Works matching IS 14712105 AND DT 2014 AND VI 15 AND IP 1

Results: 427

APP: an Automated Proteomics Pipeline for the analysis of mass spectrometry data based on multiple open access tools.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 290, doi. 10.1186/s12859-014-0441-8

By:

Malm, Erik K.;
Srivastava, Vaibhav;
Sundqvist, Gustav;
Bulone, Vincent

Publication type:

Article

Identifying tandem Ankyrin repeats in protein structures.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 255, doi. 10.1186/s12859-014-0440-9

By:

Chakrabarty, Broto;
Parekh, Nita

Publication type:

Article

FogBank: a single cell segmentation across multiple cell lines and image modalities.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 225, doi. 10.1186/s12859-014-0431-x

By:

Chalfoun, Joe;
Majurski, Michael;
Dima, Alden;
Stuelten, Christina;
Peskin, Adele;
Brady, Mary

Publication type:

Article

WEBnm@ v2.0: Web server and services for comparing protein flexibility.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 199, doi. 10.1186/s12859-014-0427-6

By:

Tiwari, Sandhya P.;
Fuglebakk, Edvin;
Hollup, Siv M.;
Skj?rven, Lars;
Cragnolini, Tristan;
Grindhaug, Svenn H.;
Tekle, Kidane M.;
Reuter, Nathalie

Publication type:

Article

A framework for feature extraction from hospital medical data with applications in risk prediction.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 179, doi. 10.1186/s12859-014-0425-8

By:

Tran, Truyen;
Luo, Wei;
Phung, Dinh;
Gupta, Sunil;
Rana, Santu;
Kennedy, Richard Lee;
Larkins, Ann;
Venkatesh, Svetha

Publication type:

Article

Prediction of plant pre-microRNAs and their microRNAs in genome-scale sequences using structure-sequence features and support vector machine.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 153, doi. 10.1186/s12859-014-0423-x

By:

Jun Meng;
Dong Liu;
Chao Sun;
Yushi Luan

Publication type:

Article

An integrated network visualization framework towards metabolic engineering applications.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 125, doi. 10.1186/s12859-014-0420-0

By:

Noronha, Alberto;
Vilaça, Paulo;
Rocha, Miguel

Publication type:

Article

Prediction of piRNAs using transposon interaction and a support vector machine.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 105, doi. 10.1186/s12859-014-0419-6

By:

Kai Wang;
Chun Liang;
Jinding Liu;
Huamei Xiao;
Shuiqing Huang;
Jianhua Xu;
Fei Li

Publication type:

Article

JRC GMO-Matrix: a web application to support Genetically Modified Organisms detection strategies.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 89, doi. 10.1186/s12859-014-0417-8

By:

Angers-Loustau, Alexandre;
Petrillo, Mauro;
Bonfini, Laura;
Gatto, Francesco;
Rosa, Sabrina;
Patak, Alexandre;
Kreysa, Joachim

Publication type:

Article

Mammalian transcriptional hotspots are enriched for tissue specific enhancers near cell type specific highly expressed genes and are predicted to act as transcriptional activator hubs.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 66, doi. 10.1186/s12859-014-0412-0

By:

Joshi, Anagha

Publication type:

Article

Predicting breast cancer using an expression values weighted clinical classifier.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 48, doi. 10.1186/s12859-014-0411-1

By:

Thomas, Minta;
De Brabanter, Kris;
Suykens, Johan A. K.;
De Moor, Bart

Publication type:

Article

Identifying target processes for microbial electrosynthesis by elementary mode analysis.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 22, doi. 10.1186/s12859-014-0410-2

By:

Kracke, Frauke;
Krömer, Jens O.

