Works matching IS 13674803 AND DT 2019 AND VI 35 AND IP 22

Results: 62

GTShark: genotype compression in large projects.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4791, doi. 10.1093/bioinformatics/btz508

By:

Deorowicz, Sebastian;
Danek, Agnieszka

Publication type:

Article

BAMixChecker: an automated checkup tool for matched sample pairs in NGS cohort.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4806, doi. 10.1093/bioinformatics/btz479

By:

Chun, Hein;
Kim, Sangwoo

Publication type:

Article

DepLogo: visualizing sequence dependencies in R.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4812, doi. 10.1093/bioinformatics/btz507

By:

Grau, Jan;
Nettling, Martin;
Keilwagen, Jens

Publication type:

Article

capC-MAP: software for analysis of Capture-C data.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4773, doi. 10.1093/bioinformatics/btz480

By:

Buckle, Adam;
Gilbert, Nick;
Marenduzzo, Davide;
Brackley, Chris A

Publication type:

Article

OncodriveCLUSTL: a sequence-based clustering method to identify cancer drivers.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4788, doi. 10.1093/bioinformatics/btz501

By:

Arnedo-Pac, Claudia;
Mularoni, Loris;
Muiños, Ferran;
Gonzalez-Perez, Abel;
Lopez-Bigas, Nuria

Publication type:

Article

DEUS: an R package for accurate small RNA profiling based on differential expression of unique sequences.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4834, doi. 10.1093/bioinformatics/btz495

By:

Jeske, Tim;
Huypens, Peter;
Stirm, Laura;
Höckele, Selina;
Wurmser, Christine M;
Böhm, Anja;
Weigert, Cora;
Staiger, Harald;
Klein, Christoph;
Beckers, Johannes;
Hastreiter, Maximilian

Publication type:

Article

Sequencing data discovery with MetaSeek.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4857, doi. 10.1093/bioinformatics/btz499

By:

Hoarfrost, Adrienne;
Brown, Nick;
Brown, C Titus;
Arnosti, Carol

Publication type:

Article

svtools: population-scale analysis of structural variation.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4782, doi. 10.1093/bioinformatics/btz492

By:

Larson, David E;
Abel, Haley J;
Chiang, Colby;
Badve, Abhijit;
Das, Indraniel;
Eldred, James M;
Layer, Ryan M;
Hall, Ira M

Publication type:

Article

GeneNoteBook, a collaborative notebook for comparative genomics.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4779, doi. 10.1093/bioinformatics/btz491

By:

Holmer, Rens;
Velzen, Robin van;
Geurts, Rene;
Bisseling, Ton;
Ridder, Dick de;
Smit, Sandra

Publication type:

Article

iTUPA: an online automated application to perform Topographic-Unit Parsimony Analysis.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4818, doi. 10.1093/bioinformatics/btz487

By:

Hammoud, Muhsen;
Santos, Charles Morphy D;
Gois, João Paulo

Publication type:

Article

SIGN: similarity identification in gene expression.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4830, doi. 10.1093/bioinformatics/btz485

By:

Tonekaboni, Seyed Ali Madani;
Manem, Venkata Satya Kumar;
El-Hachem, Nehme;
Haibe-Kains, Benjamin

Publication type:

Article

Testing clonal relatedness of two tumors from the same patient based on their mutational profiles: update of the Clonality R package.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4776, doi. 10.1093/bioinformatics/btz486

By:

Mauguen, Audrey;
Seshan, Venkatraman E;
Begg, Colin B;
Ostrovnaya, Irina

Publication type:

Article

Noise-cancelling repeat finder: uncovering tandem repeats in error-prone long-read sequencing data.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4809, doi. 10.1093/bioinformatics/btz484

By:

Harris, Robert S;
Cechova, Monika;
Makova, Kateryna D

Publication type:

Article

VarMap: a web tool for mapping genomic coordinates to protein sequence and structure and retrieving protein structural annotations.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4854, doi. 10.1093/bioinformatics/btz482

