Works matching IS 13674803 AND DT 2019 AND VI 35 AND IP 17

Results: 59

Inferring clonal heterogeneity in cancer using SNP arrays and whole genome sequencing.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3216, doi. 10.1093/bioinformatics/btz243

By:

Zucker, Mark R;
Abruzzo, Lynne V;
Herling, Carmen D;
Barron, Lynn L;
Keating, Michael J;
Abrams, Zachary B;
Heerema, Nyla;
Coombes, Kevin R

Publication type:

Article

GlycanAnalyzer: software for automated interpretation of N-glycan profiles after exoglycosidase digestions.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3214, doi. 10.1093/bioinformatics/btz077

By:

Walsh, Ian;
Nguyen-Khuong, Terry;
Wongtrakul-Kish, Katherine;
Tay, Shi Jie;
Chew, Daniel;
José, Tasha;
Taron, Christopher H;
Rudd, Pauline M

Publication type:

Article

Inferring clonal heterogeneity in cancer using SNP arrays and whole genome sequencing.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2924, doi. 10.1093/bioinformatics/btz057

By:

Zucker, Mark R;
Abruzzo, Lynne V;
Herling, Carmen D;
Barron, Lynn L;
Keating, Michael J;
Abrams, Zachary B;
Heerema, Nyla;
Coombes, Kevin R

Publication type:

Article

Best-first search guided multistage mass spectrometry-based glycan identification.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2991, doi. 10.1093/bioinformatics/btz056

By:

Wang, Yaojun;
Bu, Dongbo;
Huang, Chuncui;
Wang, Hui;
Zhou, Jinyu;
Dong, Junchuan;
Pan, Weiyi;
Zhang, Jingwei;
Zhang, Qi;
Li, Yan;
Sun, Shiwei

Publication type:

Article

Efficient implementation of convolutional neural networks in the data processing of two-photon in vivo imaging.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3208, doi. 10.1093/bioinformatics/btz055

By:

Wang, Yangzhen;
Su, Feng;
Wang, Shanshan;
Yang, Chaojuan;
Tian, Yonglu;
Yuan, Peijiang;
Liu, Xiaorong;
Xiong, Wei;
Zhang, Chen

Publication type:

Article

Varanto: variant enrichment analysis and annotation.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3154, doi. 10.1093/bioinformatics/btz046

By:

Timonen, Oskari;
Särkkä, Mikko;
Fülöp, Tibor;
Mattsson, Anton;
Kekäläinen, Juha;
Paananen, Jussi

Publication type:

Article

SRG extractor: a skinny reference genome approach for reduced-representation sequencing.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3160, doi. 10.1093/bioinformatics/btz043

By:

Torkamaneh, Davoud;
Laroche, Jérôme;
Rajcan, Istvan;
Belzile, François

Publication type:

Article

CMEP: a database for circulating microRNA expression profiling.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3127, doi. 10.1093/bioinformatics/btz042

By:

Li, Jian-Rong;
Tong, Chun-Yip;
Sung, Tsai-Jung;
Kang, Ting-Yu;
Zhou, Xianghong Jasmine;
Liu, Chun-Chi

Publication type:

Article

SVIM: structural variant identification using mapped long reads.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2907, doi. 10.1093/bioinformatics/btz041

By:

Heller, David;
Vingron, Martin

Publication type:

Article

Protein fold recognition based on multi-view modeling.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2982, doi. 10.1093/bioinformatics/btz040

By:

Yan, Ke;
Fang, Xiaozhao;
Xu, Yong;
Liu, Bin

Publication type:

Article

Tracing the ancestry of operons in bacteria.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2998, doi. 10.1093/bioinformatics/btz053

By:

Nguyen, Huy N;
Jain, Ashish;
Eulenstein, Oliver;
Friedberg, Iddo

Publication type:

Article

DiffNetFDR: differential network analysis with false discovery rate control.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3184, doi. 10.1093/bioinformatics/btz051

By:

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

Publication type:

Article

multiHiCcompare: joint normalization and comparative analysis of complex Hi-C experiments.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2916, doi. 10.1093/bioinformatics/btz048

