Artículos de la revista "BMC Bioinformatics"
1060 artículos en 53 páginas: 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 ... 53
- A standard curve based method for relative real time PCR data processing2005; 6: 62
- MBEToolbox: a Matlab toolbox for sequence data analysis in molecular biology and evolution2005; 6: 64
- "Harshlighting" small blemishes on microarrays2005; 6: 65
- Evaluation of gene importance in microarray data based upon probability of selection2005; 6: 67
- Feature selection and nearest centroid classification for protein mass spectrometry2005; 6: 68
- Wildfire: distributed, Grid-enabled workflow construction and execution2005; 6: 69
- Prediction of a common structural scaffold for proteasome lid, COP9-signalosome and eIF3 complexes2005; 6: 71
- GeneKeyDB: A lightweight, gene-centric, relational database to support data mining environments2005; 6: 72
- Ranking the whole MEDLINE database according to a large training set using text indexing2005; 6: 75
- CGMIM: Automated text-mining of Online Mendelian Inheritance in Man (OMIM) to identify genetically-associated cancers and candidate genes2005; 6: 78
- CGHPRO – A comprehensive data analysis tool for array CGH2005; 6: 85
- A comparison of RNA folding measures2005; 6: 241
- Differentiation of regions with atypical oligonucleotide composition in bacterial genomes2005; 6: 251
- CoaSim: A flexible environment for simulating genetic data under coalescent models2005; 6: 252
- ProfNet, a method to derive profile-profile alignment scoring functions that improves the alignments of distantly related proteins2005; 6: 253
- Human promoter genomic composition demonstrates non-random groupings that reflect general cellular function2005; 6: 259
- A method of precise mRNA/DNA homology-based gene structure prediction2005; 6: 261
- SPdb – a signal peptide database2005; 6: 249
- ASPIC: a novel method to predict the exon-intron structure of a gene that is optimally compatible to a set of transcript sequences2005; 6: 244
- MASQOT: a method for cDNA microarray spot quality control2005; 6: 250
- Evaluating eukaryotic secreted protein prediction2005; 6: 256
- Statistical distributions of optimal global alignment scores of random protein sequences2005; 6: 257
- SpectralNET – an application for spectral graph analysis and visualization2005; 6: 260
- Better prediction of protein contact number using a support vector regression analysis of amino acid sequence2005; 6: 248
- Extension of Lander-Waterman theory for sequencing filtered DNA libraries2005; 6: 245
- Phydbac "Gene Function Predictor" : a gene annotation tool based on genomic context analysis2005; 6: 247
- Prediction of β-barrel membrane proteins by searching for restricted domains2005; 6: 254
- The modeled structure of the RNA dependent RNA polymerase of GBV-C Virus suggests a role for motif E in Flaviviridae RNA polymerases2005; 6: 255
- Dynamic modeling of cis-regulatory circuits and gene expression prediction via cross-gene identification2005; 6: 258
- Using hexamers to predict cis-regulatory motifs in Drosophila2005; 6: 262
- maxdLoad2 and maxdBrowse: standards-compliant tools for microarray experimental annotation, data management and dissemination2005; 6: 264
- Alternative splicing and protein function2005; 6: 266
- Automated methods of predicting the function of biological sequences using GO and BLAST2005; 6: 272
- MiMiR: a comprehensive solution for storage, annotation and exchange of microarray data2005; 6: 268
- The yeast kinome displays scale free topology with functional hub clusters2005; 6: 271
- Discover protein sequence signatures from protein-protein interaction data2005; 6: 277
- ErmineJ: Tool for functional analysis of gene expression data sets2005; 6: 269
- Ancestral sequence alignment under optimal conditions2005; 6: 273
- A stepwise framework for the normalization of array CGH data2005; 6: 274
- Computational identification of strain-, species- and genus-specific proteins2005; 6: 279
- Commensurate distances and similar motifs in genetic congruence and protein interaction networks in yeast2005; 6: 270
- Cross-platform analysis of cancer microarray data improves gene expression based classification of phenotypes2005; 6: 265
- Identification of clustered microRNAs using an ab initio prediction method2005; 6: 267
- Selecting additional tag SNPs for tolerating missing data in genotyping2005; 6: 263
- Principal component analysis for predicting transcription-factor binding motifs from array-derived data2005; 6: 276
- An algorithm for the determination and quantification of components of nucleic acid mixtures based on single sequencing reactions2005; 6: 281
- Multiple sequence alignment accuracy and evolutionary distance estimation2005; 6: 278
- ArrayQuest: a web resource for the analysis of DNA microarray data2005; 6: 287
- SNP-VISTA: An interactive SNP visualization tool2005; 6: 292
- An SVM-based system for predicting protein subnuclear localizations2005; 6: 291
