Works matching IS 13674803 AND DT 2020 AND VI 36 AND IP 9

Results: 59

atomium—a Python structure parser.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2750, doi. 10.1093/bioinformatics/btaa072

By:

Ireland, Sam M;
Martin, Andrew C R

Publication type:

Article

The bioinformatics wealth of nations.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2963, doi. 10.1093/bioinformatics/btaa132

By:

Chasapi, Anastasia;
Promponas, Vasilis J;
Ouzounis, Christos A

Publication type:

Article

ARGminer: a web platform for the crowdsourcing-based curation of antibiotic resistance genes.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2966, doi. 10.1093/bioinformatics/btaa095

By:

Arango-Argoty, G A;
Guron, G K P;
Garner, E;
Riquelme, M V;
Heath, L S;
Pruden, A;
Vikesland, P J;
Zhang, L

Publication type:

Article

About the need to make computational models of biological macromolecules available and discoverable.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2952, doi. 10.1093/bioinformatics/btaa086

By:

Abriata, Luciano A;
Lepore, Rosalba;
Peraro, Matteo Dal

Publication type:

Article

An examination of citation-based impact of the computational biology conferences.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2958, doi. 10.1093/bioinformatics/btaa071

By:

Naidu, Jayvardan S;
Delano, Justin D;
Mathews, Scott;
Radivojac, Predrag

Publication type:

Article

decorate: differential epigenetic correlation test.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2856, doi. 10.1093/bioinformatics/btaa067

By:

Hoffman, Gabriel E;
Bendl, Jaroslav;
Girdhar, Kiran;
Roussos, Panos

Publication type:

Article

Fast and accurate correction of optical mapping data via spaced seeds.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2974, doi. 10.1093/bioinformatics/btaa101

By:

Salmela, Leena;
Mukherjee, Kingshuk;
Puglisi, Simon J;
Muggli, Martin D;
Boucher, Christina

Publication type:

Article

Statistical inference of differential RNA-editing sites from RNA-sequencing data by hierarchical modeling.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2796, doi. 10.1093/bioinformatics/btaa066

By:

Tran, Stephen S;
Zhou, Qing;
Xiao, Xinshu

Publication type:

Article

LAMPA, LArge Multidomain Protein Annotator, and its application to RNA virus polyproteins.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2731, doi. 10.1093/bioinformatics/btaa065

By:

Gulyaeva, Anastasia A;
Sigorskih, Andrey I;
Ocheredko, Elena S;
Samborskiy, Dmitry V;
Gorbalenya, Alexander E

Publication type:

Article

Bivartect: accurate and memory-saving breakpoint detection by direct read comparison.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2725, doi. 10.1093/bioinformatics/btaa059

By:

Shimmura, Keisuke;
Kato, Yuki;
Kawahara, Yukio

Publication type:

Article

Domain-adversarial multi-task framework for novel therapeutic property prediction of compounds.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2848, doi. 10.1093/bioinformatics/btaa063

By:

Xie, Lingwei;
He, Song;
Zhang, Zhongnan;
Lin, Kunhui;
Bo, Xiaochen;
Yang, Shu;
Feng, Boyuan;
Wan, Kun;
Yang, Kang;
Yang, Jie;
Ding, Yufei

Publication type:

Article

DRIMC: an improved drug repositioning approach using Bayesian inductive matrix completion.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2839, doi. 10.1093/bioinformatics/btaa062

By:

Zhang, Wenjuan;
Xu, Hunan;
Li, Xiaozhong;
Gao, Qiang;
Wang, Lin

Publication type:

Article

On the bias of H-scores for comparing biclusters, and how to correct it.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2955, doi. 10.1093/bioinformatics/btaa060

By:

Iorio, Jacopo Di;
Chiaromonte, Francesca;
Cremona, Marzia A

Publication type:

Article

Tempel: time-series mutation prediction of influenza A viruses via attention-based recurrent neural networks.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2697, doi. 10.1093/bioinformatics/btaa050

By:

Yin, Rui;
Luusua, Emil;
Dabrowski, Jan;
Zhang, Yu;
Kwoh, Chee Keong

Publication type:

