zuckerbrot-Schuldenfrei, Sarit Aviel-Ronen, Alona Zilberberg, Sol Efroni
 
 
 
Letter to Editor
 
 
 
 
Evaluating the efficacy of MEANGS for mitochondrial genome assembly of cartilaginous and ray-finned fish species border= 
 
Sheng-Yong Xu, Shan-Shan Cai, Zhi-Qiang Han
 
 
 
Opinion Article
 
 
 
 
The rise of taxon-specific epitope predictors border= 
 
Felipe Campelo, Francisco P Lobo
 
 
 
Correction
 
 
 
 
Correction to: labelSeg: segment annotation for tumor copy number alteration profiles border= 
 
 
 
 
Correction to: JCcirc: circRNA full-length sequence assembly through integrated junction contigs 
 
 
 
 
Correction to: Privacy-aware estimation of relatedness in admixed populations 
 
 
 
 
Correction to: From data to diagnosis: how machine learning is revolutionizing biomarker discovery in idiopathic inflammatory myopathies border= 
 
 
 
 
Correction to: A benchmark study on current GWAS models in admixed populations border= 
 
 
 
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