Works matching IS 14712105 AND DT 2020 AND VI 21 AND IP 1

Results: 436

QuaDMutNetEx: a method for detecting cancer driver genes with low mutation frequency.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3449-2

By:

Bokhari, Yahya;
Alhareeri, Areej;
Arodz, Tomasz

Publication type:

Article

Hellinger distance-based stable sparse feature selection for high-dimensional class-imbalanced data.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3411-3

By:

Fu, Guang-Hui;
Wu, Yuan-Jiao;
Zong, Min-Jie;
Pan, Jianxin

Publication type:

Article

Fast tree aggregation for consensus hierarchical clustering.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3453-6

By:

Hulot, Audrey;
Chiquet, Julien;
Jaffrézic, Florence;
Rigaill, Guillem

Publication type:

Article

Standard machine learning approaches outperform deep representation learning on phenotype prediction from transcriptomics data.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3427-8

By:

Smith, Aaron M.;
Walsh, Jonathan R.;
Long, John;
Davis, Craig B.;
Henstock, Peter;
Hodge, Martin R.;
Maciejewski, Mateusz;
Mu, Xinmeng Jasmine;
Ra, Stephen;
Zhao, Shanrong;
Ziemek, Daniel;
Fisher, Charles K.

Publication type:

Article

Efficient identification of multiple pathways: RNA-Seq analysis of livers from 56Fe ion irradiated mice.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3446-5

By:

Nia, Anna M.;
Chen, Tianlong;
Barnette, Brooke L.;
Khanipov, Kamil;
Ullrich, Robert L.;
Bhavnani, Suresh K.;
Emmett, Mark R.

Publication type:

Article

Correction to: Computational assembly of a human Cytomegalovirus vaccine upon experimental epitope legacy.

Published in:

2020

By:

Quinzo, Monica J.;
Lafuente, Esther M.;
Zuluaga, Pilar;
Flower, Darren R.;
Reche, Pedro A.

Publication type:

Correction Notice

2D electrophoresis image brightness correction based on gradient interval histogram.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3432-y

By:

Ou, Qiaofeng;
Xiao, Jiabing;
Yu, Lei;
Wu, Kaizhi;
Xiong, Bangshu

Publication type:

Article

Modeling methylation dynamics with simultaneous changes in CpG islands.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3438-5

By:

Grosser, Konrad;
Metzler, Dirk

Publication type:

Article

SEQing: web-based visualization of iCLIP and RNA-seq data in an interactive python framework.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3434-9

By:

Lewinski, Martin;
Bramkamp, Yannik;
Köster, Tino;
Staiger, Dorothee

Publication type:

Article

RASflow: an RNA-Seq analysis workflow with Snakemake.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3433-x

By:

Zhang, Xiaokang;
Jonassen, Inge

Publication type:

Article

A deep learning-based framework for lung cancer survival analysis with biomarker interpretation.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3431-z

By:

Cui, Lei;
Li, Hansheng;
Hui, Wenli;
Chen, Sitong;
Yang, Lin;
Kang, Yuxin;
Bo, Qirong;
Feng, Jun

Publication type:

Article

LCQS: an efficient lossless compression tool of quality scores with random access functionality.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3428-7

By:

Fu, Jiabing;
Ke, Bixin;
Dong, Shoubin

Publication type:

Article

PESM: predicting the essentiality of miRNAs based on gradient boosting machines and sequences.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3426-9

By:

Yan, Cheng;
Wu, Fang-Xiang;
Wang, Jianxin;
Duan, Guihua

Publication type:

Article

Revealing hidden information in osteoblast's mechanotransduction through analysis of time patterns of critical events.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3394-0

By:

Ascolani, Gianluca;
Skerry, Timothy M.;
Lacroix, Damien;
Dall'Ara, Enrico;
Shuaib, Aban

Publication type:

Article

MethylNet: an automated and modular deep learning approach for DNA methylation analysis.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3443-8

By:

Levy, Joshua J.;
Titus, Alexander J.;
Petersen, Curtis L.;
Chen, Youdinghuan;
Salas, Lucas A.;
Christensen, Brock C.

