Works matching IS 13674803 AND DT 2018 AND VI 34 AND IP 4

Results: 34

ndexr--an R package to interface with the network data exchange.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 716, doi. 10.1093/bioinformatics/btx683

By:

Auer, Florian;
Hammoud, Zaynab;
Ishkin, Alexandr;
Pratt, Dexter;
Ideker, Trey;
Kramer, Frank

Publication type:

Article

ROSC-Pred: web-service for rodent organ-specific carcinogenicity prediction.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 710, doi. 10.1093/bioinformatics/btx678

By:

Lagunin, Alexey;
Rudik, Anastasia;
Druzhilovsky, Dmitry;
Filimonov, Dmitry;
Poroikov, Vladimir

Publication type:

Article

PESTO: Parameter EStimation TOolbox.

Published in:

2018

By:

Stapor, Paul;
Weindl, Daniel;
Ballnus, Benjamin;
Hug, Sabine;
Loos, Carolin;
Fiedler, Anna;
Krause, Sabrina;
Hroß, Sabrina;
Fröhlich, Fabian;
Hasenauer, Jan

Publication type:

Product Review

CLIFinder: identification of LINE-1 chimeric transcripts in RNA-seq data.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 688, doi. 10.1093/bioinformatics/btx671

By:

Pinson, Marie-Elisa;
Pogorelcnik, Romain;
Court, Franck;
Arnaud, Philippe;
Vaurs-Barrière, Catherine

Publication type:

Article

PROSPERous: high-throughput prediction of substrate cleavage sites for 90 proteases with improved accuracy.

Published in:

2018

By:

Song, Jiangning;
Li, Fuyi;
Leier, André;
Marquez-Lago, Tatiana T;
Akutsu, Tatsuya;
Haffari, Gholamreza;
Chou, Kuo-Chen;
Webb, Geoffrey I;
Pike, Robert N

Publication type:

Product Review

Krait: an ultrafast tool for genome-wide survey of microsatellites and primer design.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 681, doi. 10.1093/bioinformatics/btx665

By:

Du, Lianming;
Zhang, Chi;
Liu, Qin;
Zhang, Xiuyue;
Yue, Bisong

Publication type:

Article

PyBEL: a computational framework for Biological Expression Language.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 703, doi. 10.1093/bioinformatics/btx660

By:

Hoyt, Charles Tapley;
Konotopez, Andrej;
Ebeling, Christian

Publication type:

Article

SliceMap: an algorithm for automated brain region annotation.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 718, doi. 10.1093/bioinformatics/btx658

By:

Barbier, Michaël;
Bottelbergs, Astrid;
Nuydens, Rony;
Ebneth, Andreas;
Vos, Winnok H De

Publication type:

Article

xMWAS: a data-driven integration and differential network analysis tool.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 701, doi. 10.1093/bioinformatics/btx656

By:

Uppal, Karan;
Ma, Chunyu;
Go, Young-Mi;
Jones, Dean P

Publication type:

Article

An omnibus test for differential distribution analysis of microbiome sequencing data.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 643, doi. 10.1093/bioinformatics/btx650

By:

Chen, Jun;
King, Emily;
Deek, Rebecca;
Wei, Zhi;
Yu, Yue;
Grill, Diane;
Ballman, Karla

Publication type:

Article

UC2 search: using unique connectivity of uncharged compounds for metabolite annotation by database searching in mass spectrometry-based metabolomics.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 698, doi. 10.1093/bioinformatics/btx649

By:

Sakurai, Nozomu;
Narise, Takafumi;
Sim, Joon-Soo;
Lee, Chang-Muk;
Ikeda, Chiaki;
Akimoto, Nayumi;
Kanaya, Shigehiko

Publication type:

Article

SAGE2: parallel human genome assembly.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 678, doi. 10.1093/bioinformatics/btx648

By:

Molnar, Michael;
Haghshenas, Ehsan;
Ilie, Lucian

Publication type:

Article

MATAM: reconstruction of phylogenetic marker genes from short sequencing reads in metagenomes.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 585, doi. 10.1093/bioinformatics/btx644

By:

Pericard, Pierre;
Dufresne, Yoann;
Couderc, Loïc;
Blanquart, Samuel;
Touzet, Hélène

Publication type:

Article

Beyond similarity assessment: selecting the optimal model for sequence alignment via the Factorized Asymptotic Bayesian algorithm.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 576, doi. 10.1093/bioinformatics/btx643

By:

Takeda, Taikai;
Hamada, Michiaki

Publication type:

Article

Robust and sparse correlation matrix estimation for the analysis of high-dimensional genomics data.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 625, doi. 10.1093/bioinformatics/btx642

By:

Serra, Angela;
Coretto, Pietro;
Fratello, Michele;
Tagliaferri, Roberto

Publication type:

Article

Generalized correlation measure using count statistics for gene expression data with ordered samples.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 617, doi. 10.1093/bioinformatics/btx641

By:

Wang, Y X Rachel;
Liu, Ke;
Theusch, Elizabeth;
Rotter, Jerome I;
Medina, Marisa W;
Waterman, Michael S;
Huang, Haiyan

Publication type:

Article

Compression of genomic sequencing reads via hash-based reordering: algorithm and analysis.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 558, doi. 10.1093/bioinformatics/btx639