Publication type:

Article

ExpaRNA-P: simultaneous exact pattern matching and folding of RNAs.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/s12859-014-0404-0

By:

Otto, Christina;
Möhl, Mathias;
Heyne, Steffen;
Amit, Mika;
Landau, Gad M.;
Backofen, Rolf;
Will, Sebastian

Publication type:

Article

BitTorious: global controlled genomics data publication, research and archiving via BitTorrent extensions.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 734, doi. 10.1186/s12859-014-0424-9

By:

Lee, Preston V.;
Dinu, Valentin

Publication type:

Article

Unique features of apicoplast DNA gyrases from Toxoplasma gondii and Plasmodium falciparum.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 703, doi. 10.1186/s12859-014-0416-9

By:

Soshichiro Nagano;
Ting-Yu Lin;
Reddy, Jyotheeswara;
Heddle, Jonathan Gardiner

Publication type:

Article

Interactive visual exploration of overlapping similar structures for threedimensional microscope images.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 677, doi. 10.1186/s12859-014-0415-x

By:

Megumi Nakao;
Shintaro Takemoto;
Tadao Sugiura;
Kazuaki Sawada;
Ryosuke Kawakami;
Tomomi Nemoto;
tn@es.hokudai.ac.jp

Publication type:

Article

EPMLR: Sequence-based linear B-cell epitope prediction method using multiple linear regression.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 665, doi. 10.1186/s12859-014-0414-y

By:

Yao Lian;
Meng Ge;
Xian-Ming Pan

Publication type:

Article

Identification of metabolites from 2D ¹H-<sup>13</sup>C HSQC NMR using peak correlation plots.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 649, doi. 10.1186/s12859-014-0413-z

By:

Öman, Tommy;
Tessem, May-Britt;
Bathen, Tone F.;
Bertilsson, Helena;
Angelsen, Anders;
Hedenström, Mattias;
Andreassen, Trygve

Publication type:

Article

DFBAlab: a fast and reliable MATLAB code for dynamic flux balance analysis.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 629, doi. 10.1186/s12859-014-0409-8

By:

Gomez, Jose A.;
Höffner, Kai;
Barton, Paul I.

Publication type:

Article

Kiwi: a tool for integration and visualization of network topology and gene-set analysis.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 615, doi. 10.1186/s12859-014-0408-9

By:

Väremo, Leif;
Gatto, Francesco;
Nielsen, Jens

Publication type:

Article

A statistical approach to quantification of genetically modified organisms (GMO) using frequency distributions.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 593, doi. 10.1186/s12859-014-0407-x

By:

Gerdes, Lars;
Busch, Ulrich;
Pecoraro, Sven

Publication type:

Article

CLAST: CUDA implemented large-scale alignment search tool.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 564, doi. 10.1186/s12859-014-0406-y

By:

Masahiro Yano;
Hiroshi Mori;
Yutaka Akiyama;
Takuji Yamada;
Ken Kurokawa

Publication type:

Article

Methodology for the inference of gene function from phenotype data.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 537, doi. 10.1186/s12859-014-0405-z

By:

Ascensao, Joao A.;
Dolan, Mary E.;
Hill, David P.;
Blake, Judith A.

Publication type:

Article

QUDeX-MS: hydrogen/deuterium exchange calculation for mass spectra with resolved isotopic fine structure.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 512, doi. 10.1186/s12859-014-0403-1

By:

Salisbury, Joseph P.;
Qian Liu;
Agar, Jeffrey N.

Publication type:

Article

MCMC implementation of the optimal Bayesian classifier for non-Gaussian models: model-based RNA-Seq classification.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 487, doi. 10.1186/s12859-014-0401-3

By:

Knight, Jason M.;
Ivanov, Ivan;
Dougherty, Edward R.

Publication type:

Article

Exact reconstruction of gene regulatory networks using compressive sensing.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 449, doi. 10.1186/s12859-014-0400-4

By:

Young Hwan Chang;
Gray, Joe W.;
Tomlin, Claire J.

Publication type:

Article

Integrating protein structural dynamics and evolutionary analysis with Bio3D.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 426, doi. 10.1186/s12859-014-0399-6

By:

Skjærven, Lars;
Xin-Qiu Yao;
Scarabelli, Guido;
Grant, Barry J.