Publication type:

Article

Variant effect predictions capture some aspects of deep mutational scanning experiments.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3439-4

By:

Reeb, Jonas;
Wirth, Theresa;
Rost, Burkhard

Publication type:

Article

AllEnricher: a comprehensive gene set function enrichment tool for both model and non-model species.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3408-y

By:

Zhang, Du;
Hu, Qi;
Liu, Xinxing;
Zou, Kai;
Sarkodie, Emmanuel Konadu;
Liu, Xueduan;
Gao, Fei

Publication type:

Article

Joining Illumina paired-end reads for classifying phylogenetic marker sequences.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3445-6

By:

Liu, Tsunglin;
Chen, Chen-Yu;
Chen-Deng, An;
Chen, Yi-Lin;
Wang, Jiu-Yao;
Hou, Yung-I;
Lin, Min-Ching

Publication type:

Article

Machine learning prediction of oncology drug targets based on protein and network properties.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3442-9

By:

Dezső, Zoltán;
Ceccarelli, Michele

Publication type:

Article

MoAIMS: efficient software for detection of enriched regions of MeRIP-Seq.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3430-0

By:

Zhang, Yiqian;
Hamada, Michiaki

Publication type:

Article

Network hub-node prioritization of gene regulation with intra-network association.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3444-7

By:

Chang, Hung-Ching;
Chu, Chiao-Pei;
Lin, Shu-Ju;
Hsiao, Chuhsing Kate

Publication type:

Article

A big data approach to metagenomics for all-food-sequencing.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3429-6

By:

Kobus, Robin;
Abuín, José M.;
Müller, André;
Hellmann, Sören Lukas;
Pichel, Juan C.;
Pena, Tomás F.;
Hildebrandt, Andreas;
Hankeln, Thomas;
Schmidt, Bertil

Publication type:

Article

PyBSASeq: a simple and effective algorithm for bulked segregant analysis with whole-genome sequencing data.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3435-8

By:

Zhang, Jianbo;
Panthee, Dilip R.

Publication type:

Article

Gamevar.f90: a software package for calculating individual gametic diversity.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3417-x

By:

de Abreu Santos, Daniel Jordan;
Cole, John B.;
Liu, George E.;
VanRaden, Paul M.;
Ma, Li

Publication type:

Article

CNV Radar: an improved method for somatic copy number alteration characterization in oncology.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3397-x

By:

Soong, David;
Stratford, Jeran;
Avet-Loiseau, Herve;
Bahlis, Nizar;
Davies, Faith;
Dispenzieri, Angela;
Sasser, A. Kate;
Schecter, Jordan M.;
Qi, Ming;
Brown, Chad;
Jones, Wendell;
Keats, Jonathan J.;
Auclair, Daniel;
Chiu, Christopher;
Powers, Jason;
Schaffer, Michael

Publication type:

Article

Comparative study of whole exome sequencing-based copy number variation detection tools.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3421-1

By:

Zhao, Lanling;
Liu, Han;
Yuan, Xiguo;
Gao, Kun;
Duan, Junbo

Publication type:

Article

Family reunion via error correction: an efficient analysis of duplex sequencing data.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3419-8

By:

Stoler, Nicholas;
Arbeithuber, Barbara;
Povysil, Gundula;
Heinzl, Monika;
Salazar, Renato;
Makova, Kateryna D;
Tiemann-Boege, Irene;
Nekrutenko, Anton

Publication type:

Article

Modelling the effect of subcellular mutations on the migration of cells in the colorectal crypt.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3391-3

By:

Romijn, Lotte B.;
Almet, Axel A.;
Tan, Chin Wee;
Osborne, James M.

Publication type:

Article

LK-DFBA: a linear programming-based modeling strategy for capturing dynamics and metabolite-dependent regulation in metabolism.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3422-0

By:

Dromms, Robert A.;
Lee, Justin Y.;
Styczynski, Mark P.

Publication type:

Article

Comparison of pathway and gene-level models for cancer prognosis prediction.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3423-z

By:

Zheng, Xingyu;
Amos, Christopher I.;
Frost, H. Robert

Publication type:

Article

Assessing stationary distributions derived from chromatin contact maps.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3424-y

By:

Segal, Mark R.;
Fletez-Brant, Kipper

Publication type:

Article

Combining feature selection and shape analysis uncovers precise rules for miRNA regulation in Huntington's disease mice.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3418-9

By:

Mégret, Lucile;
Nair, Satish Sasidharan;
Dancourt, Julia;
Aaronson, Jeff;
Rosinski, Jim;
Neri, Christian

Publication type:

Article

Pre- and post-sequencing recommendations for functional annotation of human fecal metagenomes.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3416-y

By:

Treiber, Michelle L.;
Taft, Diana H.;
Korf, Ian;
Mills, David A.;
Lemay, Danielle G.

Publication type:

Article

Multistability in the epithelial-mesenchymal transition network.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3413-1

By:

Xin, Ying;
Cummins, Bree;
Gedeon, Tomáš

Publication type:

Article

proMAD: semiquantitative densitometric measurement of protein microarrays.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3402-4

By:

Jaeschke, Anna;
Eckert, Hagen;
Bray, Laura J.

