Works matching IS 14712105 AND DT 2012 AND VI 13 AND IP 1

Results: 331

A novel approach for biomarker selection and the integration of repeated measures experiments from two assays.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-325

By:

Liquet, Benoit;
Lè Cao, Kim-Anh;
Hocini, Hakim;
Thiébaut, Rodolphe

Publication type:

Article

ESTclean: a cleaning tool for next-gen transcriptome shotgun sequencing.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-247

By:

Hongseok Tae;
Dongsung Ryu;
Sureshchandra, Suhas;
Jeong-Hyeon Choi

Publication type:

Article

An algorithm for chemical genomic profiling that minimizes batch effects: bucket evaluations.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-245

By:

Shabtai, Daniel;
Giaever, Guri;
Nislow, Corey

Publication type:

Article

GSA-PCA: gene set generation by principal component analysis of the Laplacian matrix of a metabolic network.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-197

By:

Jacobson, Dan;
Emerton, Guy

Publication type:

Article

Copy number variation signature to predict human ancestry.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-336

By:

Pronold, Melissa;
Vali, Marzieh;
Pique-Regi, Roger;
Asgharzadeh, Shahab

Publication type:

Article

CYPSI: a structure-based interface for cytochrome P450s and ligands in Arabidopsis thaliana.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-332

By:

Gaihua Zhang;
Yijing Zhang;
Zhen Su

Publication type:

Article

Generalization of the normal-exponential model: exploration of a more accurate parametrisation for the signal distribution on Illumina BeadArrays.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-329

By:

Plancade, Sandra;
Rozenholc, Yves;
Lund, Eiliv

Publication type:

Article

Improving stability and understandability of genotype-phenotype mapping in Saccharomyces using regularized variable selection in L-PLS regression.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-327

By:

Mehmood, Tahir;
Warringer, Jonas;
Snipen, Lars;
Sæbø, Solve

Publication type:

Article

Finding quasi-modules of human and viral miRNAs: a case study of human cytomegalovirus (HCMV).

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-322

By:

Veksler-Lublinsky, Isana;
Shemer-Avni, Yonat;
Meiri, Eti;
Bentwich, Zvi;
Kedem, Klara;
Ziv-Ukelson, Michal

Publication type:

Article

Local functional descriptors for surface comparison based binding prediction.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-314

By:

Cipriano, Gregory M.;
Phillips Jr., George N.;
Gleicher, Michael

Publication type:

Article

Estimating relative abundances of proteins from shotgun proteomics data.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-308

By:

McIlwain, Sean;
Mathews, Michael;
Bereman, Michael S.;
Rubel, Edwin W.;
MacCoss, Michael J.;
Noble, William Stafford

Publication type:

Article

The tree alignment problem.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-293

By:

Varón, Andrés;
Wheeler, Ward C.

Publication type:

Article

Isotope pattern deconvolution for peptide mass spectrometry by non-negative least squares/least absolute deviation template matching.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-291

By:

Slawski, Martin;
Hussong, Rene;
Tholey, Andreas;
Jakoby, Thomas;
Gregorius, Barbara;
Hildebrandt, Andreas;
Hein, Matthias

Publication type:

Article

Multi-scale RNA comparison based on RNA triple vector curve representation.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-280

By:

Ying Li;
Ming Duan;
Yanchun Liang

Publication type:

Article

Gene Fusion Markup Language: a prototype for exchanging gene fusion data.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-269

By:

Kalyana-Sundaram, Shanker;
Shanmugam, Achiraman;
Chinnaiyan1, Arul M.

Publication type:

Article

Formatt: Correcting protein multiple structural alignments by incorporating sequence alignment.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-259

By:

Daniels, Noah M.;
Nadimpalli, Shilpa;
Cowen, Lenore J.