Publication type:

Article

solGS: a web-based tool for genomic selection.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 407, doi. 10.1186/s12859-014-0398-7

By:

Tecle, Isaak Y.;
Edwards, Jeremy D.;
Menda, Naama;
Egesi, Chiedozie;
Rabbi, Ismail Y.;
Kulakow, Peter;
Kawuki, Robert;
Jannink, Jean-Luc;
Mueller, Lukas A.

Publication type:

Article

Comparative evaluation of gene set analysis approaches for RNA-Seq data.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 379, doi. 10.1186/s12859-014-0397-8

By:

Rahmatallah, Yasir;
Emmert-Streib, Frank;
Glazko, Galina

Publication type:

Article

Pathomx: an interactive workflow-based tool for the analysis of metabolomic data.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 363, doi. 10.1186/s12859-014-0396-9

By:

Fitzpatrick, Martin A.;
McGrath, Catherine M.;
Young, Stephen P.

Publication type:

Article

MPAgenomics: an R package for multi-patient analysis of genomic markers.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 355, doi. 10.1186/s12859-014-0394-y

By:

Grimonprez, Quentin;
Celisse, Alain;
Blanck, Samuel;
Cheok, Meyling;
Figeac, Martin;
Marot, Guillemette

Publication type:

Article

SPoRE: a mathematical model to predict double strand breaks and axis protein sites in meiosis.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 329, doi. 10.1186/s12859-014-0391-1

By:

Champeimont, Raphaël;
Carbone, Alessandra

Publication type:

Article

Pathway activity inference for multiclass disease classification through a mathematical programming optimisation framework.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 299, doi. 10.1186/s12859-014-0390-2

By:

Lingjian Yang;
Ainali, Chrysanthi;
Tsoka, Sophia;
Papageorgiou, Lazaros G.

Publication type:

Article

Linear-time computation of minimal absent words using suffix array.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 277, doi. 10.1186/s12859-014-0388-9

By:

Barton, Carl;
Heliou, Alice;
Mouchard, Laurent;
Pissis, Solon P.

Publication type:

Article

Gene network inference using continuous time Bayesian networks: a comparative study and application to Th17 cell differentiation.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 232, doi. 10.1186/s12859-014-0387-x

By:

Acerbi, Enzo;
Zelante, Teresa;
Narang, Vipin;
Stella, Fabio

Publication type:

Article

Finding gene regulatory network candidates using the gene expression knowledge base.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 204, doi. 10.1186/s12859-014-0386-y

By:

Venkatesan, Aravind;
Tripathi, Sushil;
de Galdeano, Alejandro Sanz;
Blondé, Ward;
Loegreid, Astrid;
Mironov, Vladimir;
Kuiper, Martin

Publication type:

Article

AKE - the Accelerated k-mer Exploration web-tool for rapid taxonomic classification and visualization.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 182, doi. 10.1186/s12859-014-0384-0

By:

Langenkämper, Daniel;
Goesmann, Alexander;
Nattkemper, Tim Wilhelm

Publication type:

Article

Efficient prediction of human protein-protein interactions at a global scale.

Published in:

2014

By:

Schoenrock, Andrew;
Samanfar, Bahram;
Pitre, Sylvain;
Hooshyar, Mohsen;
Ke Jin;
Phillips, Charles A.;
Hui Wang;
Phanse, Sadhna;
Omidi, Katayoun;
Yuan Gui;
Alamgir, Md;
Wong, Alex;
Barrenäs, Fredrik;
Babu, Mohan;
Benson, Mikael;
Langston, Michael A.;
Green, James R.;
Dehne, Frank;
Golshani, Ashkan

Publication type:

Product Review

Masking as an effective quality control method for next-generation sequencing data analysis.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 123, doi. 10.1186/s12859-014-0382-2

By:

Sajung Yun;
Sijung Yun

Publication type:

Article

Identifying and quantifying metabolites by scoring peaks of GC-MS data.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 104, doi. 10.1186/s12859-014-0374-2

By:

Aggio, Raphael B. M.;
Mayor, Arno;
Reade, Sophie;
Probert, Chris S. J.;
Ruggiero, Katya

Publication type:

Article

A fixed-point algorithm for estimating amplification efficiency from a polymerase chain reaction dilution series.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 84, doi. 10.1186/s12859-014-0372-4

By:

Jones, Michael E.;
Mayne, George C.;
Tingting Wang;
Watson, David I.;
Hussey, Damian J.

