Works matching IS 13674803 AND DT 2022 AND VI 38 AND IP 19

Results: 32

Isoform function prediction by Gene Ontology embedding.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4581, doi. 10.1093/bioinformatics/btac576

By:

Qiu, Sichao;
Yu, Guoxian;
Lu, Xudong;
Domeniconi, Carlotta;
Guo, Maozu

Publication type:

Article

CLNN-loop: a deep learning model to predict CTCF-mediated chromatin loops in the different cell lines and CTCF-binding sites (CBS) pair types.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4497, doi. 10.1093/bioinformatics/btac575

By:

Zhang, Pengyu;
Wu, Yingfu;
Zhou, Haoru;
Zhou, Bing;
Zhang, Hongming;
Wu, Hao

Publication type:

Article

Predicting cancer drug response using parallel heterogeneous graph convolutional networks with neighborhood interactions.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4546, doi. 10.1093/bioinformatics/btac574

By:

Peng, Wei;
Liu, Hancheng;
Dai, Wei;
Yu, Ning;
Wang, Jianxin

Publication type:

Article

YAMACS: a graphical interface for GROMACS.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4645, doi. 10.1093/bioinformatics/btac573

By:

Sarkar, Arkadeep;
Santoro, Jacopo;
Biasi, Luigi Di;
Marrafino, Francesco;
Piotto, Stefano

Publication type:

Article

MMGraph: a multiple motif predictor based on graph neural network and coexisting probability for ATAC-seq data.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4636, doi. 10.1093/bioinformatics/btac572

By:

Zhang, Shuangquan;
Yang, Lili;
Wu, Xiaotian;
Sheng, Nan;
Fu, Yuan;
Ma, Anjun;
Wang, Yan

Publication type:

Article

HNOXPred: a web tool for the prediction of gas-sensing H-NOX proteins from amino acid sequence.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4643, doi. 10.1093/bioinformatics/btac571

By:

Jiang, Shiyu;
Abdalla, Hemn Barzan;
Bi, Chuyun;
Zhu, Yi;
Tian, Xuechen;
Yang, Yixin;
Wong, Aloysius

Publication type:

Article

scWMC: weighted matrix completion-based imputation of scRNA-seq data via prior subspace information.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4537, doi. 10.1093/bioinformatics/btac570

By:

Su, Yanchi;
Wang, Fuzhou;
Zhang, Shixiong;
Liang, Yanchun;
Wong, Ka-Chun;
Li, Xiangtao

Publication type:

Article

Beacon v2 Reference Implementation: a toolkit to enable federated sharing of genomic and phenotypic data.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4656, doi. 10.1093/bioinformatics/btac568

By:

Rueda, Manuel;
Ariosa, Roberto;
Moldes, Mauricio;
Rambla, Jordi

Publication type:

Article

Fec: a fast error correction method based on two-rounds overlapping and caching.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4629, doi. 10.1093/bioinformatics/btac565

By:

Zhang, Jun;
Nie, Fan;
Huang, Neng;
Ni, Peng;
Luo, Feng;
Wang, Jianxin

Publication type:

Article

Omnibus and robust deconvolution scheme for bulk RNA sequencing data integrating multiple single-cell reference sets and prior biological knowledge.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4530, doi. 10.1093/bioinformatics/btac563

By:

Chen, Chixiang;
Leung, Yuk Yee;
Ionita, Matei;
Wang, Li-San;
Li, Mingyao

Publication type:

Article

FASTQ+ format and PISA.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4639, doi. 10.1093/bioinformatics/btac562

By:

Shi, Quan;
Liu, Shiping;
Kristiansen, Karsten;
Liu, Longqi

Publication type:

Article

Graph attention network for link prediction of gene regulations from single-cell RNA-sequencing data.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4522, doi. 10.1093/bioinformatics/btac559

By:

Chen, Guangyi;
Liu, Zhi-Ping

Publication type:

Article

spatial attention guided deep learning system for prediction of pathological complete response using breast cancer histopathology images.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4605, doi. 10.1093/bioinformatics/btac558

By:

Duanmu, Hongyi;
Bhattarai, Shristi;
Li, Hongxiao;
Shi, Zhan;
Wang, Fusheng;
Teodoro, George;
Gogineni, Keerthi;
Subhedar, Preeti;
Kiraz, Umay;
Janssen, Emiel A M;
Aneja, Ritu;
Kong, Jun

Publication type:

Article

Metagenomic binning with assembly graph embeddings.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4481, doi. 10.1093/bioinformatics/btac557

By:

Lamurias, Andre;
Sereika, Mantas;
Albertsen, Mads;
Hose, Katja;
Nielsen, Thomas Dyhre

Publication type:

Article

medna-metadata: an open-source data management system for tracking environmental DNA samples and metadata.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4589, doi. 10.1093/bioinformatics/btac556

By:

Kimble, M;
Allers, S;
Campbell, K;
Chen, C;
Jackson, L M;
King, B L;
Silverbrand, S;
York, G;
Beard, K

Publication type:

Article

Detecting and quantifying antibody reactivity in PhIP-Seq data with BEER.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4647, doi. 10.1093/bioinformatics/btac555

By:

Chen, Athena;
Kammers, Kai;
Larman, H Benjamin;
Scharpf, Robert B;
Ruczinski, Ingo

Publication type:

Article

FastRemap: a tool for quickly remapping reads between genome assemblies.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4633, doi. 10.1093/bioinformatics/btac554

By:

Kim, Jeremie S;
Firtina, Can;
Cavlak, Meryem Banu;
Cali, Damla Senol;
Alkan, Can;
Mutlu, Onur

Publication type:

Article

Structural analogue-based protein structure domain assembly assisted by deep learning.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4513, doi. 10.1093/bioinformatics/btac553

By:

Peng, Chun-Xiang;
Zhou, Xiao-Gen;
Xia, Yu-Hao;
Liu, Jun;
Hou, Ming-Hua;
Zhang, Gui-Jun

Publication type:

Article

Deep Local Analysis evaluates protein docking conformations with locally oriented cubes.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4505, doi. 10.1093/bioinformatics/btac551

By:

Behbahani, Yasser Mohseni;
Crouzet, Simon;
Laine, Elodie;
Carbone, Alessandra

Publication type:

Article

MultiGran-SMILES: multi-granularity SMILES learning for molecular property prediction.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4573, doi. 10.1093/bioinformatics/btac550

By:

Jiang, Jing;
Zhang, Ruisheng;
Zhao, Zhili;
Ma, Jun;
Liu, Yunwu;
Yuan, Yongna;
Niu, Bojuan

Publication type:

Article

mBrainAligner-Web: a web server for cross-modal coherent registration of whole mouse brains.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4654, doi. 10.1093/bioinformatics/btac549

By:

Li, Yuanyuan;
Wu, Jun;
Lu, Donghuan;
Xu, Chao;
Zheng, Yefeng;
Peng, Hanchuan;
Qu, Lei

Publication type:

Article

Detection of orthologous exons and isoforms using EGIO.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4474, doi. 10.1093/bioinformatics/btac548

By:

Ma, Jinfa;
Wu, Jane Y;
Zhu, Li

Publication type:

Article

Guided interactive image segmentation using machine learning and color-based image set clustering.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4622, doi. 10.1093/bioinformatics/btac547

By:

Friebel, Adrian;
Johann, Tim;
Drasdo, Dirk;
Hoehme, Stefan

Publication type:

Article

massDatabase: utilities for the operation of the public compound and pathway database.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4650, doi. 10.1093/bioinformatics/btac546

By:

Shen, Xiaotao;
Wang, Chuchu;
Snyder, Michael P

Publication type:

Article

Stitching and registering highly multiplexed whole-slide images of tissues and tumors using ASHLAR.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4613, doi. 10.1093/bioinformatics/btac544

By:

Muhlich, Jeremy L;
Chen, Yu-An;
Yapp, Clarence;
Russell, Douglas;
Santagata, Sandro;
Sorger, Peter K

Publication type:

Article

MICER: a pre-trained encoder–decoder architecture for molecular image captioning.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4562, doi. 10.1093/bioinformatics/btac545

By:

Yi, Jiacai;
Wu, Chengkun;
Zhang, Xiaochen;
Xiao, Xinyi;
Qiu, Yanlong;
Zhao, Wentao;
Hou, Tingjun;
Cao, Dongsheng

Publication type:

Article

Neural Collective Matrix Factorization for integrated analysis of heterogeneous biomedical data.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4554, doi. 10.1093/bioinformatics/btac543

By:

Mariappan, Ragunathan;
Jayagopal, Aishwarya;
Sien, Ho Zong;
Rajan, Vaibhav

Publication type:

Article

Comparing Petri net-based models of biological systems using Holmes.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4652, doi. 10.1093/bioinformatics/btac540

By:

Szawulak, Bartłomiej;
Radom, Marcin;
Formanowicz, Piotr

Publication type:

Article

Hierarchical deep learning for predicting GO annotations by integrating protein knowledge.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4488, doi. 10.1093/bioinformatics/btac536

By:

Merino, Gabriela A;
Saidi, Rabie;
Milone, Diego H;
Stegmayer, Georgina;
Martin, Maria J

Publication type:

Article

Prediction of gene co-expression from chromatin contacts with graph attention network.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4457, doi. 10.1093/bioinformatics/btac535

By:

Zhang, Ke;
Wang, Chenxi;
Sun, Liping;
Zheng, Jie

Publication type:

Article

3D GAN image synthesis and dataset quality assessment for bacterial biofilm.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4598, doi. 10.1093/bioinformatics/btac529

By:

Wang, Jie;
Tabassum, Nazia;
Toma, Tanjin T;
Wang, Yibo;
Gahlmann, Andreas;
Acton, Scott T

Publication type:

Article

DBFE: distribution-based feature extraction from structural variants in whole-genome data.

Published in:

Bioinformatics, 2022, v. 38, n. 19, p. 4466, doi. 10.1093/bioinformatics/btac513

By:

Piernik, Maciej;
Brzezinski, Dariusz;
Sztromwasser, Pawel;
Pacewicz, Klaudia;
Majer-Burman, Weronika;
Gniot, Michal;
Sielski, Dawid;
Bryzghalov, Oleksii;
Wozna, Alicja;
Zawadzki, Pawel

Publication type:

Article