Works matching IS 13674803 AND DT 2018 AND VI 34 AND IP 13

Results: 105

Corrigendum.

Published in:

2018

By:

Jalili, Vahid;
Matteucci, Matteo;
Masseroli, Marco;
Morelli, Marco J

Publication type:

Correction Notice

2018 ISCB Innovator Award recognizes M. Madan Babu.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2336, doi. 10.1093/bioinformatics/bty328

By:

Fogg, Christiana N;
Kovats, Diane E;
Shamir, Ron

Publication type:

Article

Corrigendum.

Published in:

2018

By:

Zhang, Xiaohua Douglas;
Zhang, Zhaozhi;
Wang, Dandan

Publication type:

Correction Notice

Corrigendum.

Published in:

2018

By:

Hoffmann, Anne;
Fallmann, Jörg;
Vilardo, Elisa;
Mörl, Mario;
Stadler, Peter F;
Amman, Fabian

Publication type:

Correction Notice

Message from the ISCB: 2018 Outstanding Contributions to ISCB Award: Russ Altman.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2334, doi. 10.1093/bioinformatics/bty308

By:

Fogg, Christiana N;
Kovats, Diane E;
Shamir, Ron

Publication type:

Article

Message from the ISCB: 2018 ISCB Accomplishments by a Senior Scientist Award.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2332, doi. 10.1093/bioinformatics/bty284

By:

Fogg, Christiana N;
Kovats, Diane E;
Shamir, Ron

Publication type:

Article

2018 ISCB Overton Prize awarded to Cole Trapnell.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2330, doi. 10.1093/bioinformatics/bty360

By:

Fogg, Christiana N;
Kovats, Diane E;
Shamir, Ron

Publication type:

Article

PartsGenie: an integrated tool for optimizing and sharing synthetic biology parts.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2327, doi. 10.1093/bioinformatics/bty105

By:

Swainston, Neil;
Dunstan, Mark;
Jervis, Adrian J;
Robinson, Christopher J;
Carbonell, Pablo;
Williams, Alan R;
Faulon, Jean-Loup;
Scrutton, Nigel S;
Kell, Douglas B

Publication type:

Article

MutHTP: mutations in human transmembrane proteins.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2325, doi. 10.1093/bioinformatics/bty054

By:

Kulandaisamy, A;
Priya, S Binny;
Sakthivel, R;
Tarnovskaya, Svetlana;
Bizin, Ilya;
Hönigschmid, Peter;
Frishman, Dmitrij;
Gromiha, M Michael

Publication type:

Article

nVenn: generalized, quasi-proportional Venn and Euler diagrams.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2322, doi. 10.1093/bioinformatics/bty109

By:

Pérez-Silva, José G;
Araujo-Voces, Miguel;
Quesada, Víctor

Publication type:

Article

MARSI: metabolite analogues for rational strain improvement.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2319, doi. 10.1093/bioinformatics/bty108

By:

Cardoso, João G R;
Zeidan, Ahmad A;
Jensen, Kristian;
Sonnenschein, Nikolaus;
Neves, Ana Rute;
Herrgård, Markus J

Publication type:

Article

BEL2ABM: agent-based simulation of static models in Biological Expression Language.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2316, doi. 10.1093/bioinformatics/bty107

By:

Gündel, Michaela;
Hoyt, Charles Tapley;
Hofmann-Apitius, Martin

Publication type:

Article

ShinyKGode: an interactive application for ODE parameter inference using gradient matching.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2314, doi. 10.1093/bioinformatics/bty089

By:

Wandy, Joe;
Niu, Mu;
Giurghita, Diana;
Daly, Rónán;
Rogers, Simon;
Husmeier, Dirk

Publication type:

Article

MIIC online: a web server to reconstruct causal or non-causal networks from non-perturbative data.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2311, doi. 10.1093/bioinformatics/btx844

By:

Sella, Nadir;
Verny, Louis;
Uguzzoni, Guido;
Affeldt, Séverine;
Isambert, Hervé

Publication type:

Article

Bacmeta: simulator for genomic evolution in bacterial metapopulations.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2308, doi. 10.1093/bioinformatics/bty093

By:

Sipola, Aleksi;
Marttinen, Pekka;
Corander, Jukka

Publication type:

Article

GAIT: Gene expression Analysis for Interval Time.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2305, doi. 10.1093/bioinformatics/bty111

By:

Kim, Yoojoong;
Kang, Yeong Seon;
Seok, Junhee

Publication type:

Article

StructureMapper: a high-throughput algorithm for analyzing protein sequence locations in structural data.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2302, doi. 10.1093/bioinformatics/bty086

By:

Nurminen, Anssi;
Hytönen, Vesa P

Publication type:

Article

PhyloMAd: efficient assessment of phylogenomic model adequacy.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2300, doi. 10.1093/bioinformatics/bty103

By:

Duchêne, David A;
Duchêne, Sebastian;
Ho, Simon Y W

Publication type:

Article

SubRecon: ancestral reconstruction of amino acid substitutions along a branch in a phylogeny.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2297, doi. 10.1093/bioinformatics/bty101