Publication type:

Article

The Process-Interaction-Model: a common representation of rule-based and logical models allows studying signal transduction on different levels of detail.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-251

By:

Kolczyk, Katrin;
Samaga, Regina;
Conzelmann, Holger;
Mirschel, Sebastian;
Conradi, Carsten

Publication type:

Article

Improved model quality assessment using ProQ2.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-224

By:

Ray, Arjun;
Lindahl, Erik;
Wallner, Björn

Publication type:

Article

Process attributes in bio-ontologies.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-217

By:

Andrade, André Q.;
Blondé, Ward;
Hastings, Janna;
Schulz, Stefan

Publication type:

Article

Automated hierarchical classification of protein domain subfamilies based on functionally-divergent residue signatures.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-144

By:

Neuwald, Andrew F.;
Lanczycki, Christopher J.;
Marchler-Bauer, Aron

Publication type:

Article

Flexible and efficient genome tiling design with penalized uniqueness score.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-323

By:

Yang Du;
Murani, Eduard;
Ponsuksili, Siriluck;
Wimmers, Klaus

Publication type:

Article

Prediction of novel long non-coding RNAs based on RNA-Seq data of mouse Klf1 knockout study.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-331

By:

Lei Sun;
Zhihua Zhang;
Bailey, Timothy L.;
Perkins, Andrew C.;
Tallack, Michael R.;
Zhao Xu;
Hui Liu

Publication type:

Article

Fast detection of de novo copy number variants from SNP arrays for case-parent trios.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-330

By:

Scharpf, Robert B.;
Beaty, Terri H.;
Schwender, Holger;
Younkin, Samuel G.;
Scott, Alan F.;
Ruczinski, Ingo

Publication type:

Article

Comparison of co-expression measures: mutual information, correlation, and model based indices.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-328

By:

Lin Song;
Langfelder, Peter;
Horvath, Steve

Publication type:

Article

A computational pipeline for the development of multi-marker bio-signature panels and ensemble classifiers.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-326

By:

Günther, Oliver P.;
Chen, Virginia;
Freue, Gabriela Cohen;
Balshaw, Robert F.;
Tebbutt, Scott J.;
Hollander, Zsuzsanna;
Takhar, Mandeep;
McMaster, W. Robert;
McManus, Bruce M.;
Keown, Paul A.;
Ng, Raymond T.

Publication type:

Article

Unlocking the potential of publicly available microarray data using inSilicoDb and inSilicoMerging R/Bioconductor packages.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-335

By:

Taminau, Jonatan;
Meganck, Stijn;
Lazar, Cosmin;
Steenhoff, David;
Coletta, Alain;
Molter, Colin;
Duque, Robin;
de Schaetzen, Virginie;
Solís, David Y. Weiss;
Bersini, Hugues;
Nowé, Ann

Publication type:

Article

Multiple-platform data integration method with application to combined analysis of microarray and proteomic data.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-320

By:

Shicheng Wu;
Yawen Xu;
Zeny Feng;
Xiaojian Yang;
Xiaogang Wang;
Xin Gao

Publication type:

Article

TeraStitcher - A tool for fast automatic 3D-stitching of teravoxel-sized microscopy images.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-316

By:

Bria, Alessandro;
Iannello, Giulio

Publication type:

Article

Multiple graph regularized protein domain ranking.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-307

By:

Jim Jing-Yan Wang;
Bensmail, Halima;
Xin Gao

Publication type:

Article

Gains of ubiquitylation sites in highly conserved proteins in the human lineage.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-306

By:

Dong Seon Kim;
Yoonsoo Hahn

Publication type:

Article

Copy Number Variation detection from 1000 Genomes project exon capture sequencing data.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-305

By:

Jiantao Wu;
Grzeda, Krzysztof R.;
Stewart, Chip;
Grubert, Fabian;
Urban, Alexander E.;
Snyder, Michael P.;
Marth, Gabor T.