Publication type:

Article

Prediction of new associations between ncRNAs and diseases exploiting multi-type hierarchical clustering.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3392-2

By:

Barracchia, Emanuele Pio;
Pio, Gianvito;
D'Elia, Domenica;
Ceci, Michelangelo

Publication type:

Article

MOMO - multi-objective metabolic mixed integer optimization: application to yeast strain engineering.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3377-1

By:

Andrade, Ricardo;
Doostmohammadi, Mahdi;
Santos, João L.;
Sagot, Marie-France;
Mira, Nuno P.;
Vinga, Susana

Publication type:

Article

GenEpi: gene-based epistasis discovery using machine learning.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3368-2

By:

Chang, Yu-Chuan;
Wu, June-Tai;
Hong, Ming-Yi;
Tung, Yi-An;
Hsieh, Ping-Han;
Yee, Sook Wah;
Giacomini, Kathleen M.;
Oyang, Yen-Jen;
Chen, Chien-Yu;
for the Alzheimer's Disease Neuroimaging Initiative;
Weiner, Michael W.;
Aisen, Paul;
Petersen, Ronald;
Jack, Clifford R.;
Mason, Sara S.;
Albers, Colleen S.;
Knopman, David;
Johnson, Kris;
Jagust, William;
Trojanowki, John Q.

Publication type:

Article

NucBreak: location of structural errors in a genome assembly by using paired-end Illumina reads.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3414-0

By:

Khelik, Ksenia;
Sandve, Geir Kjetil;
Nederbragt, Alexander Johan;
Rognes, Torbjørn

Publication type:

Article

FastMM: an efficient toolbox for personalized constraint-based metabolic modeling.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3410-4

By:

Li, Gong-Hua;
Dai, Shaoxing;
Han, Feifei;
Li, Wenxin;
Huang, Jingfei;
Xiao, Wenzhong

Publication type:

Article

Comparative analysis of ChIP-exo peak-callers: impact of data quality, read duplication and binding subtypes.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3403-3

By:

Sharma, Vasudha;
Majumdar, Sharmistha

Publication type:

Article

A deep adversarial variational autoencoder model for dimensionality reduction in single-cell RNA sequencing analysis.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3401-5

By:

Lin, Eugene;
Mukherjee, Sudipto;
Kannan, Sreeram

Publication type:

Article

Graph regularized L2,1-nonnegative matrix factorization for miRNA-disease association prediction.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3409-x

By:

Gao, Zhen;
Wang, Yu-Tian;
Wu, Qing-Wen;
Ni, Jian-Cheng;
Zheng, Chun-Hou

Publication type:

Article

RPI-SE: a stacking ensemble learning framework for ncRNA-protein interactions prediction using sequence information.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3406-0

By:

Yi, Hai-Cheng;
You, Zhu-Hong;
Wang, Mei-Neng;
Guo, Zhen-Hao;
Wang, Yan-Bin;
Zhou, Ji-Ren

Publication type:

Article

IPCO: Inference of Pathways from Co-variance analysis.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3404-2

By:

Das, Mrinmoy;
Ghosh, Tarini Shankar;
Jeffery, Ian B.

Publication type:

Article

Tracking intratumoral heterogeneity in glioblastoma via regularized classification of single-cell RNA-Seq data.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3390-4

By:

Lopes, Marta B.;
Vinga, Susana

Publication type:

Article

SPECS: a non-parametric method to identify tissue-specific molecular features for unbalanced sample groups.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3407-z

By:

Everaert, Celine;
Volders, Pieter-Jan;
Morlion, Annelien;
Thas, Olivier;
Mestdagh, Pieter

Publication type:

Article

Analyses on clustering of the conserved residues at protein-RNA interfaces and its application in binding site identification.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3398-9

By:

Yang, Zhen;
Deng, Xueqing;
Liu, Yang;
Gong, Weikang;
Li, Chunhua

Publication type:

Article

iSeqQC: a tool for expression-based quality control in RNA sequencing.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3399-8

By:

Kumar, Gaurav;
Ertel, Adam;
Feldman, George;
Kupper, Joan;
Fortina, Paolo

Publication type:

Article

GsmPlot: a web server to visualize epigenome data in NCBI.

Published in:

BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-020-3386-0

By:

Li, Jia;
Yin, Yue;
Zhang, Mutian;
Cui, Jie;
Zhang, Zhenhai;
Zhang, Zhiyong;
Sun, Deqiang

Publication type:

Article