Works matching IS 14675463 AND DT 2022 AND VI 23 AND IP 6

Results: 77

vsRNAfinder: a novel method for identifying high-confidence viral small RNAs from small RNA-Seq data.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac496

By:

Cai, Zena;
Fu, Ping;
Qiu, Ye;
Wu, Aiping;
Zhang, Gaihua;
Wang, Yirong;
Jiang, Taijiao;
Ge, Xing-Yi;
Zhu, Haizhen;
Peng, Yousong

Publication type:

Article

Ensembles of knowledge graph embedding models improve predictions for drug discovery.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac481

By:

Rivas-Barragan, Daniel;
Domingo-Fernández, Daniel;
Gadiya, Yojana;
Healey, David

Publication type:

Article

MNMDCDA: prediction of circRNA–disease associations by learning mixed neighborhood information from multiple distances.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac479

By:

Li, Yang;
Hu, Xue-Gang;
Wang, Lei;
Li, Pei-Pei;
You, Zhu-Hong

Publication type:

Article

DAESTB: inferring associations of small molecule–miRNA via a scalable tree boosting model based on deep autoencoder.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac478

By:

Peng, Li;
Tu, Yuan;
Huang, Li;
Li, Yang;
Fu, Xiangzheng;
Chen, Xiang

Publication type:

Article

Correction: Insights from analyses of low complexity regions with canonical methods for protein sequence comparison.

Published in:: 2022
Publication type:: Correction Notice

Privacy-aware estimation of relatedness in admixed populations.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac473

By:

Wang, Su;
Kim, Miran;
Li, Wentao;
Jiang, Xiaoqian;
Chen, Han;
Harmanci, Arif

Publication type:

Article

Multi-model predictive analysis of RNA solvent accessibility based on modified residual attention mechanism.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac470

By:

Huang, Yuyao;
Luo, Jiesi;
Jing, Runyu;
Li, Menglong

Publication type:

Article

Deep learning identifies explainable reasoning paths of mechanism of action for drug repurposing from multilayer biological network.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac469

By:

Yang, Jiannan;
Li, Zhen;
Wu, William Ka Kei;
Yu, Shi;
Xu, Zhongzhi;
Chu, Qian;
Zhang, Qingpeng

Publication type:

Article

Predicting drug–target binding affinity through molecule representation block based on multi-head attention and skip connection.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac468

By:

Zhang, Li;
Wang, Chun-Chun;
Chen, Xing

Publication type:

Article

Clarion is a multi-label problem transformation method for identifying mRNA subcellular localizations.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac467

By:

Bi, Yue;
Li, Fuyi;
Guo, Xudong;
Wang, Zhikang;
Pan, Tong;
Guo, Yuming;
Webb, Geoffrey I;
Yao, Jianhua;
Jia, Cangzhi;
Song, Jiangning

Publication type:

Article

e-TSN: an interactive visual exploration platform for target–disease knowledge mapping from literature.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac465

By:

Feng, Ziyan;
Shen, Zihao;
Li, Honglin;
Li, Shiliang

Publication type:

Article

BISC: accurate inference of transcriptional bursting kinetics from single-cell transcriptomic data.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac464

By:

Luo, Xizhi;
Qin, Fei;
Xiao, Feifei;
Cai, Guoshuai

Publication type:

Article

Predicting the potential human lncRNA–miRNA interactions based on graph convolution network with conditional random field.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac463

By:

Wang, Wenya;
Zhang, Li;
Sun, Jianqiang;
Zhao, Qi;
Shuai, Jianwei

Publication type:

Article

ACP_MS: prediction of anticancer peptides based on feature extraction.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac462

By:

Zhou, Caimao;
Peng, Dejun;
Liao, Bo;
Jia, Ranran;
Wu, Fangxiang

Publication type:

Article

CysModDB: a comprehensive platform with the integration of manually curated resources and analysis tools for cysteine posttranslational modifications.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac460

By:

Meng, Yanzheng;
Zhang, Lin;
Zhang, Laizhi;
Wang, Ziyu;
Wang, Xuanwen;
Li, Chan;
Chen, Yu;
Shang, Shipeng;
Li, Lei

Publication type:

Article

Assessing polygenic risk score models for applications in populations with under-represented genomics data: an example of Vietnam.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac459

By:

Pham, Duy;
Truong, Buu;
Tran, Khai;
Ni, Guiyan;
Nguyen, Dat;
Tran, Trang T H;
Tran, Mai H;
Thuy, Duong Nguyen;
Vo, Nam S;
Nguyen, Quan

Publication type:

Article

new framework for drug–disease association prediction combing light-gated message passing neural network and gated fusion mechanism.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac457

By:

Liu, Bao-Min;
Gao, Ying-Lian;
Zhang, Dai-Jun;
Zhou, Feng;
Wang, Juan;
Zheng, Chun-Hou;
Liu, Jin-Xing

Publication type:

Article

Discovery of host-directed modulators of virus infection by probing the SARS-CoV-2–host protein–protein interaction network.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac456

By:

Ravindran, Vandana;
Wagoner, Jessica;
Athanasiadis, Paschalis;
Hartigh, Andreas B Den;
Sidorova, Julia M;
Ianevski, Aleksandr;
Fink, Susan L;
Frigessi, Arnoldo;
White, Judith;
Polyak, Stephen J;
Aittokallio, Tero

Publication type:

Article

DeepLncPro: an interpretable convolutional neural network model for identifying long non-coding RNA promoters.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac447

By:

Zhang, Tianyang;
Tang, Qiang;
Nie, Fulei;
Zhao, Qi;
Chen, Wei

Publication type:

Article

updated overview of experimental and computational approaches to identify non-canonical DNA/RNA structures with emphasis on G-quadruplexes and R-loops.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac441

By:

Shi, Xiaohui;
Teng, Huajing;
Sun, Zhongsheng

Publication type:

Article

Open tools for quantitative anonymization of tabular phenotype data: literature review.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac440

By:

Haber, Anna C;
Sax, Ulrich;
Prasser, Fabian;
Consortium, the NFDI4Health

Publication type:

Article

Computational methods to explore chromatin state dynamics.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac439

By:

Orouji, Elias;
Raman, Ayush T

Publication type:

Article

Quantum computing algorithms: getting closer to critical problems in computational biology.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac437

By:

Marchetti, Laura;
Nifosì, Riccardo;
Martelli, Pier Luigi;
Pozzo, Eleonora Da;
Cappello, Valentina;
Banterle, Francesco;
Trincavelli, Maria Letizia;
Martini, Claudia;
D'Elia, Massimo

Publication type:

Article

Machine learning alternative to systems biology should not solely depend on data.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac436

By:

Yeo, Hock Chuan;
Selvarajoo, Kumar

Publication type:

Article

Deep learning radiomics under multimodality explore association between muscle/fat and metastasis and survival in breast cancer patients.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac432

By:

Miao, Shidi;
Jia, Haobo;
Cheng, Ke;
Hu, Xiaohui;
Li, Jing;
Huang, Wenjuan;
Wang, Ruitao

Publication type:

Article

MuSiC2: cell-type deconvolution for multi-condition bulk RNA-seq data.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac430

By:

Fan, Jiaxin;
Lyu, Yafei;
Zhang, Qihuang;
Wang, Xuran;
Li, Mingyao;
Xiao, Rui

Publication type:

Article

ILGBMSH: an interpretable classification model for the shRNA target prediction with ensemble learning algorithm.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac429

By:

Zhao, Chengkui;
Xu, Nan;
Tan, Jingwen;
Cheng, Qi;
Xie, Weixin;
Xu, Jiayu;
Wei, Zhenyu;
Ye, Jing;
Yu, Lei;
Feng, Weixing

Publication type:

Article

Handcrafted versus non-handcrafted (self-supervised) features for the classification of antimicrobial peptides: complementary or redundant?

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac428

By:

García-Jacas, César R;
García-González, Luis A;
Martinez-Rios, Felix;
Tapia-Contreras, Issac P;
Brizuela, Carlos A

Publication type:

Article

Artificial intelligence-driven prediction of multiple drug interactions.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac427

By:

Chen, Siqi;
Li, Tiancheng;
Yang, Luna;
Zhai, Fei;
Jiang, Xiwei;
Xiang, Rongwu;
Ling, Guixia

Publication type:

Article

GR2D2 estimator for the precision matrices.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac426

By:

Gan, Dailin;
Yin, Guosheng;
Zhang, Yan Dora

Publication type:

Article

PlantBind: an attention-based multi-label neural network for predicting plant transcription factor binding sites.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac425

By:

Yan, Wenkai;
Li, Zutan;
Pian, Cong;
Wu, Yufeng

Publication type:

Article

dynDeepDRIM: a dynamic deep learning model to infer direct regulatory interactions using time-course single-cell gene expression data.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac424

By:

Xu, Yu;
Chen, Jiaxing;
Lyu, Aiping;
Cheung, William K;
Zhang, Lu

Publication type:

Article

Microbe-bridged disease-metabolite associations identification by heterogeneous graph fusion.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac423

By:

Feng, Jitong;
Wu, Shengbo;
Yang, Hongpeng;
Ai, Chengwei;
Qiao, Jianjun;
Xu, Junhai;
Guo, Fei

Publication type:

Article

CReSIL: accurate identification of extrachromosomal circular DNA from long-read sequences.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac422

By:

Wanchai, Visanu;
Jenjaroenpun, Piroon;
Leangapichart, Thongpan;
Arrey, Gerard;
Burnham, Charles M;
Tümmler, Maria C;
Delgado-Calle, Jesus;
Regenberg, Birgitte;
Nookaew, Intawat

Publication type:

Article

FCCCSR_Glu: a semi-supervised learning model based on FCCCSR algorithm for prediction of glutarylation sites.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac421

By:

Ning, Qiao;
Qi, Zedong;
Wang, Yue;
Deng, Ansheng;
Chen, Chen

Publication type:

Article

LION: an integrated R package for effective prediction of ncRNA–protein interaction.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac420

By:

Han, Siyu;
Yang, Xiao;
Sun, Hang;
Yang, Hu;
Zhang, Qi;
Peng, Cheng;
Fang, Wensi;
Li, Ying

Publication type:

Article

PPMS: A framework to Profile Primary MicroRNAs from Single-cell RNA-sequencing datasets.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac419

By:

Ji, Jiahui;
Anwar, Maryam;
Petretto, Enrico;
Emanueli, Costanza;
Srivastava, Prashant Kumar

Publication type:

Article

Predicting the structure of unexplored novel fentanyl analogues by deep learning model.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac418

By:

Zhang, Yuan;
Jiang, Qiaoyan;
Li, Ling;
Li, Zutan;
Xu, Zhihui;
Chen, Yuanyuan;
Sun, Yang;
Liu, Cheng;
Mao, Zhengsheng;
Chen, Feng;
Li, Hualan;
Cao, Yue;
Pian, Cong

Publication type:

Article

NetTDP: permutation-based true discovery proportions for differential co-expression network analysis.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac417

By:

Cai, Menglan;
Vesely, Anna;
Chen, Xu;
Li, Limin;
Goeman, Jelle J

Publication type:

Article

Propagation, detection and correction of errors using the sequence database network.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac416

By:

Goudey, Benjamin;
Geard, Nicholas;
Verspoor, Karin;
Zobel, Justin

Publication type:

Article

Integrating bioinformatic strategies in spatial life science research.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac415

By:

Hao, Yangyang;
Lu, Liang;
Liu, Anna;
Lin, Xue;
Xiao, Li;
Kong, Xiaoyue;
Li, Kai;
Liang, Fengji;
Xiong, Jianghui;
Qu, Lina;
Li, Yinghui;
Li, Jian

Publication type:

Article

High-dimensional genomic feature selection with the ordered stereotype logit model.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac414

By:

Seffernick, Anna Eames;
Mrózek, Krzysztof;
Nicolet, Deedra;
Stone, Richard M;
Eisfeld, Ann-Kathrin;
Byrd, John C;
Archer, Kellie J

Publication type:

Article

Critical assessment of pan-genomic analysis of metagenome-assembled genomes.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac413

By:

Li, Tang;
Yin, Yanbin

Publication type:

Article

Decoding brain memory formation by single-cell RNA sequencing.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac412

By:

Sardoo, Atlas M;
Zhang, Shaoqiang;
Ferraro, Thomas N;
Keck, Thomas M;
Chen, Yong

Publication type:

Article

ncRNAInter: a novel strategy based on graph neural network to discover interactions between lncRNA and miRNA.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac411

By:

Zhang, Hanyu;
Wang, Yunxia;
Pan, Ziqi;
Sun, Xiuna;
Mou, Minjie;
Zhang, Bing;
Li, Zhaorong;
Li, Honglin;
Zhu, Feng

Publication type:

Article

Data-driven patient stratification of UK Biobank cohort suggests five endotypes of multimorbidity.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac410

By:

Prasad, Bodhayan;
Bjourson, Anthony J;
Shukla, Priyank

Publication type:

Article

BioGPT: generative pre-trained transformer for biomedical text generation and mining.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac409

By:

Luo, Renqian;
Sun, Liai;
Xia, Yingce;
Qin, Tao;
Zhang, Sheng;
Poon, Hoifung;
Liu, Tie-Yan

Publication type:

Article

FP-GNN: a versatile deep learning architecture for enhanced molecular property prediction.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac408

By:

Cai, Hanxuan;
Zhang, Huimin;
Zhao, Duancheng;
Wu, Jingxing;
Wang, Ling

Publication type:

Article

Updated review of advances in microRNAs and complex diseases: towards systematic evaluation of computational models.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac407

By:

Huang, Li;
Zhang, Li;
Chen, Xing

Publication type:

Article

iDVIP: identification and characterization of viral integrase inhibitory peptides.

Published in:

Briefings in Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1093/bib/bbac406

By:

Huang, Kai-Yao;
Kao, Hui-Ju;
Weng, Tzu-Hsiang;
Chen, Chia-Hung;
Weng, Shun-Long

Publication type:

Article