Works matching IS 14712105 AND DT 2018 AND VI 19 AND IP 1

Results: 296

Detecting gene-gene interactions for complex quantitative traits using generalized fuzzy classification.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2361-5

By:

Zhou, Xiangdong;
Chan, Keith C. C.

Publication type:

Article

Data-driven human transcriptomic modules determined by independent component analysis.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2338-4

By:

Zhou, Weizhuang;
Altman, Russ B.

Publication type:

Article

A document level neural model integrated domain knowledge for chemical-induced disease relations.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2316-x

By:

Zheng, Wei;
Lin, Hongfei;
Liu, Xiaoxia;
Xu, Bo

Publication type:

Article

Phage spanins: diversity, topological dynamics and gene convergence.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2342-8

By:

Kongari, Rohit;
Rajaure, Manoj;
Cahill, Jesse;
Rasche, Eric;
Mijalis, Eleni;
Berry, Joel;
Young, Ry

Publication type:

Article

Using controls to limit false discovery in the era of big data.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2356-2

By:

Parks, Matthew M.;
Raphael, Benjamin J.;
Lawrence, Charles E.

Publication type:

Article

Grid-based computational methods for the design of constraint-based parsimonious chemical reaction networks to simulate metabolite production: GridProd.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2352-6

By:

Tamura, Takeyuki

Publication type:

Article

DM-PhyClus: a Bayesian phylogenetic algorithm for infectious disease transmission cluster inference.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2347-3

By:

Villandré, Luc;
Labbe, Aurélie;
Brenner, Bluma;
Roger, Michel;
Stephens, David A

Publication type:

Article

Searching for 3D structural models from a library of biological shapes using a few 2D experimental images.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2358-0

By:

Tiwari, Sandhya P.;
Tama, Florence;
Miyashita, Osamu

Publication type:

Article

GeFaST: An improved method for OTU assignment by generalising Swarm’s fastidious clustering approach.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2349-1

By:

Müller, Robert;
Nebel, Markus E.

Publication type:

Article

Priority-Lasso: a simple hierarchical approach to the prediction of clinical outcome using multi-omics data.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2344-6

By:

Klau, Simon;
Jurinovic, Vindi;
Hornung, Roman;
Herold, Tobias;
Boulesteix, Anne-Laure

Publication type:

Article

SuperNoder: a tool to discover over-represented modular structures in networks.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2350-8

By:

Dessì, Danilo;
Cirrone, Jacopo;
Recupero, Diego Reforgiato;
Shasha, Dennis

Publication type:

Article

Enhancer reprogramming in mammalian genomes.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2343-7

By:

Flores, Mario A.;
Ovcharenko, Ivan

Publication type:

Article

Linked open data-based framework for automatic biomedical ontology generation.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2339-3

By:

Alobaidi, Mazen;
Malik, Khalid Mahmood;
Sabra, Susan

Publication type:

Article

Identification of differentially expressed genes by means of outlier detection.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2318-8

By:

Irigoien, Itziar;
Arenas, Concepción

Publication type:

Article

An integrated strategy for identifying new targets and inferring the mechanism of action: taking rhein as an example.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2346-4

By:

Sun, Hao;
Shen, Yiting;
Luo, Guangwen;
Cai, Yuepiao;
Xiang, Zheng

Publication type:

Article

Classification based on extensions of LS-PLS using logistic regression: application to clinical and multiple genomic data.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2311-2

By:

Bazzoli, Caroline;
Lambert-Lacroix, Sophie

Publication type:

Article

Effective normalization for copy number variation in Hi-C data.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2256-5

By:

Servant, Nicolas;
Varoquaux, Nelle;
Heard, Edith;
Barillot, Emmanuel;
Vert, Jean-Philippe

Publication type:

Article

BrownieAligner: accurate alignment of Illumina sequencing data to de Bruijn graphs.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2319-7

By:

Heydari, Mahdi;
Miclotte, Giles;
Van de Peer, Yves;
Fostier, Jan

Publication type:

Article

Application of whole genome data for in silico evaluation of primers and probes routinely employed for the detection of viral species by RT-qPCR using dengue virus as a case study.

Published in:

2018

By:

Vanneste, Kevin;
Garlant, Linda;
Broeders, Sylvia;
Van Gucht, Steven;
Roosens, Nancy H.