- DSD – An integrated, web-accessible database of Dehydrogenase Enzyme Stereospecificities2005; 6: 283
- Efficient analysis and extraction of MS/MS result data from Mascot™ result files2005; 6: 290
- Kalign – an accurate and fast multiple sequence alignment algorithm2005; 6: 298
- Identification of significant periodic genes in microarray gene expression data2005; 6: 286
- A microarray data-based semi-kinetic method for predicting quantitative dynamics of genetic networks2005; 6: 299
- Oligomeric protein structure networks: insights into protein-protein interactions2005; 6: 296
- PSE: A tool for browsing a large amount of MEDLINE/PubMed abstracts with gene names and common words as the keywords2005; 6: 295
- Genome-wide identification of the regulatory targets of a transcription factor using biochemical characterization and computational genomic analysis2005; 6: 275
- Linking enzyme sequence to function using conserved property difference locator to identify and annotate positions likely to control specific functionality2005; 6: 284
- Evolutionary programming as a platform for in silico metabolic engineering2005; 6: 308
- InterferenceAnalyzer: Tools for the analysis and simulation of multi-locus genetic data2005; 6: 297
- Harshlight: a "corrective make-up" program for microarray chips2005; 6: 294
- WebArray: an online platform for microarray data analysis2005; 6: 306
- Genetic interaction motif finding by expectation maximization – a novel statistical model for inferring gene modules from synthetic lethality2005; 6: 288
- GenClust: A genetic algorithm for clustering gene expression data2005; 6: 289
- Analysis of concordance of different haplotype block partitioning algorithms2005; 6: 303
- Transformation and other factors of the peptide mass spectrometry pairwise peak-list comparison process2005; 6: 285
- Internet-based profiler system as integrative framework to support translational research2005; 6: 304
- The distance-profile representation and its application to detection of distantly related protein families2005; 6: 282
- The Gene Set Builder: collation, curation, and distribution of sets of genes2005; 6: 305
- Construction of a nasopharyngeal carcinoma 2D/MS repository with Open Source XML Database – Xindice2006; 7: 13
- SuperMimic – Fitting peptide mimetics into protein structures2006; 7: 11
- A decoy set for the thermostable subdomain from chicken villin headpiece, comparison of different free energy estimators2005; 6: 301
- ZCURVE_V: a new self-training system for recognizing protein-coding genes in viral and phage genomes2006; 7: 9
- preAssemble: a tool for automatic sequencer trace data processing2006; 7: 22
- Classification of real and pseudo microRNA precursors using local structure-sequence features and support vector machine2005; 6: 310
- Finding biological process modifications in cancer tissues by mining gene expression correlations2006; 7: 6
- Fast-Find: A novel computational approach to analyzing combinatorial motifs2006; 7: 1
- Evaluation of methods for oligonucleotide array data via quantitative real-time PCR2006; 7: 23
- An approach for clustering gene expression data with error information2006; 7: 17
- Metabolic pathways variability and sequence/networks comparisons2006; 7: 24
- Utilization of two sample t-test statistics from redundant probe sets to evaluate different probe set algorithms in GeneChip studies2006; 7: 12
- Probabilistic annotation of protein sequences based on functional classifications2005; 6: 302
- OligoSpawn: a software tool for the design of overgo probes from large unigene datasets2006; 7: 7
- Avoiding inconsistencies over time and tracking difficulties in Applied Biosystems AB1700™/Panther™ probe-to-gene annotations2005; 6: 307
- Gene selection and classification of microarray data using random forest2006; 7: 3
- Prediction of protein structural class with Rough Sets2006; 7: 20
- Cluster analysis of networks generated through homology: automatic identification of important protein communities involved in cancer metastasis2006; 7: 2
- Local protein structure prediction using discriminative models2006; 7: 14
- Construction and validation of the APOCHIP, a spotted oligo-microarray for the study of beta-cell apoptosis2005; 6: 311
- A reinforced merging methodology for mapping unique peptide motifs in members of protein families2006; 7: 38
- An algorithm for automatic evaluation of the spot quality in two-color DNA microarray experiments2005; 6: 293
- In silico discovery of human natural antisense transcripts2006; 7: 18
- Gene capture prediction and overlap estimation in EST sequencing from one or multiple libraries2005; 6: 300
- A high level interface to SCOP and ASTRAL implemented in Python2006; 7: 10
- SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms2006; 7: 43
- Protein kinases associated with the yeast phosphoproteome2006; 7: 47
- A proposed metric for assessing the measurement quality of individual microarrays2006; 7: 35
- Comparison of normalization methods for CodeLink Bioarray data2005; 6: 309