By:

Stephenson, James D;
Laskowski, Roman A;
Nightingale, Andrew;
Hurles, Matthew E;
Thornton, Janet M

Publication type:

Article

PhenoScanner V2: an expanded tool for searching human genotype–phenotype associations.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4851, doi. 10.1093/bioinformatics/btz469

By:

Kamat, Mihir A;
Blackshaw, James A;
Young, Robin;
Surendran, Praveen;
Burgess, Stephen;
Danesh, John;
Butterworth, Adam S;
Staley, James R

Publication type:

Article

RERconverge: an R package for associating evolutionary rates with convergent traits.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4815, doi. 10.1093/bioinformatics/btz468

By:

Kowalczyk, Amanda;
Meyer, Wynn K;
Partha, Raghavendran;
Mao, Weiguang;
Clark, Nathan L;
Chikina, Maria

Publication type:

Article

RAbHIT: R Antibody Haplotype Inference Tool.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4840, doi. 10.1093/bioinformatics/btz481

By:

Peres, Ayelet;
Gidoni, Moriah;
Polak, Pazit;
Yaari, Gur

Publication type:

Article

RAISS: robust and accurate imputation from summary statistics.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4837, doi. 10.1093/bioinformatics/btz466

By:

Julienne, Hanna;
Shi, Huwenbo;
Pasaniuc, Bogdan;
Aschard, Hugues

Publication type:

Article

vulcanSpot: a tool to prioritize therapeutic vulnerabilities in cancer.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4846, doi. 10.1093/bioinformatics/btz465

By:

Perales-Patón, Javier;
Domenico, Tomás Di;
Fustero-Torre, Coral;
Piñeiro-Yáñez, Elena;
Carretero-Puche, Carlos;
Tejero, Héctor;
Valencia, Alfonso;
Gómez-López, Gonzalo;
Al-Shahrour, Fátima

Publication type:

Article

MetOSite: an integrated resource for the study of methionine residues sulfoxidation.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4849, doi. 10.1093/bioinformatics/btz462

By:

Valverde, Héctor;
Cantón, Francisco R;
Aledo, Juan Carlos

Publication type:

Article

Nanopype: a modular and scalable nanopore data processing pipeline.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4770, doi. 10.1093/bioinformatics/btz461

By:

Giesselmann, Pay;
Hetzel, Sara;
Müller, Franz-Josef;
Meissner, Alexander;
Kretzmer, Helene

Publication type:

Article

WDSPdb: an updated resource for WD40 proteins.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4824, doi. 10.1093/bioinformatics/btz460

By:

Ma, Jing;
An, Ke;
Zhou, Jing-Bo;
Wu, Nuo-Si;
Wang, Yang;
Ye, Zhi-Qiang;
Wu, Yun-Dong

Publication type:

Article

EnImpute: imputing dropout events in single-cell RNA-sequencing data via ensemble learning.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4827, doi. 10.1093/bioinformatics/btz435

By:

Zhang, Xiao-Fei;
Ou-Yang, Le;
Yang, Shuo;
Zhao, Xing-Ming;
Hu, Xiaohua;
Yan, Hong

Publication type:

Article

PHANOTATE: a novel approach to gene identification in phage genomes.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4537, doi. 10.1093/bioinformatics/btz265

By:

McNair, Katelyn;
Zhou, Carol;
Dinsdale, Elizabeth A;
Souza, Brian;
Edwards, Robert A

Publication type:

Article

VCF/Plotein: visualization and prioritization of genomic variants from human exome sequencing projects.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4803, doi. 10.1093/bioinformatics/btz458

By:

Ossio, Raul;
Garcia-Salinas, O Isaac;
Anaya-Mancilla, Diego Said;
Garcia-Sotelo, Jair S;
Aguilar, Luis A;
Adams, David J;
Robles-Espinoza, Carla Daniela

Publication type:

Article

eFORGE v2.0: updated analysis of cell type-specific signal in epigenomic data.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4767, doi. 10.1093/bioinformatics/btz456

By:

Breeze, Charles E;
Reynolds, Alex P;
Dongen, Jenny van;
Dunham, Ian;
Lazar, John;
Neph, Shane;
Vierstra, Jeff;
Bourque, Guillaume;
Teschendorff, Andrew E;
Stamatoyannopoulos, John A;
Beck, Stephan

Publication type:

Article

Chicdiff: a computational pipeline for detecting differential chromosomal interactions in Capture Hi-C data.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4764, doi. 10.1093/bioinformatics/btz450

By:

Cairns, Jonathan;
Orchard, William R;
Malysheva, Valeriya;
Spivakov, Mikhail

Publication type:

Article

RBPSponge: genome-wide identification of lncRNAs that sponge RBPs.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4760, doi. 10.1093/bioinformatics/btz448

By:

HafezQorani, Saber;
Houdjedj, Aissa;
Arici, Mehmet;
Said, Abdesselam;
Kazan, Hilal

Publication type:

Article

NX4: a web-based visualization of large multiple sequence alignments.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4800, doi. 10.1093/bioinformatics/btz457

By:

Solano-Roman, A;
Cruz-Castillo, C;
Offenhuber, D;
Colubri, A

Publication type:

Article

SCANVIS: a tool for SCoring, ANnotating and VISualizing splice junctions.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4843, doi. 10.1093/bioinformatics/btz452

By:

Agius, Phaedra;
Geiger, Heather;
Robine, Nicolas

Publication type:

Article

NGSEP3: accurate variant calling across species and sequencing protocols.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4716, doi. 10.1093/bioinformatics/btz275

By:

Tello, Daniel;
Gil, Juanita;
Loaiza, Cristian D;
Riascos, John J;
Cardozo, Nicolás;
Duitama, Jorge

Publication type:

Article

A new statistic for efficient detection of repetitive sequences.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4596, doi. 10.1093/bioinformatics/btz262

By:

Chen, Sijie;
Chen, Yixin;
Sun, Fengzhu;
Waterman, Michael S;
Zhang, Xuegong

Publication type:

Article

PRODIGY-crystal: a web-tool for classification of biological interfaces in protein complexes.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4821, doi. 10.1093/bioinformatics/btz437

By:

Jiménez-García, Brian;
Elez, Katarina;
Koukos, Panagiotis I;
Bonvin, Alexandre Mjj;
Vangone, Anna

Publication type:

Article

snakePipes: facilitating flexible, scalable and integrative epigenomic analysis.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4757, doi. 10.1093/bioinformatics/btz436

By:

Bhardwaj, Vivek;
Heyne, Steffen;
Sikora, Katarzyna;
Rabbani, Leily;
Rauer, Michael;
Kilpert, Fabian;
Richter, Andreas S;
Ryan, Devon P;
Manke, Thomas

Publication type:

Article

Computational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4617, doi. 10.1093/bioinformatics/btz274

By:

Orlando, Gabriele;
Raimondi, Daniele;
Tabaro, Francesco;
Codicè, Francesco;
Moreau, Yves;
Vranken, Wim F

Publication type:

Article

ExpansionHunter: a sequence-graph-based tool to analyze variation in short tandem repeat regions.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4754, doi. 10.1093/bioinformatics/btz431

By:

Dolzhenko, Egor;
Deshpande, Viraj;
Schlesinger, Felix;
Krusche, Peter;
Petrovski, Roman;
Chen, Sai;
Emig-Agius, Dorothea;
Gross, Andrew;
Narzisi, Giuseppe;
Bowman, Brett;
Scheffler, Konrad;
Vugt, Joke J F A van;
French, Courtney;
Sanchis-Juan, Alba;
Ibáñez, Kristina;
Tucci, Arianna;
Lajoie, Bryan R;
Veldink, Jan H;
Raymond, F Lucy;
Taft, Ryan J