Publication type:

Case Study

HebbPlot: an intelligent tool for learning and visualizing chromatin mark signatures.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2312-1

By:

Girgis, Hani Z.;
Velasco II, Alfredo;
Reyes, Zachary E.

Publication type:

Article

Selection of marker genes for genetic barcoding of microorganisms and binning of metagenomic reads by Barcoder software tools.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2320-1

By:

Rotimi, Adeola M.;
Pierneef, Rian;
Reva, Oleg N.

Publication type:

Article

Rapid and precise alignment of raw reads against redundant databases with KMA.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2336-6

By:

Clausen, Philip T. L. C.;
Aarestrup, Frank M.;
Lund, Ole

Publication type:

Article

PseUI: Pseudouridine sites identification based on RNA sequence information.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2321-0

By:

He, Jingjing;
Fang, Ting;
Zhang, Zizheng;
Huang, Bei;
Zhu, Xiaolei;
Xiong, Yi

Publication type:

Article

Clustering approaches for visual knowledge exploration in molecular interaction networks.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2314-z

By:

Ostaszewski, Marek;
Kieffer, Emmanuel;
Danoy, Grégoire;
Schneider, Reinhard;
Bouvry, Pascal

Publication type:

Article

RNAfitme: a webserver for modeling nucleobase and nucleoside residue conformation in fixed-backbone RNA structures.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2317-9

By:

Antczak, Maciej;
Zok, Tomasz;
Osowiecki, Maciej;
Popenda, Mariusz;
Adamiak, Ryszard W.;
Szachniuk, Marta

Publication type:

Article

bioSyntax: syntax highlighting for computational biology.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2315-y

By:

Babaian, Artem;
Ebou, Anicet;
Fegen, Alyssa;
Kam, Ho Yin;
Novakovsky, German E.;
Wong, Jasper;
Aïssi, Dylan;
Yao, Li

Publication type:

Article

Predicting overlapping protein complexes based on core-attachment and a local modularity structure.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2309-9

By:

Wang, Rongquan;
Liu, Guixia;
Wang, Caixia;
Su, Lingtao;
Sun, Liyan

Publication type:

Article

Rscreenorm: normalization of CRISPR and siRNA screen data for more reproducible hit selection.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2306-z

By:

Bachas, Costa;
Hodzic, Jasmina;
van der Mijn, Johannes C.;
Stoepker, Chantal;
Verheul, Henk M. W.;
Wolthuis, Rob M. F.;
Felley-Bosco, Emanuela;
van Wieringen, Wessel N.;
van Beusechem, Victor W.;
Brakenhoff, Ruud H.;
de Menezes, Renée X.

Publication type:

Article

Clustering of circular consensus sequences: accurate error correction and assembly of single molecule real-time reads from multiplexed amplicon libraries.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2293-0

By:

Francis, Felix;
Dumas, Michael D.;
Davis, Scott B.;
Wisser, Randall J.

Publication type:

Article

BALCONY: an R package for MSA and functional compartments of protein variability analysis.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2294-z

By:

Płuciennik, Alicja;
Stolarczyk, Michał;
Bzówka, Maria;
Raczyńska, Agata;
Magdziarz, Tomasz;
Góra, Artur

Publication type:

Article

miREM: an expectation-maximization approach for prioritizing miRNAs associated with gene-set.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2292-1

By:

Abdul Hadi, Luqman Hakim;
Quy Xiao Xuan Lin;
Tri Tran Minh;
Loh, Marie;
Ng, Hong Kiat;
Salim, Agus;
Soong, Richie;
Benoukraf, Touati

Publication type:

Article

REHUNT: a reliable and open source package for restriction enzyme hunting.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2168-4

By:

Cheng, Yu-Huei;
Liaw, Jiun-Jian;
Kuo, Che-Nan

Publication type:

Article

Multi-class segmentation of neuronal structures in electron microscopy images.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2305-0

By:

Cetina, Kendrick;
Buenaposada, José M.;
Baumela, Luis

Publication type:

Article

BART: bioinformatics array research tool.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2308-x

By:

Amaral, Maria Luisa;
Erikson, Galina A.;
Shokhirev, Maxim N.