- Analysis and visualization of chromosomal abnormalities in SNP data with SNPscan2006; 7: 25
- The comprehensive updated regulatory network of Escherichia coli K-122006; 7: 5
- GenoLink: a graph-based querying and browsing system for investigating the function of genes and proteins2006; 7: 21
- BAMarray™: Java software for Bayesian analysis of variance for microarray data2006; 7: 59
- FastGroupII: A web-based bioinformatics platform for analyses of large 16S rDNA libraries2006; 7: 57
- Protein structure similarity from principle component correlation analysis2006; 7: 40
- Discovering semantic features in the literature: a foundation for building functional associations2006; 7: 41
- Integrated analysis of gene expression by association rules discovery2006; 7: 54
- HotSwap for bioinformatics: A STRAP tutorial2006; 7: 64
- Prediction of protein continuum secondary structure with probabilistic models based on NMR solved structures2006; 7: 68
- Taxonomic colouring of phylogenetic trees of protein sequences2006; 7: 79
- NOXclass: prediction of protein-protein interaction types2006; 7: 27
- Similarity-based gene detection: using COGs to find evolutionarily-conserved ORFs2006; 7: 31
- Discovery of time-delayed gene regulatory networks based on temporal gene expression profiling2006; 7: 26
- Gene annotation and network inference by phylogenetic profiling2006; 7: 80
- GPNN: Power studies and applications of a neural network method for detecting gene-gene interactions in studies of human disease2006; 7: 39
- GO-Diff: Mining functional differentiation between EST-based transcriptomes2006; 7: 72
- BIPAD: A web server for modeling bipartite sequence elements2006; 7: 76
- WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data2006; 7: 30
- An improved procedure for gene selection from microarray experiments using false discovery rate criterion2006; 7: 15
- Approximation properties of haplotype tagging2006; 7: 8
- Transcriptomic response to differentiation induction2006; 7: 81
- PhosphoregDB: The tissue and sub-cellular distribution of mammalian protein kinases and phosphatases2006; 7: 82
- The PowerAtlas: a power and sample size atlas for microarray experimental design and research2006; 7: 84
- Statistical analysis of real-time PCR data2006; 7: 85
- CoSMoS: Conserved Sequence Motif Search in the proteome2006; 7: 37
- Spectral embedding finds meaningful (relevant) structure in image and microarray data2006; 7: 74
- Detecting overlapping coding sequences in virus genomes2006; 7: 75
- MitoRes: a resource of nuclear-encoded mitochondrial genes and their products in Metazoa2006; 7: 36
- Automatic discovery of cross-family sequence features associated with protein function2006; 7: 16
- Djinn Lite: a tool for customised gene transcript modelling, annotation-data enrichment and exploration2006; 7: 33
- OpWise: Operons aid the identification of differentially expressed genes in bacterial microarray experiments2006; 7: 19
- Bias in error estimation when using cross-validation for model selection2006; 7: 91
- On single and multiple models of protein families for the detection of remote sequence relationships2006; 7: 48
- JLIN: A java based linkage disequilibrium plotter2006; 7: 60
- Various criteria in the evaluation of biomedical named entity recognition2006; 7: 92
- Instance-based concept learning from multiclass DNA microarray data2006; 7: 73
- CARAT: A novel method for allelic detection of DNA copy number changes using high density oligonucleotide arrays2006; 7: 83
- SIMMAP: Stochastic character mapping of discrete traits on phylogenies2006; 7: 88
- Missing value estimation for DNA microarray gene expression data by Support Vector Regression imputation and orthogonal coding scheme2006; 7: 32
- MassSorter: a tool for administrating and analyzing data from mass spectrometry experiments on proteins with known amino acid sequences2006; 7: 42
- An improved distance measure between the expression profiles linking co-expression and co-regulation in mouse2006; 7: 44
- Querying the public databases for sequences using complex keywords contained in the feature lines2006; 7: 45
- Detection of compound mode of action by computational integration of whole-genome measurements and genetic perturbations2006; 7: 51
- Assessing stability of gene selection in microarray data analysis2006; 7: 50
- Phase analysis of circadian-related genes in two tissues2006; 7: 87
- Rapid and asymmetric divergence of duplicate genes in the human gene coexpression network2006; 7: 46
- REtools: A laboratory program for restriction enzyme work: enzyme selection and reaction condition assistance2006; 7: 98
- Effects of filtering by Present call on analysis of microarray experiments2006; 7: 49
- PDB-UF: database of predicted enzymatic functions for unannotated protein structures from structural genomics2006; 7: 53
- PathSys: integrating molecular interaction graphs for systems biology2006; 7: 55