Publication type:

Article

Seq2Feature: a comprehensive web-based feature extraction tool.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4797, doi. 10.1093/bioinformatics/btz432

By:

Nikam, Rahul;
Gromiha, M Michael

Publication type:

Article

Deep fusion of contextual and object-based representations for delineation of multiple nuclear phenotypes.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4860, doi. 10.1093/bioinformatics/btz430

By:

Khoshdeli, Mina;
Winkelmaier, Garrett;
Parvin, Bahram

Publication type:

Article

SeRenDIP: SEquential REmasteriNg to DerIve profiles for fast and accurate predictions of PPI interface positions.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4794, doi. 10.1093/bioinformatics/btz428

By:

Hou, Qingzhen;
Geest, Paul F G De;
Griffioen, Christian J;
Abeln, Sanne;
Heringa, Jaap;
Feenstra, K Anton

Publication type:

Article

AlphaFold at CASP13.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4862, doi. 10.1093/bioinformatics/btz422

By:

AlQuraishi, Mohammed

Publication type:

Article

Dynamical important residue network (DIRN): network inference via conformational change.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4664, doi. 10.1093/bioinformatics/btz298

By:

Li, Quan;
Luo, Ray;
Chen, Hai-Feng

Publication type:

Article

Adaptive boosting-based computational model for predicting potential miRNA-disease associations.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4730, doi. 10.1093/bioinformatics/btz297

By:

Zhao, Yan;
Chen, Xing;
Yin, Jun

Publication type:

Article

LAmbDA: label ambiguous domain adaptation dataset integration reduces batch effects and improves subtype detection.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4696, doi. 10.1093/bioinformatics/btz295

By:

Johnson, Travis S;
Wang, Tongxin;
Huang, Zhi;
Yu, Christina Y;
Wu, Yi;
Han, Yatong;
Zhang, Yan;
Huang, Kun;
Zhang, Jie

Publication type:

Article

Continuous-state HMMs for modeling time-series single-cell RNA-Seq data.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4707, doi. 10.1093/bioinformatics/btz296

By:

Lin, Chieh;
Bar-Joseph, Ziv

Publication type:

Article

Develop machine learning-based regression predictive models for engineering protein solubility.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4640, doi. 10.1093/bioinformatics/btz294

By:

Han, Xi;
Wang, Xiaonan;
Zhou, Kang

Publication type:

Article

A decision-theoretic approach to the evaluation of machine learning algorithms in computational drug discovery.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4656, doi. 10.1093/bioinformatics/btz293

By:

Watson, Oliver P;
Cortes-Ciriano, Isidro;
Taylor, Aimee R;
Watson, James A

Publication type:

Article

ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4647, doi. 10.1093/bioinformatics/btz291

By:

Li, Yang;
Hu, Jun;
Zhang, Chengxin;
Yu, Dong-Jun;
Zhang, Yang

Publication type:

Article

scMatch: a single-cell gene expression profile annotation tool using reference datasets.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4688, doi. 10.1093/bioinformatics/btz292

By:

Hou, Rui;
Denisenko, Elena;
Forrest, Alistair R R

Publication type:

Article

Cell-level somatic mutation detection from single-cell RNA sequencing.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4679, doi. 10.1093/bioinformatics/btz288

By:

Vu, Trung Nghia;
Nguyen, Ha-Nam;
Calza, Stefano;
Kalari, Krishna R;
Wang, Liewei;
Pawitan, Yudi

Publication type:

Article

ProSampler: an ultrafast and accurate motif finder in large ChIP-seq datasets for combinatory motif discovery.

Published in:

Bioinformatics, 2019, v. 35, n. 22, p. 4632, doi. 10.1093/bioinformatics/btz290

By:

Li, Yang;
Ni, Pengyu;
Zhang, Shaoqiang;
Li, Guojun;
Su, Zhengchang

Publication type:

Article