Publication type:

Article

PIPEBAR and OverlapPER: tools for a fast and accurate DNA barcoding analysis and paired-end assembly.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2307-y

By:

Nunes, Gisele Lopes;
de Lima, Talvâne Glauber Lopes;
Oliveira, Renato Renison Moreira;
Alves, Ronnie;
Oliveira, Guilherme

Publication type:

Article

PRS-on-Spark (PRSoS): a novel, efficient and flexible approach for generating polygenic risk scores.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2289-9

By:

Chen, Lawrence M.;
Yao, Nelson;
Garg, Elika;
Zhu, Yuecai;
Nguyen, Thao T. T.;
Pokhvisneva, Irina;
Hari Dass, Shantala A.;
Unternaehrer, Eva;
Gaudreau, Hélène;
Silveira, Patricia P.;
O’Donnell, Kieran J.;
Meaney, Michael J.;
Forest, Marie;
Greenwood, Celia M. T.;
McEwen, Lisa M.;
MacIsaac, Julia L.;
Kobor, Michael S.

Publication type:

Article

Fusion of encoder-decoder deep networks improves delineation of multiple nuclear phenotypes.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2285-0

By:

Khoshdeli, Mina;
Winkelmaier, Garrett;
Parvin, Bahram

Publication type:

Article

CircPrimer: a software for annotating circRNAs and determining the specificity of circRNA primers.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2304-1

By:

Zhong, Shanliang;
Wang, Jinyan;
Zhang, Qian;
Xu, Hanzi;
Feng, Jifeng

Publication type:

Article

Prediction of 8-state protein secondary structures by a novel deep learning architecture.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2280-5

By:

Zhang, Buzhong;
Li, Jinyan;
Lü, Qiang

Publication type:

Article

WISH-R– a fast and efficient tool for construction of epistatic networks for complex traits and diseases.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2291-2

By:

Carmelo, Victor A. O.;
Kogelman, Lisette J. A.;
Madsen, Majbritt Busk;
Kadarmideen, Haja N.

Publication type:

Article

TOPAZ: asymmetric suffix array neighbourhood search for massive protein databases.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2290-3

By:

Medlar, Alan;
Holm, Liisa

Publication type:

Article

HiCcompare: an R-package for joint normalization and comparison of HI-C datasets.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2288-x

By:

Stansfield, John C.;
Cresswell, Kellen G.;
Vladimirov, Vladimir I.;
Dozmorov, Mikhail G.

Publication type:

Article

phylotree.js - a JavaScript library for application development and interactive data visualization in phylogenetics.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2283-2

By:

Shank, Stephen D.;
Weaver, Steven;
Kosakovsky Pond, Sergei L.

Publication type:

Article

miRge 2.0 for comprehensive analysis of microRNA sequencing data.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2287-y

By:

Lu, Yin;
Baras, Alexander S.;
Halushka, Marc K.

Publication type:

Article

De novo profile generation based on sequence context specificity with the long short-term memory network.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2284-1

By:

Yamada, Kazunori D.;
Kinoshita, Kengo

Publication type:

Article

De novo assembly of bacterial genomes with repetitive DNA regions by dnaasm application.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2281-4

By:

Kuśmirek, Wiktor;
Nowak, Robert

Publication type:

Article

Random forest versus logistic regression: a large-scale benchmark experiment.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2264-5

By:

Couronné, Raphael;
Probst, Philipp;
Boulesteix, Anne-Laure

Publication type:

Article

Benchmarking differential expression analysis tools for RNA-Seq: normalization-based vs. log-ratio transformation-based methods.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2261-8

By:

Quinn, Thomas P.;
Crowley, Tamsyn M.;
Richardson, Mark F.

Publication type:

Article

HGT-ID: an efficient and sensitive workflow to detect human-viral insertion sites using next-generation sequencing data.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2260-9

By:

Baheti, Saurabh;
Tang, Xiaojia;
O'Brien, Daniel R.;
Chia, Nicholas;
Roberts, Lewis R.;
Nelson, Heidi;
Boughey, Judy C.;
Wang, Liewei;
Goetz, Matthew P.;
Kocher, Jean-Pierre A.;
Kalari, Krishna R.

Publication type:

Article

GtTR: Bayesian estimation of absolute tandem repeat copy number using sequence capture and high throughput sequencing.

Published in:

BMC Bioinformatics, 2018, v. 19, n. 1, p. 1, doi. 10.1186/s12859-018-2282-3

By:

Ganesamoorthy, Devika;
Cao, Minh Duc;
Duarte, Tania;
Chen, Wenhan;
Coin, Lachlan

Publication type:

Article