Publication type:

Article

Improving protein coreference resolution by simple semantic classification.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-304

By:

Ngan Nguyen;
Jin-Dong Kim;
Miwa, Makoto;
Matsuzaki, Takuya;
Tsujii, Junichi

Publication type:

Article

Clustering of time-course gene expression profiles using normal mixture models with autoregressive random effects.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-300

By:

Kui Wang;
Shu Kay Ng;
McLachlan, Geoffrey J.

Publication type:

Article

Improving accuracy for cancer classification with a new algorithm for genes selection.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-298

By:

Hongyan Zhang;
Haiyan Wang;
Zhijun Dai;
Ming-shun Chen;
Zheming Yuan

Publication type:

Article

iMS2Flux -- a high--throughput processing tool for stable isotope labeled mass spectrometric data used for metabolic flux analysis.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-295

By:

Poskar, C. Hart;
Huege, Jan;
Krach, Christian;
Franke, Mathias;
Shachar-Hill, Yair;
Junker, Björn H.

Publication type:

Article

mGOASVM: Multi-label protein subcellular localization based on gene ontology and support vector machines.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-290

By:

Shibiao Wan;
Man-Wai Mak;
Sun-Yuan Kung

Publication type:

Article

MCMC-ODPR: Primer design optimization using Markov Chain Monte Carlo sampling.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-287

By:

Kitchen, James L.;
Moore, Jonathan D.;
Palmer, Sarah A.;
Allaby, Robin G.

Publication type:

Article

Denoising PCR-amplified metagenome data.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-283

By:

Rosen, Michael J.;
Callahan, Benjamin J.;
Fisher, Daniel S.;
Holmes, Susan P.

Publication type:

Article

Cascaded discrimination of normal, abnormal, and confounder classes in histopathology: Gleason grading of prostate cancer.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-282

By:

Doyle, Scott;
Feldman, Michael D.;
Shih, Natalie;
Tomaszewski, John;
Madabhushi, Anant

Publication type:

Article

Efficient reconstruction of biological networks via transitive reduction on general purpose graphics processors.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-281

By:

Bošnački, Dragan;
Odenbrett, Maximilian R.;
Wijs, Anton;
Ligtenberg, Willem;
Hilbers, Peter

Publication type:

Article

ChopSticks: High-resolution analysis of homozygous deletions by exploiting concordant read pairs.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-279

By:

Yasuda, Tomohiro;
Suzuki, Shin;
Nagasaki, Masao;
Miyano, Satoru

Publication type:

Article

Bayesian semiparametric regression models to characterize molecular evolution.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-278

By:

Datta, Saheli;
Rodriguez, Abel;
Prado, Raquel

Publication type:

Article

Simple binary segmentation frameworks for identifying variation in DNA copy number.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-277

By:

Tae Young Yang

Publication type:

Article

Coral: an integrated suite of visualizations for comparing clusterings.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-276

By:

Filippova, Darya;
Gadani, Aashish;
Kingsford, Carl

Publication type:

Article

Combing the hairball with BioFabric: a new approach for visualization of large networks.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-275

By:

Longabaugh, William J. R.

Publication type:

Article

A quantitative genetic and epigenetic model of complex traits.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-274

By:

Zhong Wang;
Zuoheng Wang;
Jianxin Wang;
Yihan Sui;
Jian Zhang;
Duanping Liao;
Rongling Wu

Publication type:

Article

Exploiting protein flexibility to predict the location of allosteric sites.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-273

By:

Panjkovich, Alejandro;
Daura, Xavier

Publication type:

Article

Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-238

By:

Chaisson, Mark J.;
Tesler, Glenn

Publication type:

Article

Coalescent: an open-source and scalable framework for exact calculations in coalescent theory.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-257

By:

Tewari, Susanta;
Spouge, John L.

Publication type:

Article

Coupled mutation finder: A new entropy-based method quantifying phylogenetic noise for the detection of compensatory mutations.

Published in:

BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-225

By:

Gültas, Mehmet;
Haubrock, Martin;
Tüysüz, Nesrin;
Waack, Stephan

Publication type:

Article