Article

A Bayesian approach to accurate and robust signature detection on LINCS L1000 data.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2787, doi. 10.1093/bioinformatics/btaa064

By:

Qiu, Yue;
Lu, Tianhuan;
Lim, Hansaim;
Xie, Lei

Publication type:

Article

AptCompare: optimized de novo motif discovery of RNA aptamers via HTS-SELEX.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2905, doi. 10.1093/bioinformatics/btaa054

By:

Shieh, Kevin R;
Kratschmer, Christina;
Maier, Keith E;
Greally, John M;
Levy, Matthew;
Golden, Aaron

Publication type:

Article

UMI-VarCal: a new UMI-based variant caller that efficiently improves low-frequency variant detection in paired-end sequencing NGS libraries.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2718, doi. 10.1093/bioinformatics/btaa053

By:

Sater, Vincent;
Viailly, Pierre-Julien;
Lecroq, Thierry;
Prieur-Gaston, Élise;
Bohers, Élodie;
Viennot, Mathieu;
Ruminy, Philippe;
Dauchel, Hélène;
Vera, Pierre;
Jardin, Fabrice

Publication type:

Article

iPAC: a genome-guided assembler of isoforms via phasing and combing paths.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2712, doi. 10.1093/bioinformatics/btaa052

By:

Yu, Ting;
Liu, Juntao;
Gao, Xin;
Li, Guojun

Publication type:

Article

BioSeqZip: a collapser of NGS redundant reads for the optimization of sequence analysis.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2705, doi. 10.1093/bioinformatics/btaa051

By:

Urgese, Gianvito;
Parisi, Emanuele;
Scicolone, Orazio;
Cataldo, Santa Di;
Ficarra, Elisa

Publication type:

Article

Integrative analysis of cross-modal features for the prognosis prediction of clear cell renal cell carcinoma.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2888, doi. 10.1093/bioinformatics/btaa056

By:

Ning, Zhenyuan;
Pan, Weihao;
Chen, Yuting;
Xiao, Qing;
Zhang, Xinsen;
Luo, Jiaxiu;
Wang, Jian;
Zhang, Yu

Publication type:

Article

CoMeBack: DNA methylation array data analysis for co-methylated regions.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2675, doi. 10.1093/bioinformatics/btaa049

By:

Gatev, Evan;
Gladish, Nicole;
Mostafavi, Sara;
Kobor, Michael S

Publication type:

Article

GiniQC: a measure for quantifying noise in single-cell Hi-C data.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2902, doi. 10.1093/bioinformatics/btaa048

By:

Horton, Connor A;
Alver, Burak H;
Park, Peter J

Publication type:

Article

MODER2: first-order Markov modeling and discovery of monomeric and dimeric binding motifs.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2690, doi. 10.1093/bioinformatics/btaa045

By:

Toivonen, Jarkko;
Das, Pratyush K;
Taipale, Jussi;
Ukkonen, Esko

Publication type:

Article

Transfer index, NetUniFrac and some useful shortest path-based distances for community analysis in sequence similarity networks.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2740, doi. 10.1093/bioinformatics/btaa043

By:

Xing, Henry;
Kembel, Steven W;
Makarenkov, Vladimir

Publication type:

Article

RxnBLAST: molecular scaffold and reactive chemical environment feature extractor for biochemical reactions.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2946, doi. 10.1093/bioinformatics/btaa036

By:

Cheng, Xingxiang;
Sun, Dandan;
Zhang, Dachuan;
Tian, Yu;
Ding, Shaozhen;
Cai, Pengli;
Hu, Qian-Nan

Publication type:

Article

CytoSeg 2.0: automated extraction of actin filaments.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2950, doi. 10.1093/bioinformatics/btaa035

By:

Nowak, Jacqueline;
Gennermann, Kristin;
Nikoloski, Zoran

Publication type:

Article

PARC: ultrafast and accurate clustering of phenotypic data of millions of single cells.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2778, doi. 10.1093/bioinformatics/btaa042

