Works matching IS 13674803 AND DT 2022 AND VI 38 AND IP 20

Results: 33

TVAR: assessing tissue-specific functional effects of non-coding variants with deep learning.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4697, doi. 10.1093/bioinformatics/btac608

By:

Yang, Hai;
Chen, Rui;
Wang, Quan;
Wei, Qiang;
Ji, Ying;
Zhong, Xue;
Li, Bingshan

Publication type:

Article

closed formula relevant to 'Theory of local k-mer selection with applications to long-read alignment' by Jim Shaw and Yun William Yu.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4848, doi. 10.1093/bioinformatics/btac604

By:

Spouge, John L

Publication type:

Article

ABEILLE: a novel method for ABerrant Expression Identification empLoying machine LEarning from RNA-sequencing data.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4754, doi. 10.1093/bioinformatics/btac603

By:

Labory, Justine;
Bideau, Gwendal Le;
Pratella, David;
Yao, Jean-Elisée;
Saadi, Samira Ait-El-Mkadem;
Bannwarth, Sylvie;
El-Hami, Loubna;
Paquis-Fluckinger, Véronique;
Bottini, Silvia

Publication type:

Article

pcnaDeep: a fast and robust single-cell tracking method using deep-learning mediated cell cycle profiling.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4846, doi. 10.1093/bioinformatics/btac602

By:

Gui, Yifan;
Xie, Shuangshuang;
Wang, Yanan;
Wang, Ping;
Yao, Renzhi;
Gao, Xukai;
Dong, Yutian;
Wang, Gaoang;
Chan, Kuan Yoow

Publication type:

Article

Differential RNA methylation analysis for MeRIP-seq data under general experimental design.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4705, doi. 10.1093/bioinformatics/btac601

By:

Guo, Zhenxing;
Shafik, Andrew M;
Jin, Peng;
Wu, Hao

Publication type:

Article

grenepipe: a flexible, scalable and reproducible pipeline to automate variant calling from sequence reads.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4809, doi. 10.1093/bioinformatics/btac600

By:

Czech, Lucas;
Exposito-Alonso, Moises

Publication type:

Article

BERN2: an advanced neural biomedical named entity recognition and normalization tool.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4837, doi. 10.1093/bioinformatics/btac598

By:

Sung, Mujeen;
Jeong, Minbyul;
Choi, Yonghwa;
Kim, Donghyeon;
Lee, Jinhyuk;
Kang, Jaewoo

Publication type:

Article

MetaboAnnotator: an efficient toolbox to annotate metabolites in genome-scale metabolic reconstructions.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4831, doi. 10.1093/bioinformatics/btac596

By:

Thiele, Ines;
Preciat, German;
Fleming, Ronan M T

Publication type:

Article

I2b2-etl: Python application for importing electronic health data into the informatics for integrating biology and the bedside platform.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4833, doi. 10.1093/bioinformatics/btac595

By:

Wagholikar, Kavishwar B;
Ainsworth, Layne;
Zelle, David;
Chaney, Kira;
Mendis, Michael;
Klann, Jeffery;
Blood, Alexander J;
Miller, Angela;
Chulyadyo, Rupendra;
Oates, Michael;
Gordon, William J;
Aronson, Samuel J;
Scirica, Benjamin M;
Murphy, Shawn N

Publication type:

Article

No means 'No': a non-improper modeling approach, with embedded speculative context.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4790, doi. 10.1093/bioinformatics/btac593

By:

Tiwary, Priya;
Madhubalan, Akshayraj;
Gautam, Amit

Publication type:

Article

CovidGraph: a graph to fight COVID-19.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4843, doi. 10.1093/bioinformatics/btac592

By:

Gütebier, Lea;
Bleimehl, Tim;
Henkel, Ron;
Munro, Jamie;
Müller, Sebastian;
Morgner, Axel;
Laenge, Jakob;
Pachauer, Anke;
Erdl, Alexander;
Weimar, Jens;
Langendorf, Kirsten Walther;
Vialard, Vincent;
Liebig, Thorsten;
Preusse, Martin;
Waltemath, Dagmar;
Jarasch, Alexander

Publication type:

Article

expam—high-resolution analysis of metagenomes using distance trees.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4814, doi. 10.1093/bioinformatics/btac591

By:

Solari, Sean M;
Young, Remy B;
Marcelino, Vanessa R;
Forster, Samuel C

Publication type:

Article

scFeatures: multi-view representations of single-cell and spatial data for disease outcome prediction.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4745, doi. 10.1093/bioinformatics/btac590

By:

Cao, Yue;
Lin, Yingxin;
Patrick, Ellis;
Yang, Pengyi;
Yang, Jean Yee Hwa

Publication type:

Article

hCoCena: horizontal integration and analysis of transcriptomics datasets.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4727, doi. 10.1093/bioinformatics/btac589

By:

Oestreich, Marie;
Holsten, Lisa;
Agrawal, Shobhit;
Dahm, Kilian;
Koch, Philipp;
Jin, Han;
Becker, Matthias;
Ulas, Thomas

Publication type:

Article

APSCALE: advanced pipeline for simple yet comprehensive analyses of DNA metabarcoding data.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4817, doi. 10.1093/bioinformatics/btac588

By:

Buchner, Dominik;
Macher, Till-Hendrik;
Leese, Florian

Publication type:

Article

Heritability estimation for a linear combination of phenotypes via ridge regression.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4687, doi. 10.1093/bioinformatics/btac587

By:

Li, Xiaoguang;
Feng, Xingdong;
Liu, Xu

Publication type:

Article

Tangent normalization for somatic copy-number inference in cancer genome analysis.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4677, doi. 10.1093/bioinformatics/btac586

By:

Gao, Galen F;
Oh, Coyin;
Saksena, Gordon;
Deng, Davy;
Westlake, Lindsay C;
Hill, Barbara A;
Reich, Michael;
Schumacher, Steven E;
Berger, Ashton C;
Carter, Scott L;
Cherniack, Andrew D;
Meyerson, Matthew;
Tabak, Barbara;
Beroukhim, Rameen;
Getz, Gad

Publication type:

Article

FastMix: a versatile data integration pipeline for cell type-specific biomarker inference.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4735, doi. 10.1093/bioinformatics/btac585

By:

Zhang, Yun;
Sun, Hao;
Mandava, Aishwarya;
Aevermann, Brian D;
Kollmann, Tobias R;
Scheuermann, Richard H;
Qiu, Xing;
Qian, Yu

Publication type:

Article

DeepToA: an ensemble deep-learning approach to predicting the theater of activity of a microbiome.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4670, doi. 10.1093/bioinformatics/btac584

By:

Zeng, Wenhuan;
Gautam, Anupam;
Huson, Daniel H

Publication type:

Article

Aclust2.0: a revamped unsupervised R tool for Infinium methylation beadchips data analyses.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4820, doi. 10.1093/bioinformatics/btac583

By:

Oluwayiose, Oladele A;
Wu, Haotian;
Gao, Feng;
Baccarelli, Andrea A;
Sofer, Tamar;
Pilsner, J Richard

Publication type:

Article

propeller: testing for differences in cell type proportions in single cell data.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4720, doi. 10.1093/bioinformatics/btac582

By:

Phipson, Belinda;
Sim, Choon Boon;
Porrello, Enzo R;
Hewitt, Alex W;
Powell, Joseph;
Oshlack, Alicia

Publication type:

Article

LipidMS 3.0: an R-package and a web-based tool for LC-MS/MS data processing and lipid annotation.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4826, doi. 10.1093/bioinformatics/btac581

By:

Alcoriza-Balaguer, María Isabel;
García-Cañaveras, Juan Carlos;
Ripoll-Esteve, Francisco Javier;
Roca, Marta;
Lahoz, Agustín

Publication type:

Article

Microbench: automated metadata management for systems biology benchmarking and reproducibility in Python.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4823, doi. 10.1093/bioinformatics/btac580

By:

Lubbock, Alexander L R;
Lopez, Carlos F

Publication type:

Article

Multi-way relation-enhanced hypergraph representation learning for anti-cancer drug synergy prediction.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4782, doi. 10.1093/bioinformatics/btac579

By:

Liu, Xuan;
Song, Congzhi;
Liu, Shichao;
Li, Menglu;
Zhou, Xionghui;
Zhang, Wen

Publication type:

Article

Predicting cross-tissue hormone–gene relations using balanced word embeddings.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4771, doi. 10.1093/bioinformatics/btac578

By:

Jadhav, Aditya;
Kumar, Tarun;
Raghavendra, Mohit;
Loganathan, Tamizhini;
Narayanan, Manikandan

Publication type:

Article

Single-cell mutation calling and phylogenetic tree reconstruction with loss and recurrence.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4713, doi. 10.1093/bioinformatics/btac577

By:

Kuipers, Jack;
Singer, Jochen;
Beerenwinkel, Niko

Publication type:

Article

NetTIME: a multitask and base-pair resolution framework for improved transcription factor binding site prediction.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4762, doi. 10.1093/bioinformatics/btac569

By:

Yi, Ren;
Cho, Kyunghyun;
Bonneau, Richard

Publication type:

Article

SEMgraph: an R package for causal network inference of high-throughput data with structural equation models.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4829, doi. 10.1093/bioinformatics/btac567

By:

Grassi, Mario;
Palluzzi, Fernando;
Tarantino, Barbara

Publication type:

Article

Correction of image distortion in large-field ssEM stitching by an unsupervised intermediate-space solving network.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4797, doi. 10.1093/bioinformatics/btac566

By:

He, Bintao;
Zhang, Yan;
Zhang, Fa;
Han, Renmin

Publication type:

Article

ntHash2: recursive spaced seed hashing for nucleotide sequences.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4812, doi. 10.1093/bioinformatics/btac564

By:

Kazemi, Parham;
Wong, Johnathan;
Nikolić, Vladimir;
Mohamadi, Hamid;
Warren, René L;
Birol, Inanç

Publication type:

Article

GTFtools: a software package for analyzing various features of gene models.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4806, doi. 10.1093/bioinformatics/btac561

By:

Li, Hong-Dong;
Lin, Cui-Xiang;
Zheng, Jiantao

Publication type:

Article

GameRank: R package for feature selection and construction.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4840, doi. 10.1093/bioinformatics/btac552

By:

Henneges, Carsten;
Paulson, Joseph N

Publication type:

Article

Theory of local k-mer selection with applications to long-read alignment.

Published in:

Bioinformatics, 2022, v. 38, n. 20, p. 4659, doi. 10.1093/bioinformatics/btab790

By:

Shaw, Jim;
Yu, Yun William

Publication type:

Article