By:

Chandak, Shubham;
Tatwawadi, Kedar;
Weissman, Tsachy

Publication type:

Article

findGSE: estimating genome size variation within human and Arabidopsis using k-mer frequencies.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 550, doi. 10.1093/bioinformatics/btx637

By:

Sun, Hequan;
Ding, Jia;
Piednoël, Mathieu;
Schneeberger, Korbinian

Publication type:

Article

Squeakr: an exact and approximate k-mer counting system.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 568, doi. 10.1093/bioinformatics/btx636

By:

Pandey, Prashant;
Bender, Michael A;
Johnson, Rob;
Patro, Rob

Publication type:

Article

ThreaDNA: predicting DNA mechanics' contribution to sequence selectivity of proteins along whole genomes.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 609, doi. 10.1093/bioinformatics/btx634

By:

Cevost, Jasmin;
Vaillant, Cédric;
Meyer, Sam

Publication type:

Article

ViewBS: a powerful toolkit for visualization of high-throughput bisulfite sequencing data.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 708, doi. 10.1093/bioinformatics/btx633

By:

Huang, Xiaosan;
Zhang, Shaoling;
Li, Kongqing;
Thimmapuram, Jyothi;
Xie, Shaojun

Publication type:

Article

Towards unified quality verification of synthetic count data with countsimQC.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 691, doi. 10.1093/bioinformatics/btx631

By:

Soneson, Charlotte;
Robinson, Mark D

Publication type:

Article

BetaSerpentine: a bioinformatics tool for reconstruction of amyloid structures.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 599, doi. 10.1093/bioinformatics/btx629

By:

Bondarev, Stanislav A;
Bondareva, Olga V;
Zhouravleva, Galina A;
Kajava, Andrey V

Publication type:

Article

OncomiR: an online resource for exploring pan-cancer microRNA dysregulation.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 713, doi. 10.1093/bioinformatics/btx627

By:

Wong, Nathan W;
Chen, Yuhao;
Chen, Shuai;
Wang, Xiaowei

Publication type:

Article

PyDREAM: high-dimensional parameter inference for biological models in python.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 695, doi. 10.1093/bioinformatics/btx626

By:

Shockley, Erin M;
Vrugt, Jasper A;
Lopez, Carlos F

Publication type:

Article

HiCapTools: a software suite for probe design and proximity detection for targeted chromosome conformation capture applications.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 675, doi. 10.1093/bioinformatics/btx625

By:

Anil, Anandashankar;
Spalinskas, Rapolas;
Åkerborg, Örjan;
Sahlén, Pelin

Publication type:

Article

DeepGO: predicting protein functions from sequence and interactions using a deep ontology-aware classifier.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 660, doi. 10.1093/bioinformatics/btx624

By:

Kulmanov, Maxat;
Khan, Mohammed Asif;
Hoehndorf, Robert

Publication type:

Article

diffloop: a computational framework for identifying and analyzing differential DNA loops from sequencing data.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 672, doi. 10.1093/bioinformatics/btx623

By:

Lareau, Caleb A;
Aryee, Martin J

Publication type:

Article

On the mechanisms of protein interactions: predicting their affinity from unbound tertiary structures.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 592, doi. 10.1093/bioinformatics/btx616

By:

Marín-López, Manuel Alejandro;
Planas-Iglesias, Joan;
Aguirre-Plans, Joaquim;
Bonet, Jaume;
Garcia-Garcia, Javier;
Fernandez-Fuentes, Narcis;
Oliva, Baldo

Publication type:

Article

A collaborative filtering-based approach to biomedical knowledge discovery.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 652, doi. 10.1093/bioinformatics/btx613

By:

Lever, Jake;
Gakkhar, Sitanshu;
Gottlieb, Michael;
Rashnavadi, Tahereh;
Lin, Santina;
Siu, Celia;
Smith, Maia;
Jones, Martin R;
Krzywinski, Martin;
Jones, Steven J M

Publication type:

Article

Genome-wide pre-miRNA discovery from few labeled examples.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 541, doi. 10.1093/bioinformatics/btx612

By:

Yones, C;
Stegmayer, G;
Milone, D H

Publication type:

Article

Segway 2.0: Gaussian mixture models and minibatch training.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 669, doi. 10.1093/bioinformatics/btx603

By:

Chan, Rachel C W;
Libbrecht, Maxwell W;
Roberts, Eric G;
Bilmes, Jeffrey A;
Hoffman, Michael M

Publication type:

Article

Phosphonormalizer: an R package for normalization of MS-based label-free phosphoproteomics.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 693, doi. 10.1093/bioinformatics/btx573

By:

Saraei, Sohrab;
Suomi, Tomi;
Kauko, Otto;
Elo, Laura L

Publication type:

Article

Applying family analyses to electronic health records to facilitate genetic research.

Published in:

Bioinformatics, 2018, v. 34, n. 4, p. 635, doi. 10.1093/bioinformatics/btx569

By:

Huang, Xiayuan;
Elston, Robert C;
Rosa, Guilherme J;
Mayer, John;
Ye, Zhan;
Kitchner, Terrie;
Brilliant, Murray H;
Page, David;
Hebbring, Scott J

Publication type:

Article