By:

Monit, Christopher;
Goldstein, Richard A

Publication type:

Article

SecretSanta: flexible pipelines for functional secretome prediction.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2295, doi. 10.1093/bioinformatics/bty088

By:

Gogleva, Anna;
Drost, Hajk-Georg;
Schornack, Sebastian

Publication type:

Article

SEED 2: a user-friendly platform for amplicon high-throughput sequencing data analyses.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2292, doi. 10.1093/bioinformatics/bty071

By:

Větrovský, Tomáš;
Baldrian, Petr;
Morais, Daniel

Publication type:

Article

IWTomics: testing high-resolution sequence-based 'Omics' data at multiple locations and scales.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2289, doi. 10.1093/bioinformatics/bty090

By:

Cremona, Marzia A;
Pini, Alessia;
Cumbo, Fabio;
Makova, Kateryna D;
Chiaromonte, Francesca;
Vantini, Simone

Publication type:

Article

chromswitch: a flexible method to detect chromatin state switches.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2286, doi. 10.1093/bioinformatics/bty075

By:

Jessa, Selin;
Kleinman, Claudia L

Publication type:

Article

RaMWAS: fast methylome-wide association study pipeline for enrichment platforms.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2283, doi. 10.1093/bioinformatics/bty069

By:

Shabalin, Andrey A;
Hattab, Mohammad W;
Clark, Shaunna L;
Chan, Robin F;
Kumar, Gaurav;
Aberg, Karolina A;
Oord, Edwin J C G van den

Publication type:

Article

WDL-RF: predicting bioactivities of ligand molecules acting with G protein-coupled receptors by combining weighted deep learning and random forest.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2271, doi. 10.1093/bioinformatics/bty070

By:

Wu, Jiansheng;
Zhang, Qiuming;
Wu, Weijian;
Pang, Tao;
Hu, Haifeng;
Chan, Wallace K B;
Ke, Xiaoyan;
Zhang, Yang

Publication type:

Article

ARGs-OAP v2.0 with an expanded SARG database and Hidden Markov Models for enhancement characterization and quantification of antibiotic resistance genes in environmental metagenomes.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2263, doi. 10.1093/bioinformatics/bty053

By:

Yin, Xiaole;
Jiang, Xiao-Tao;
Chai, Benli;
Li, Liguan;
Yang, Ying;
Cole, James R;
Tiedje, James M;
Zhang, Tong

Publication type:

Article

pBRIT: gene prioritization by correlating functional and phenotypic annotations through integrative data fusion.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2254, doi. 10.1093/bioinformatics/bty079

By:

Kumar, Ajay Anand;
Laer, Lut Van;
Alaerts, Maaike;
Ardeshirdavani, Amin;
Moreau, Yves;
Laukens, Kris;
Loeys, Bart;
Vandeweyer, Geert

Publication type:

Article

flowLearn: fast and precise identification and quality checking of cell populations in flow cytometry.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2245, doi. 10.1093/bioinformatics/bty082

By:

Lux, Markus;
Brinkman, Ryan Remy;
Chauve, Cedric;
Laing, Adam;
Lorenc, Anna;
Abeler-Dörner, Lucie;
Hammer, Barbara

Publication type:

Article

CrossPlan: systematic planning of genetic crosses to validate mathematical models.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2237, doi. 10.1093/bioinformatics/bty072

By:

Pratapa, Aditya;
Adames, Neil;
Kraikivski, Pavel;
Franzese, Nicholas;
Tyson, John J;
Peccoud, Jean;
Murali, T M

Publication type:

Article

Multiobjective multifactor dimensionality reduction to detect SNP-SNP interactions.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2228, doi. 10.1093/bioinformatics/bty076

By:

Yang, Cheng-Hong;
Chuang, Li-Yeh;
Lin, Yu-Da

Publication type:

Article

Combining co-evolution and secondary structure prediction to improve fragment library generation.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2219, doi. 10.1093/bioinformatics/bty084

By:

Oliveira, Saulo H P de;
Deane, Charlotte M

Publication type:

Article

LS-align: an atom-level, flexible ligand structural alignment algorithm for high-throughput virtual screening.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2209, doi. 10.1093/bioinformatics/bty081

By:

Hu, Jun;
Liu, Zi;
Yu, Dong-Jun;
Zhang, Yang

Publication type:

Article

Enhancing protein fold determination by exploring the complementary information of chemical cross-linking and coevolutionary signals.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2201, doi. 10.1093/bioinformatics/bty074

By:

Santos, Ricardo N dos;
Ferrari, Allan J R;
Jesus, Hugo C R de;
Gozzo, Fábio C;
Morcos, Faruck;
Martínez, Leandro

Publication type:

Article

ViCTree: an automated framework for taxonomic classification from protein sequences.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2195, doi. 10.1093/bioinformatics/bty099

By:

Modha, Sejal;
Thanki, Anil S;
Cotmore, Susan F;
Davison, Andrew J;
Hughes, Joseph

Publication type:

Article

NeuroMorphoVis: a collaborative framework for analysis and visualization of neuronal morphology skeletons reconstructed from microscopy stacks.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i574, doi. 10.1093/bioinformatics/bty231

By:

Abdellah, Marwan;
Hernando, Juan;
Eilemann, Stefan;
Lapere, Samuel;
Antille, Nicolas;
Markram, Henry;
Schürmann, Felix

Publication type:

Article

The lncLocator: a subcellular localization predictor for long non-coding RNAs based on a stacked ensemble classifier.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2185, doi. 10.1093/bioinformatics/bty085

By:

Cao, Zhen;
Pan, Xiaoyong;
Yang, Yang;
Huang, Yan;
Shen, Hong-Bin

Publication type:

Article

IDP-denovo: de novo transcriptome assembly and isoform annotation by hybrid sequencing.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2168, doi. 10.1093/bioinformatics/bty098

By:

Fu, Shuhua;
Ma, Yingke;
Yao, Hui;
Xu, Zhichao;
Chen, Shilin;
Song, Jingyuan;
Au, Kin Fai

Publication type:

Article

Improved genomic island predictions with IslandPath-DIMOB.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2161, doi. 10.1093/bioinformatics/bty095

By:

Bertelli, Claire;
Brinkman, Fiona S L

Publication type:

Article

Modeling polypharmacy side effects with graph convolutional networks.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i457, doi. 10.1093/bioinformatics/bty294

By:

Zitnik, Marinka;
Agrawal, Monica;
Leskovec, Jure

Publication type:

Article

The Kappa platform for rule-based modeling.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i583, doi. 10.1093/bioinformatics/bty272

By:

Boutillier, Pierre;
Maasha, Mutaamba;
Li, Xing;
Medina-Abarca, Héctor F;
Krivine, Jean;
Feret, Jérôme;
Cristescu, Ioana;
Forbes, Angus G;
Fontana, Walter

Publication type:

Article

Hierarchical analysis of RNA-seq reads improves the accuracy of allele-specific expression.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. 2177, doi. 10.1093/bioinformatics/bty078

By:

Raghupathy, Narayanan;
Choi, Kwangbom;
Vincent, Matthew J;
Beane, Glen L;
Sheppard, Keith S;
Munger, Steven C;
Korstanje, Ron;
Villena, Fernando Pardo-Manual de;
Churchill, Gary A

Publication type:

Article

Deep neural networks and distant supervision for geographic location mention extraction.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i565, doi. 10.1093/bioinformatics/bty273

By:

Magge, Arjun;
Weissenbacher, Davy;
Sarker, Abeed;
Scotch, Matthew;
Gonzalez-Hernandez, Graciela

Publication type:

Article

Driver gene mutations based clustering of tumors: methods and applications.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i404, doi. 10.1093/bioinformatics/bty232

By:

Zhang, Wensheng;
Flemington, Erik K;
Zhang, Kun

Publication type:

Article

Quantifying the similarity of topological domains across normal and cancer human cell types.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i475, doi. 10.1093/bioinformatics/bty265

By:

Sauerwald, Natalie;
Kingsford, Carl

Publication type:

Article

GSEA-InContext: identifying novel and common patterns in expression experiments.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i555, doi. 10.1093/bioinformatics/bty271

By:

Powers, Rani K;
Goodspeed, Andrew;
Pielke-Lombardo, Harrison;
Tan, Aik-Choon;
Costello, James C

Publication type:

Article

SigMat: a classification scheme for gene signature matching.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i547, doi. 10.1093/bioinformatics/bty251

By:

Xiao, Jinfeng;
Blatti, Charles;
Sinha, Saurabh

Publication type:

Article

A new method for constructing tumor specific gene co-expression networks based on samples with tumor purity heterogeneity.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i528, doi. 10.1093/bioinformatics/bty280

By:

Petralia, Francesca;
Wang, Li;
Peng, Jie;
Yan, Arthur;
Zhu, Jun;
Wang, Pei

Publication type:

Article

PrimAlign: PageRank-inspired Markovian alignment for large biological networks.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i537, doi. 10.1093/bioinformatics/bty288

By:

Kalecky, Karel;
Cho, Young-Rae

Publication type:

Article

Learning with multiple pairwise kernels for drug bioactivity prediction.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i509, doi. 10.1093/bioinformatics/bty277

By:

Cichonska, Anna;
Pahikkala, Tapio;
Szedmak, Sandor;
Julkunen, Heli;
Airola, Antti;
Heinonen, Markus;
Aittokallio, Tero;
Rousu, Juho

Publication type:

Article

Improved pathway reconstruction from RNA interference screens by exploiting off-target effects.

Published in:

Bioinformatics, 2018, v. 34, n. 13, p. i519, doi. 10.1093/bioinformatics/bty240

By:

Srivatsa, Sumana;
Kuipers, Jack;
Schmich, Fabian;
Eicher, Simone;
Emmenlauer, Mario;
Dehio, Christoph;
Beerenwinkel, Niko

Publication type:

Article