By:

Stansfield, John C;
Cresswell, Kellen G;
Dozmorov, Mikhail G

Publication type:

Article

The ReproGenomics Viewer: a multi-omics and cross-species resource compatible with single-cell studies for the reproductive science community.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3133, doi. 10.1093/bioinformatics/btz047

By:

Darde, Thomas A;
Lecluze, Estelle;
Lardenois, Aurélie;
Stévant, Isabelle;
Alary, Nathan;
Tüttelmann, Frank;
Collin, Olivier;
Nef, Serge;
Jégou, Bernard;
Rolland, Antoine D;
Chalmel, Frédéric

Publication type:

Article

InterMineR: an R package for InterMine databases.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3206, doi. 10.1093/bioinformatics/btz039

By:

Kyritsis, Konstantinos A;
Wang, Bing;
Sullivan, Julie;
Lyne, Rachel;
Micklem, Gos

Publication type:

Article

Functional data analysis for computational biology.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3211, doi. 10.1093/bioinformatics/btz045

By:

Cremona, Marzia A;
Xu, Hongyan;
Makova, Kateryna D;
Reimherr, Matthew;
Chiaromonte, Francesca;
Madrigal, Pedro

Publication type:

Article

RIscoper: a tool for RNA–RNA interaction extraction from the literature.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3199, doi. 10.1093/bioinformatics/btz044

By:

Zhang, Yang;
Liu, Tianyuan;
Chen, Liqun;
Yang, Jinxurong;
Yin, Jiayi;
Zhang, Yuncong;
Yun, Zhixi;
Xu, Hao;
Ning, Lin;
Guo, Fengbiao;
Jiang, Yongshuai;
Lin, Hao;
Wang, Dong;
Huang, Yan;
Huang, Jian

Publication type:

Article

The interplay between microRNA and alternative splicing of linear and circular RNAs in eleven plant species.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3119, doi. 10.1093/bioinformatics/btz038

By:

Wang, Huiyuan;
Wang, Huihui;
Zhang, Hangxiao;
Liu, Sheng;
Wang, Yongsheng;
Gao, Yubang;
Xi, Feihu;
Zhao, Liangzhen;
Liu, Bo;
Reddy, Anireddy S N;
Lin, Chentao;
Gu, Lianfeng

Publication type:

Article

SMARTCyp 3.0: enhanced cytochrome P450 site-of-metabolism prediction server.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3174, doi. 10.1093/bioinformatics/btz037

By:

Olsen, Lars;
Montefiori, Marco;
Tran, Khanhvi Phuc;
Jørgensen, Flemming Steen

Publication type:

Article

OLGA: fast computation of generation probabilities of B- and T-cell receptor amino acid sequences and motifs.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2974, doi. 10.1093/bioinformatics/btz035

By:

Sethna, Zachary;
Elhanati, Yuval;
Callan, Curtis G;
Walczak, Aleksandra M;
Mora, Thierry

Publication type:

Article

queryMed: Semantic Web functions for linking pharmacological and medical knowledge to data.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3203, doi. 10.1093/bioinformatics/btz034

By:

Rivault, Y;
Dameron, O;
Meur, N Le

Publication type:

Article

Improved indel detection in DNA and RNA via realignment with ABRA2.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2966, doi. 10.1093/bioinformatics/btz033

By:

Mose, Lisle E;
Perou, Charles M;
Parker, Joel S

Publication type:

Article

A network of networks approach for modeling interconnected brain tissue-specific networks.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3092, doi. 10.1093/bioinformatics/btz032

By:

Kawakubo, Hideko;
Matsui, Yusuke;
Kushima, Itaru;
Ozaki, Norio;
Shimamura, Teppei

Publication type:

Article

ensembldb: an R package to create and use Ensembl-based annotation resources.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3151, doi. 10.1093/bioinformatics/btz031

By:

Rainer, Johannes;
Gatto, Laurent;
Weichenberger, Christian X

Publication type:

Article

ClusterMap: compare multiple single cell RNA-Seq datasets across different experimental conditions.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3038, doi. 10.1093/bioinformatics/btz024