By:

Stassen, Shobana V;
Siu, Dickson M D;
Lee, Kelvin C M;
Ho, Joshua W K;
So, Hayden K H;
Tsia, Kevin K

Publication type:

Article

incaRNAfbinv 2.0: a webserver and software with motif control for fragment-based design of RNAs.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2920, doi. 10.1093/bioinformatics/btaa039

By:

Retwitzer, Matan Drory;
Reinharz, Vladimir;
Churkin, Alexander;
Ponty, Yann;
Waldispühl, Jérôme;
Barash, Danny

Publication type:

Article

Secure multiparty computation for privacy-preserving drug discovery.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2872, doi. 10.1093/bioinformatics/btaa038

By:

Ma, Rong;
Li, Yi;
Li, Chenxing;
Wan, Fangping;
Hu, Hailin;
Xu, Wei;
Zeng, Jianyang

Publication type:

Article

Targeted realignment of LC-MS profiles by neighbor-wise compound-specific graphical time warping with misalignment detection.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2862, doi. 10.1093/bioinformatics/btaa037

By:

Wu, Chiung-Ting;
Wang, Yizhi;
Wang, Yinxue;
Ebbels, Timothy;
Karaman, Ibrahim;
Graça, Gonçalo;
Pinto, Rui;
Herrington, David M;
Wang, Yue;
Yu, Guoqiang

Publication type:

Article

Generalizable sgRNA design for improved CRISPR/Cas9 editing efficiency.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2684, doi. 10.1093/bioinformatics/btaa041

By:

Hiranniramol, Kasidet;
Chen, Yuhao;
Liu, Weijun;
Wang, Xiaowei

Publication type:

Article

Lineage EM algorithm for inferring latent states from cellular lineage trees.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2829, doi. 10.1093/bioinformatics/btaa040

By:

Nakashima, So;
Sughiyama, Yuki;
Kobayashi, Tetsuya J

Publication type:

Article

Differential network analysis of multiple human tissue interactomes highlights tissue-selective processes and genetic disorder genes.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2821, doi. 10.1093/bioinformatics/btaa034

By:

Basha, Omer;
Argov, Chanan M;
Artzy, Raviv;
Zoabi, Yazeed;
Hekselman, Idan;
Alfandari, Liad;
Chalifa-Caspi, Vered;
Yeger-Lotem, Esti

Publication type:

Article

Visualization of circular RNAs and their internal splicing events from transcriptomic data.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2934, doi. 10.1093/bioinformatics/btaa033

By:

Zheng, Yi;
Zhao, Fangqing

Publication type:

Article

Simulating trees with millions of species.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2907, doi. 10.1093/bioinformatics/btaa031

By:

Louca, Stilianos

Publication type:

Article

BMDx: a graphical Shiny application to perform Benchmark Dose analysis for transcriptomics data.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2932, doi. 10.1093/bioinformatics/btaa030

By:

Serra, Angela;
Saarimäki, Laura Aliisa;
Fratello, Michele;
Marwah, Veer Singh;
Greco, Dario

Publication type:

Article

3D-Cell-Annotator: an open-source active surface tool for single-cell segmentation in 3D microscopy images.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2948, doi. 10.1093/bioinformatics/btaa029

By:

Tasnadi, Ervin A;
Toth, Timea;
Kovacs, Maria;
Diosdi, Akos;
Pampaloni, Francesco;
Molnar, Jozsef;
Piccinini, Filippo;
Horvath, Peter

Publication type:

Article

RiboFlow, RiboR and RiboPy: an ecosystem for analyzing ribosome profiling data at read length resolution.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2929, doi. 10.1093/bioinformatics/btaa028

By:

Ozadam, Hakan;
Geng, Michael;
Cenik, Can

Publication type:

Article

AnnoGen: annotating genome-wide pragmatic features.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2899, doi. 10.1093/bioinformatics/btaa027

By:

Sheng, Quanhu;
Yu, Hui;
Oyebamiji, Olufunmilola;
Wang, Jiandong;
Chen, Danqian;
Ness, Scott;
Zhao, Ying-Yong;
Guo, Yan

