Works matching IS 13674803 AND DT 2020 AND VI 36 AND IP 22/23

Results: 56

A unifying framework for rare variant association testing in family-based designs, including higher criticism approaches, SKATs, and burden tests.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5432, doi. 10.1093/bioinformatics/btaa1055

By:

Hecker, Julian;
Townes, F William;
Kachroo, Priyadarshini;
Laurie, Cecelia;
Lasky-Su, Jessica;
Ziniti, John;
Cho, Michael H;
Weiss, Scott T;
Laird, Nan M;
Lange, Christoph

Publication type:

Article

Issues of Z-factor and an approach to avoid them for quality control in high-throughput screening studies.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5299, doi. 10.1093/bioinformatics/btaa1049

By:

Zhang, Xiaohua Douglas;
Wang, Dandan;
Sun, Shixue;
Zhang, Heping

Publication type:

Article

UniRule: a unified rule resource for automatic annotation in the UniProt Knowledgebase.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5562, doi. 10.1093/bioinformatics/btaa663

By:

MacDougall, Alistair;
Volynkin, Vladimir;
Saidi, Rabie;
Poggioli, Diego;
Zellner, Hermann;
Hatton-Ellis, Emma;
Joshi, Vishal;
O'Donovan, Claire;
Orchard, Sandra;
Auchincloss, Andrea H;
Baratin, Delphine;
Bolleman, Jerven;
Coudert, Elisabeth;
Castro, Edouard de;
Hulo, Chantal;
Masson, Patrick;
Pedruzzi, Ivo;
Rivoire, Catherine;
Arighi, Cecilia;
Wang, Qinghua

Publication type:

Article

Virxicon: a lexicon of viral sequences.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5507, doi. 10.1093/bioinformatics/btaa1066

By:

Kudla, Mateusz;
Gutowska, Kaja;
Synak, Jaroslaw;
Weber, Mirko;
Bohnsack, Katrin Sophie;
Lukasiak, Piotr;
Villmann, Thomas;
Blazewicz, Jacek;
Szachniuk, Marta

Publication type:

Article

aCLImatise: automated generation of tool definitions for bioinformatics workflows.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5556, doi. 10.1093/bioinformatics/btaa1033

By:

Milton, Michael;
Thorne, Natalie

Publication type:

Article

Classification and review of free PCR primer design software.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5263, doi. 10.1093/bioinformatics/btaa910

By:

Guo, Jingwen;
Starr, David;
Guo, Huazhang

Publication type:

Article

LBERT: Lexically-aware Transformers based Bidirectional Encoder Representation model for learning Universal Bio-Entity Relations.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5565, doi. 10.1093/bioinformatics/btaa869

By:

Warikoo, Neha;
Chang, Yung-Chun;
Hsu, Wen-Lian

Publication type:

Article

CMF-Impute: an accurate imputation tool for single cell RNA-seq data.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5563, doi. 10.1093/bioinformatics/btaa664

By:

Xu, Junlin;
Cai, Lijun;
Liao, Bo;
Zhu, Wen;
Yang, Jia Liang

Publication type:

Article

Comment on 'Hayai-Annotation Plants: an ultrafast and comprehensive functional gene annotation system in plants': the importance of taking the GO graph structure into account.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5558, doi. 10.1093/bioinformatics/btaa1052

By:

Bel, Michiel Van;
Vandepoele, Klaas

Publication type:

Article

IDDkin: network-based influence deep diffusion model for enhancing prediction of kinase inhibitors.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5481, doi. 10.1093/bioinformatics/btaa1058

By:

Shen, Cong;
Luo, Jiawei;
Ouyang, Wenjue;
Ding, Pingjian;
Chen, Xiangtao

Publication type:

Article

PStrain: an iterative microbial strains profiling algorithm for shotgun metagenomic sequencing data.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5499, doi. 10.1093/bioinformatics/btaa1056

By:

Wang, Shuai;
Jiang, Yiqi;
Li, Shuaicheng

Publication type:

Article

Helixer: cross-species gene annotation of large eukaryotic genomes using deep learning.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5291, doi. 10.1093/bioinformatics/btaa1044

By:

Stiehler, Felix;
Steinborn, Marvin;
Scholz, Stephan;
Dey, Daniela;
Weber, Andreas P M;
Denton, Alisandra K

Publication type:

Article

crisscrosslinkeR: identification and visualization of protein–RNA and protein–protein interactions from crosslinking mass spectrometry.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5530, doi. 10.1093/bioinformatics/btaa1043

By:

Gail, Emma H;
Shah, Anup D;
Schittenhelm, Ralf B;
Davidovich, Chen

Publication type:

Article

Minimally overlapping words for sequence similarity search.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5344, doi. 10.1093/bioinformatics/btaa1054

By:

Frith, Martin C;
Noé, Laurent;
Kucherov, Gregory

Publication type:

Article

Data-driven noise modeling of digital DNA melting analysis enables prediction of sequence discriminating power.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5337, doi. 10.1093/bioinformatics/btaa1053

By:

Langouche, Lennart;
Aralar, April;
Sinha, Mridu;
Lawrence, Shelley M;
Fraley, Stephanie I;
Coleman, Todd P

Publication type:

Article

High-throughput modeling and scoring of TCR-pMHC complexes to predict cross-reactive peptides.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5377, doi. 10.1093/bioinformatics/btaa1050

By:

Borrman, Tyler;
Pierce, Brian G;
Vreven, Thom;
Baker, Brian M;
Weng, Zhiping

Publication type:

Article

DeepNOG: fast and accurate protein orthologous group assignment.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5304, doi. 10.1093/bioinformatics/btaa1051

By:

Feldbauer, Roman;
Gosch, Lukas;
Lüftinger, Lukas;
Hyden, Patrick;
Flexer, Arthur;
Rattei, Thomas

Publication type:

Article

Integration of gene interaction information into a reweighted Lasso-Cox model for accurate survival prediction.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5405, doi. 10.1093/bioinformatics/btaa1046

By:

Wang, Wei;
Liu, Wei

Publication type:

Article

Collecting and managing taxonomic data with NCBI-taxonomist.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5548, doi. 10.1093/bioinformatics/btaa1027

By:

Buchmann, Jan P;
Holmes, Edward C

Publication type:

Article

Methrix: an R/Bioconductor package for systematic aggregation and analysis of bisulfite sequencing data.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5524, doi. 10.1093/bioinformatics/btaa1048

By:

Mayakonda, Anand;
Schönung, Maximilian;
Hey, Joschka;
Batra, Rajbir Nath;
Feuerstein-Akgoz, Clarissa;
Köhler, Kristin;
Lipka, Daniel B;
Sotillo, Rocio;
Plass, Christoph;
Lutsik, Pavlo;
Toth, Reka

Publication type:

Article

CorGAT: a tool for the functional annotation of SARS-CoV-2 genomes.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5522, doi. 10.1093/bioinformatics/btaa1047

By:

Chiara, Matteo;
Zambelli, Federico;
Tangaro, Marco Antonio;
Mandreoli, Pietro;
Horner, David S;
Pesole, Graziano

Publication type:

Article

SVIM-asm: structural variant detection from haploid and diploid genome assemblies.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5519, doi. 10.1093/bioinformatics/btaa1034

By:

Heller, David;
Vingron, Martin

Publication type:

Article

MobiDB-lite 3.0: fast consensus annotation of intrinsic disorder flavors in proteins.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5533, doi. 10.1093/bioinformatics/btaa1045

By:

Necci, Marco;
Piovesan, Damiano;
Clementel, Damiano;
Dosztányi, Zsuzsanna;
Tosatto, Silvio C E

Publication type:

Article

DeMaSk: a deep mutational scanning substitution matrix and its use for variant impact prediction.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5322, doi. 10.1093/bioinformatics/btaa1030

By:

Munro, Daniel;
Singh, Mona

Publication type:

Article

SugarPy facilitates the universal, discovery-driven analysis of intact glycopeptides.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5330, doi. 10.1093/bioinformatics/btaa1042

By:

Schulze, Stefan;
Oltmanns, Anne;
Fufezan, Christian;
Krägenbring, Julia;
Mormann, Michael;
Pohlschröder, Mechthild;
Hippler, Michael

Publication type:

Article

A library of coiled-coil domains: from regular bundles to peculiar twists.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5368, doi. 10.1093/bioinformatics/btaa1041

By:

Szczepaniak, Krzysztof;
Bukala, Adriana;
Neto, Antonio Marinho da Silva;
Ludwiczak, Jan;
Dunin-Horkawicz, Stanislaw

Publication type:

Article

Atlas: automatic modeling of regulation of bacterial gene expression and metabolism using rule-based languages.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5473, doi. 10.1093/bioinformatics/btaa1040

By:

Santibáñez, Rodrigo;
Garrido, Daniel;
Martin, Alberto J M

Publication type:

Article

Improved protein model quality assessment by integrating sequential and pairwise features using deep learning.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5361, doi. 10.1093/bioinformatics/btaa1037

By:

Jing, Xiaoyang;
Xu, Jinbo

Publication type:

Article

PETAL: a Python tool for deep analysis of biological pathways.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5553, doi. 10.1093/bioinformatics/btaa1032

By:

Sgroi, Giuseppe;
Russo, Giulia;
Pappalardo, Francesco

Publication type:

Article

On biases of attention in scientific discovery.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5269, doi. 10.1093/bioinformatics/btaa1036

By:

Singer, Uriel;
Radinsky, Kira;
Horvitz, Eric

Publication type:

Article

LFQC: A lossless compression algorithm for FASTQ files.