- Comparative analysis of haplotype association mapping algorithms2006; 7: 61
- Gene selection algorithms for microarray data based on least squares support vector machine2006; 7: 95
- A multivariate prediction model for microarray cross-hybridization2006; 7: 101
- A new pooling strategy for high-throughput screening: the Shifted Transversal Design2006; 7: 28
- Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources2006; 7: 62
- A domain-oriented approach to the reduction of combinatorial complexity in signal transduction networks2006; 7: 34
- Determination of strongly overlapping signaling activity from microarray data2006; 7: 99
- VANTED: A system for advanced data analysis and visualization in the context of biological networks2006; 7: 109
- Bayesian detection of periodic mRNA time profiles without use of training examples2006; 7: 63
- GONOME: measuring correlations between GO terms and genomic positions2006; 7: 94
- Identifying biological concepts from a protein-related corpus with a probabilistic topic model2006; 7: 58
- Lower expression of genes near microRNA in C. elegans germline2006; 7: 112
- The Ontology Lookup Service, a lightweight cross-platform tool for controlled vocabulary queries2006; 7: 97
- Metabolite coupling in genome-scale metabolic networks2006; 7: 111
- A quantitative analysis of secondary RNA structure using domination based parameters on trees2006; 7: 108
- Multiscale Hy3S: Hybrid stochastic simulation for supercomputers2006; 7: 93
- Machine learning approaches to supporting the identification of photoreceptor-enriched genes based on expression data2006; 7: 116
- Selection of antisense oligonucleotides based on multiple predicted target mRNA structures2006; 7: 122
- RibAlign: a software tool and database for eubacterial phylogeny based on concatenated ribosomal protein subunits2006; 7: 66
- MAGIC-SPP: a database-driven DNA sequence processing package with associated management tools2006; 7: 115
- EpiJen: a server for multistep T cell epitope prediction2006; 7: 131
- Network-level analysis of metabolic regulation in the human red blood cell using random sampling and singular value decomposition2006; 7: 132
- Gene functional similarity search tool (GFSST)2006; 7: 135
- Hubs of knowledge: using the functional link structure in Biozon to mine for biologically significant entities2006; 7: 71
- Effect of data normalization on fuzzy clustering of DNA microarray data2006; 7: 134
- How to decide? Different methods of calculating gene expression from short oligonucleotide array data will give different results2006; 7: 137
- Protein protein interactions, evolutionary rate, abundance and age2006; 7: 128
- SNA – a toolbox for the stoichiometric analysis of metabolic networks2006; 7: 129
- Identification of physicochemical selective pressure on protein encoding nucleotide sequences2006; 7: 148
- IsoSVM – Distinguishing isoforms and paralogs on the protein level2006; 7: 110
- Computational models with thermodynamic and composition features improve siRNA design2006; 7: 65
- A two-sample Bayesian t-test for microarray data2006; 7: 126
- mGrid: A load-balanced distributed computing environment for the remote execution of the user-defined Matlab code2006; 7: 139
- Quantitative comparison of EST libraries requires compensation for systematic biases in cDNA generation2006; 7: 77
- An unsupervised classification scheme for improving predictions of prokaryotic TIS2006; 7: 121
- SinicView: A visualization environment for comparisons of multiple nucleotide sequence alignment tools2006; 7: 103
- Low degree metabolites explain essential reactions and enhance modularity in biological networks2006; 7: 118
- Discovering functional gene expression patterns in the metabolic network of Escherichia coli with wavelets transforms2006; 7: 119
- Development of an unbiased statistical method for the analysis of unigenic evolution2006; 7: 150
- Biclustering of gene expression data by non-smooth non-negative matrix factorization2006; 7: 78
- GOPET: A tool for automated predictions of Gene Ontology terms2006; 7: 161
- On the attenuation and amplification of molecular noise in genetic regulatory networks2006; 7: 52
- Amplification of the Gene Ontology annotation of Affymetrix probe sets2006; 7: 159
- In search of functional association from time-series microarray data based on the change trend and level of gene expression2006; 7: 69
- An improved map of conserved regulatory sites for Saccharomyces cerevisiae2006; 7: 113
- Ensemble attribute profile clustering: discovering and characterizing groups of genes with similar patterns of biological features2006; 7: 147
- GEM System: automatic prototyping of cell-wide metabolic pathway models from genomes2006; 7: 168
- Improved variance estimation of classification performance via reduction of bias caused by small sample size2006; 7: 127
- 2DDB – a bioinformatics solution for analysis of quantitative proteomics data2006; 7: 158
- Domain-based small molecule binding site annotation2006; 7: 152