Publication type:

Article

BAlaS: fast, interactive and accessible computational alanine-scanning using BudeAlaScan.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2917, doi. 10.1093/bioinformatics/btaa026

By:

Wood, Christopher W;
Ibarra, Amaurys A;
Bartlett, Gail J;
Wilson, Andrew J;
Woolfson, Derek N;
Sessions, Richard B

Publication type:

Article

Identifying and removing haplotypic duplication in primary genome assemblies.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2896, doi. 10.1093/bioinformatics/btaa025

By:

Guan, Dengfeng;
McCarthy, Shane A;
Wood, Jonathan;
Howe, Kerstin;
Wang, Yadong;
Durbin, Richard

Publication type:

Article

Nearest-neighbor Projected-Distance Regression (NPDR) for detecting network interactions with adjustments for multiple tests and confounding.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2770, doi. 10.1093/bioinformatics/btaa024

By:

Le, Trang T;
Dawkins, Bryan A;
McKinney, Brett A

Publication type:

Article

Curation and annotation of planarian gene expression patterns with segmented reference morphologies.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2881, doi. 10.1093/bioinformatics/btaa023

By:

Roy, Joy;
Cheung, Eric;
Bhatti, Junaid;
Muneem, Abraar;
Lobo, Daniel

Publication type:

Article

AlpsNMR: an R package for signal processing of fully untargeted NMR-based metabolomics.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2943, doi. 10.1093/bioinformatics/btaa022

By:

Madrid-Gambin, Francisco;
Oller-Moreno, Sergio;
Fernandez, Luis;
Bartova, Simona;
Giner, Maria Pilar;
Joyce, Christopher;
Ferraro, Francesco;
Montoliu, Ivan;
Moco, Sofia;
Marco, Santiago

Publication type:

Article

Transcompp: understanding phenotypic plasticity by estimating Markov transition rates for cell state transitions.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2813, doi. 10.1093/bioinformatics/btaa021

By:

Jagannathan, N Suhas;
Ihsan, Mario O;
Kin, Xiao Xuan;
Welsch, Roy E;
Clément, Marie-Véronique;
Tucker-Kellogg, Lisa

Publication type:

Article

The open targets post-GWAS analysis pipeline.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2936, doi. 10.1093/bioinformatics/btaa020

By:

Peat, Gareth;
Jones, William;
Nuhn, Michael;
Marugán, José Carlos;
Newell, William;
Dunham, Ian;
Zerbino, Daniel

Publication type:

Article

PISA-SPARKY: an interactive SPARKY plugin to analyze oriented solid-state NMR spectra of helical membrane proteins.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2915, doi. 10.1093/bioinformatics/btaa019

By:

Weber, Daniel K;
Wang, Songlin;
Markley, John L;
Veglia, Gianluigi;
Lee, Woonghee

Publication type:

Article

LigRMSD: a web server for automatic structure matching and RMSD calculations among identical and similar compounds in protein-ligand docking.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2912, doi. 10.1093/bioinformatics/btaa018

By:

Velázquez-Libera, José Luis;
Durán-Verdugo, Fabio;
Valdés-Jiménez, Alejandro;
Núñez-Vivanco, Gabriel;
Caballero, Julio

Publication type:

Article

ABEMUS: platform-specific and data-informed detection of somatic SNVs in cfDNA.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2665, doi. 10.1093/bioinformatics/btaa016

By:

Casiraghi, Nicola;
Orlando, Francesco;
Ciani, Yari;
Xiang, Jenny;
Sboner, Andrea;
Elemento, Olivier;
Attard, Gerhardt;
Beltran, Himisha;
Demichelis, Francesca;
Romanel, Alessandro

Publication type:

Article

Interaction screening by Kendall's partial correlation for ultrahigh-dimensional data with survival trait.

Published in:

Bioinformatics, 2020, v. 36, n. 9, p. 2763, doi. 10.1093/bioinformatics/btaa017

By:

Wang, Jie-Huei;
Chen, Yi-Hau

Publication type:

Article