By:

Gao, Xin;
Hu, Deqing;
Gogol, Madelaine;
Li, Hua

Publication type:

Article

admixr—R package for reproducible analyses using ADMIXTOOLS.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3194, doi. 10.1093/bioinformatics/btz030

By:

Petr, Martin;
Vernot, Benjamin;
Kelso, Janet

Publication type:

Article

PSiTE: a Phylogeny guided Simulator for Tumor Evolution.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3148, doi. 10.1093/bioinformatics/btz028

By:

Yang, Hechuan;
Lu, Bingxin;
Lai, Lan Huong;
Lim, Abner Herbert;
Alvarez, Jacob Josiah Santiago;
Zhai, Weiwei

Publication type:

Article

EBIC: an open source software for high-dimensional and big data analyses.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3181, doi. 10.1093/bioinformatics/btz027

By:

Orzechowski, Patryk;
Moore, Jason H

Publication type:

Article

KORP: knowledge-based 6D potential for fast protein and loop modeling.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3013, doi. 10.1093/bioinformatics/btz026

By:

López-Blanco, José Ramón;
Chacón, Pablo

Publication type:

Article

COmplexome Profiling ALignment (COPAL) reveals remodeling of mitochondrial protein complexes in Barth syndrome.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3083, doi. 10.1093/bioinformatics/btz025

By:

Strien, Joeri Van;
Guerrero-Castillo, Sergio;
Chatzispyrou, Iliana A;
Houtkooper, Riekelt H;
Brandt, Ulrich;
Huynen, Martijn A

Publication type:

Article

AllerCatPro—prediction of protein allergenicity potential from the protein sequence.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3020, doi. 10.1093/bioinformatics/btz029

By:

Maurer-Stroh, Sebastian;
Krutz, Nora L;
Kern, Petra S;
Gunalan, Vithiagaran;
Nguyen, Minh N;
Limviphuvadh, Vachiranee;
Eisenhaber, Frank;
Gerberick, G Frank

Publication type:

Article

Large-scale analysis of human gene expression variability associates highly variable drug targets with lower drug effectiveness and safety.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3028, doi. 10.1093/bioinformatics/btz023

By:

Simonovsky, Eyal;
Schuster, Ronen;
Yeger-Lotem, Esti

Publication type:

Article

Deuteros: software for rapid analysis and visualization of data from differential hydrogen deuterium exchange-mass spectrometry.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3171, doi. 10.1093/bioinformatics/btz022

By:

Lau, Andy M C;
Ahdash, Zainab;
Martens, Chloe;
Politis, Argyris

Publication type:

Article

METACLUSTER—an R package for context-specific expression analysis of metabolic gene clusters.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3178, doi. 10.1093/bioinformatics/btz021

By:

Banf, Michael;
Zhao, Kangmei;
Rhee, Seung Y

Publication type:

Article

TopoLink: evaluation of structural models using chemical crosslinking distance constraints.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3169, doi. 10.1093/bioinformatics/btz014

By:

Ferrari, Allan J R;
Clasen, Milan A;
Kurt, Louise;
Carvalho, Paulo C;
Gozzo, Fabio C;
Martínez, Leandro

Publication type:

Article

Crisflash: open-source software to generate CRISPR guide RNAs against genomes annotated with individual variation.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3146, doi. 10.1093/bioinformatics/btz019

By:

Jacquin, Adrien L S;
Odom, Duncan T;
Lukk, Margus

Publication type:

Article

SMuRF: portable and accurate ensemble prediction of somatic mutations.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3157, doi. 10.1093/bioinformatics/btz018

By:

Huang, Weitai;
Guo, Yu Amanda;
Muthukumar, Karthik;
Baruah, Probhonjon;
Chang, Mei Mei;
Skanderup, Anders Jacobsen

Publication type:

Article

PopCluster: an algorithm to identify genetic variants with ethnicity-dependent effects.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3046, doi. 10.1093/bioinformatics/btz017

By:

Gurinovich, Anastasia;
Bae, Harold;
Farrell, John J;
Andersen, Stacy L;
Monti, Stefano;
Puca, Annibale;
Atzmon, Gil;
Barzilai, Nir;
Perls, Thomas T;
Sebastiani, Paola

Publication type:

Article

MULTiPly: a novel multi-layer predictor for discovering general and specific types of promoters.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2957, doi. 10.1093/bioinformatics/btz016

By:

Zhang, Meng;
Li, Fuyi;
Marquez-Lago, Tatiana T;
Leier, André;
Fan, Cunshuo;
Kwoh, Chee Keong;
Chou, Kuo-Chen;
Song, Jiangning;
Jia, Cangzhi

Publication type:

Article

Benchmark problems for dynamic modeling of intracellular processes.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3073, doi. 10.1093/bioinformatics/btz020

By:

Hass, Helge;
Loos, Carolin;
Raimúndez-Álvarez, Elba;
Timmer, Jens;
Hasenauer, Jan;
Kreutz, Clemens

Publication type:

Article

Statistical force-field for structural modeling using chemical cross-linking/mass spectrometry distance constraints.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3005, doi. 10.1093/bioinformatics/btz013

By:

Ferrari, Allan J R;
Gozzo, Fabio C;
Martínez, Leandro

Publication type:

Article

A web application and service for imputing and visualizing missense variant effect maps.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3191, doi. 10.1093/bioinformatics/btz012

By:

Wu, Yingzhou;
Weile, Jochen;
Cote, Atina G;
Sun, Song;
Knapp, Jennifer;
Verby, Marta;
Roth, Frederick P

Publication type:

Article

AQUAPONY: visualization and interpretation of phylogeographic information on phylogenetic trees.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3163, doi. 10.1093/bioinformatics/btz011

By:

Cazaux, Bastien;
Castel, Guillaume;
Rivals, Eric

Publication type:

Article

Sstack: an R package for stacking with applications to scenarios involving sequential addition of samples and features.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3143, doi. 10.1093/bioinformatics/btz010

By:

Matlock, Kevin;
Rahman, Raziur;
Ghosh, Souparno;
Pal, Ranadip

Publication type:

Article

Ordino: a visual cancer analysis tool for ranking and exploring genes, cell lines and tissue samples.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3140, doi. 10.1093/bioinformatics/btz009

By:

Streit, Marc;
Gratzl, Samuel;
Stitz, Holger;
Wernitznig, Andreas;
Zichner, Thomas;
Haslinger, Christian

Publication type:

Article

Characterization and identification of long non-coding RNAs based on feature relationship.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2949, doi. 10.1093/bioinformatics/btz008

By:

Wang, Guangyu;
Yin, Hongyan;
Li, Boyang;
Yu, Chunlei;
Wang, Fan;
Xu, Xingjian;
Cao, Jiabao;
Bao, Yiming;
Wang, Liguo;
Abbasi, Amir A;
Bajic, Vladimir B;
Ma, Lina;
Zhang, Zhang

Publication type:

Article

CluMSID: an R package for similarity-based clustering of tandem mass spectra to aid feature annotation in metabolomics.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3196, doi. 10.1093/bioinformatics/btz005

By:

Depke, Tobias;
Franke, Raimo;
Brönstrup, Mark

Publication type:

Article

KASPspoon: an in vitro and in silico PCR analysis tool for high-throughput SNP genotyping.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3187, doi. 10.1093/bioinformatics/btz004

By:

Alsamman, Alsamman M;
Ibrahim, Shafik D;
Hamwieh, Aladdin

Publication type:

Article

Identifying residues that determine palmitoylation using association rule mining.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 2887, doi. 10.1093/bioinformatics/btz003

By:

Kumari, Bandana;
Kumar, Ravindra;
Kumar, Manish

Publication type:

Article

Streamlined analysis of LINCS L1000 data with the slinky package for R.

Published in:

Bioinformatics, 2019, v. 35, n. 17, p. 3176, doi. 10.1093/bioinformatics/btz002

By:

Kort, Eric J;
Jovinge, Stefan

Publication type:

Article