Published in:: Bioinformatics, 2020, v. 36, n. 22/23, p. 5566, doi. 10.1093/bioinformatics/btaa1035
Publication type:: Article

struct: an R/Bioconductor-based framework for standardized metabolomics data analysis and beyond.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5551, doi. 10.1093/bioinformatics/btaa1031

By:

Lloyd, Gavin Rhys;
Jankevics, Andris;
Weber, Ralf J M

Publication type:

Article

Complete populations of virtual patients for in silico clinical trials.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5465, doi. 10.1093/bioinformatics/btaa1026

By:

Sinisi, S;
Alimguzhin, V;
Mancini, T;
Tronci, E;
Leeners, B

Publication type:

Article

IsoMaTrix: a framework to visualize the isoclines of matrix games and quantify uncertainty in structured populations.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5542, doi. 10.1093/bioinformatics/btaa1025

By:

West, Jeffrey;
Ma, Yongqian;
Kaznatcheev, Artem;
Anderson, Alexander R A

Publication type:

Article

Heterogeneous graph inference with matrix completion for computational drug repositioning.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5456, doi. 10.1093/bioinformatics/btaa1024

By:

Yang, Mengyun;
Huang, Lan;
Xu, Yunpei;
Lu, Chengqian;
Wang, Jianxin

Publication type:

Article

LDpred2: better, faster, stronger.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5424, doi. 10.1093/bioinformatics/btaa1029

By:

Privé, Florian;
Arbel, Julyan;
Vilhjálmsson, Bjarni J

Publication type:

Article

A Bayesian linear mixed model for prediction of complex traits.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5415, doi. 10.1093/bioinformatics/btaa1023

By:

Hai, Yang;
Wen, Yalu

Publication type:

Article

CAFE 5 models variation in evolutionary rates among gene families.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5516, doi. 10.1093/bioinformatics/btaa1022

By:

Mendes, Fábio K;
Vanderpool, Dan;
Fulton, Ben;
Hahn, Matthew W

Publication type:

Article

New computational model for miRNA-mediated repression reveals novel regulatory roles of miRNA bindings inside the coding region.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5398, doi. 10.1093/bioinformatics/btaa1021

By:

Bergman, Shaked;
Diament, Alon;
Tuller, Tamir

Publication type:

Article

Rapid screening and detection of inter-type viral recombinants using phylo-k-mers.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5351, doi. 10.1093/bioinformatics/btaa1020

By:

Scholz, Guillaume E;
Linard, Benjamin;
Romashchenko, Nikolai;
Rivals, Eric;
Pardi, Fabio

Publication type:

Article

MorphOT: transport-based interpolation between EM maps with UCSF ChimeraX.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5528, doi. 10.1093/bioinformatics/btaa1019

By:

Ecoffet, Arthur;
Poitevin, Frédéric;
Duc, Khanh Dao

Publication type:

Article

MOVICS: an R package for multi-omics integration and visualization in cancer subtyping.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5539, doi. 10.1093/bioinformatics/btaa1018

By:

Lu, Xiaofan;
Meng, Jialin;
Zhou, Yujie;
Jiang, Liyun;
Yan, Fangrong

Publication type:

Article

Impact of lossy compression of nanopore raw signal data on basecalling and consensus accuracy.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5313, doi. 10.1093/bioinformatics/btaa1017

By:

Chandak, Shubham;
Tatwawadi, Kedar;
Sridhar, Srivatsan;
Weissman, Tsachy

Publication type:

Article

SneakySnake: a fast and accurate universal genome pre-alignment filter for CPUs, GPUs and FPGAs.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5282, doi. 10.1093/bioinformatics/btaa1015

By:

Alser, Mohammed;
Shahroodi, Taha;
Gómez-Luna, Juan;
Alkan, Can;
Mutlu, Onur

Publication type:

Article

Corrigendum to: HALPER facilitates the identification of regulatory element orthologs across species.

Published in:: Bioinformatics, 2020, v. 36, n. 22/23, p. 5561, doi. 10.1093/bioinformatics/btaa1013
Publication type:: Article

RCSB Protein Data Bank 1D tools and services.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5526, doi. 10.1093/bioinformatics/btaa1012

By:

Segura, Joan;
Rose, Yana;
Westbrook, John;
Burley, Stephen K;
Duarte, Jose M

Publication type:

Article

dittoSeq: universal user-friendly single-cell and bulk RNA sequencing visualization toolkit.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5535, doi. 10.1093/bioinformatics/btaa1011

By:

Bunis, Daniel G;
Andrews, Jared;
Fragiadakis, Gabriela K;
Burt, Trevor D;
Sirota, Marina

Publication type:

Article

FL-QSAR: a federated learning-based QSAR prototype for collaborative drug discovery.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5492, doi. 10.1093/bioinformatics/btaa1006

By:

Chen, Shaoqi;
Xue, Dongyu;
Chuai, Guohui;
Yang, Qiang;
Liu, Qi

Publication type:

Article

DeepPurpose: a deep learning library for drug–target interaction prediction.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5545, doi. 10.1093/bioinformatics/btaa1005

By:

Huang, Kexin;
Fu, Tianfan;
Glass, Lucas M;
Zitnik, Marinka;
Xiao, Cao;
Sun, Jimeng

Publication type:

Article

Parallelized calculation of permutation tests.

Published in:

Bioinformatics, 2020, v. 36, n. 22/23, p. 5392, doi. 10.1093/bioinformatics/btaa1007

By:

Ekvall, Markus;
Höhle, Michael;
Käll, Lukas

Publication type:

Article