Publication type:

Article

COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 61, doi. 10.1186/s12859-014-0369-z

By:

Bergmann, Frank T.;
Adams, Richard;
Moodie, Stuart;
Cooper, Jonathan;
Glont, Mihai;
Golebiewski, Martin;
Hucka, Michael;
Laibe, Camille;
Miller, Andrew K.;
Nickerson, David P.;
Olivier, Brett G.;
Rodriguez, Nicolas;
Sauro, Herbert M.;
Scharm, Martin;
Soiland-Reyes, Stian;
Waltemath, Dagmar;
Yvon, Florent;
Le Novère, Nicolas

Publication type:

Article

Comparisons of computational methods for differential alternative splicing detection using RNA-seq in plant systems.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 32, doi. 10.1186/s12859-014-0364-4

By:

Ruolin Liu;
Loraine, Ann E.;
Dickerson, Julie A.

Publication type:

Article

Comparative structural analysis of haemagglutinin proteins from type A influenza viruses: conserved and variable features.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/s12859-014-0363-5

By:

Righetto, Irene;
Milani, Adelaide;
Cattoli, Giovanni;
Filippini, Francesco

Publication type:

Article

VTBuilder: a tool for the assembly of multi isoform transcriptomes

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 389, doi. 10.1186/s12859-014-0389-8

By:

Archer, John;
Whiteley, Gareth;
Casewell, Nicholas R;
Harrison, Robert A;
Wagstaff, Simon C

Publication type:

Article

Sequence-based identification of recombination spots using pseudo nucleic acid representation and recursive feature extraction by linear kernel SVM.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2105-15-340

By:

Liqi Li;
Sanjiu Yu;
Weidong Xiao;
Yongsheng Li;
Lan Huang;
Xiaoqi Zheng;
Shiwen Zhou;
Hua Yang

Publication type:

Article

A ratiometric-based measure of gene co-expression.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2105-15-331

By:

Abelin, Anna C. T.;
Marinov, Georgi K.;
Williams, Brian A.;
McCue, Kenneth;
Wold, Barbara J.

Publication type:

Article

Impact of T-RFLP data analysis choices on assessments of microbial community structure and dynamics.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 360, doi. 10.1186/s12859-014-0360-8

By:

Fredriksson, Nils Johan;
Hermansson, Malte;
Wilén, Britt-Marie

Publication type:

Article

Using phylogenetically-informed annotation (PIA) to search for light-interacting genes in transcriptomes from non-model organisms.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/s12859-014-0350-x

By:

Speiser, Daniel I.;
Pankey, M. Sabrina;
Zaharoff, Alexander K.;
Battelle, Barbara A.;
Bracken-Grissom, Heather D.;
Breinholt, Jesse W.;
Bybee, Seth M.;
Cronin, Thomas W.;
Garm, Anders;
Lindgren, Annie R.;
Patel, Nipam H.;
Porter, Megan L.;
Protas, Meredith E.;
Rivera, Ajna S.;
Serb, Jeanne M.;
Zigler, Kirk S.;
Crandall, Keith A.;
Oakley, Todd H.

Publication type:

Article

TE-Tracker: systematic identification of transposition events through whole-genome resequencing.

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/s12859-014-0377-z

By:

Gilly, Arthur;
Etcheverry, Mathilde;
Madoui, Mohammed-Amin;
Guy, Julie;
Quadrana, Leandro;
Alberti, Adriana;
Martin, Antoine;
Heitkam, Tony;
Engelen, Stefan;
Labadie, Karine;
Le Pen, Jeremie;
Wincker, Patrick;
Colot, Vincent;
Aury, Jean-Marc

Publication type:

Article