Nothing Special   »   [go: up one dir, main page]

Pawitan et al., 2005 - Google Patents

Bias in the estimation of false discovery rate in microarray studies

Pawitan et al., 2005

View HTML
Document ID
238384133365332234
Author
Pawitan Y
Murthy K
Michiels S
Ploner A
Publication year
Publication venue
Bioinformatics

External Links

Snippet

Motivation: The false discovery rate (FDR) provides a key statistical assessment for microarray studies. Its value depends on the proportion π0 of non-differentially expressed (non-DE) genes. In most microarray studies, many genes have small effects not easily …
Continue reading at academic.oup.com (HTML) (other versions)

Classifications

    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F19/00—Digital computing or data processing equipment or methods, specially adapted for specific applications
    • G06F19/10—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology
    • G06F19/20—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology for hybridisation or gene expression, e.g. microarrays, sequencing by hybridisation, normalisation, profiling, noise correction models, expression ratio estimation, probe design or probe optimisation
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F19/00—Digital computing or data processing equipment or methods, specially adapted for specific applications
    • G06F19/10—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology
    • G06F19/24—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology for machine learning, data mining or biostatistics, e.g. pattern finding, knowledge discovery, rule extraction, correlation, clustering or classification
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F17/00—Digital computing or data processing equipment or methods, specially adapted for specific functions
    • G06F17/30—Information retrieval; Database structures therefor; File system structures therefor
    • G06F17/30286—Information retrieval; Database structures therefor; File system structures therefor in structured data stores
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F17/00—Digital computing or data processing equipment or methods, specially adapted for specific functions
    • G06F17/20—Handling natural language data
    • G06F17/21—Text processing
    • G06F17/22—Manipulating or registering by use of codes, e.g. in sequence of text characters
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F19/00—Digital computing or data processing equipment or methods, specially adapted for specific applications
    • G06F19/10—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology
    • G06F19/18—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology for functional genomics or proteomics, e.g. genotype-phenotype associations, linkage disequilibrium, population genetics, binding site identification, mutagenesis, genotyping or genome annotation, protein-protein interactions or protein-nucleic acid interactions
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F19/00—Digital computing or data processing equipment or methods, specially adapted for specific applications
    • G06F19/10—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology
    • G06F19/28—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology for programming tools or database systems, e.g. ontologies, heterogeneous data integration, data warehousing or computing architectures
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F19/00—Digital computing or data processing equipment or methods, specially adapted for specific applications
    • G06F19/10—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology
    • G06F19/22—Bioinformatics, i.e. methods or systems for genetic or protein-related data processing in computational molecular biology for sequence comparison involving nucleotides or amino acids, e.g. homology search, motif or SNP [Single-Nucleotide Polymorphism] discovery or sequence alignment
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F17/00—Digital computing or data processing equipment or methods, specially adapted for specific functions
    • G06F17/30—Information retrieval; Database structures therefor; File system structures therefor
    • G06F17/3074—Audio data retrieval
    • G06F17/30749—Audio data retrieval using information manually generated or using information not derived from the audio data, e.g. title and artist information, time and location information, usage information, user ratings
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F19/00—Digital computing or data processing equipment or methods, specially adapted for specific applications
    • G06F19/30—Medical informatics, i.e. computer-based analysis or dissemination of patient or disease data
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06Q—DATA PROCESSING SYSTEMS OR METHODS, SPECIALLY ADAPTED FOR ADMINISTRATIVE, COMMERCIAL, FINANCIAL, MANAGERIAL, SUPERVISORY OR FORECASTING PURPOSES; SYSTEMS OR METHODS SPECIALLY ADAPTED FOR ADMINISTRATIVE, COMMERCIAL, FINANCIAL, MANAGERIAL, SUPERVISORY OR FORECASTING PURPOSES, NOT OTHERWISE PROVIDED FOR
    • G06Q30/00—Commerce, e.g. shopping or e-commerce
    • G06Q30/02—Marketing, e.g. market research and analysis, surveying, promotions, advertising, buyer profiling, customer management or rewards; Price estimation or determination
    • G—PHYSICS
    • G06—COMPUTING; CALCULATING; COUNTING
    • G06F—ELECTRICAL DIGITAL DATA PROCESSING
    • G06F3/00—Input arrangements for transferring data to be processed into a form capable of being handled by the computer; Output arrangements for transferring data from processing unit to output unit, e.g. interface arrangements

Similar Documents

Publication Publication Date Title
Pawitan et al. Bias in the estimation of false discovery rate in microarray studies
Pacini et al. Integrated cross-study datasets of genetic dependencies in cancer
Tang et al. Tumor origin detection with tissue-specific miRNA and DNA methylation markers
Ma et al. Penalized feature selection and classification in bioinformatics
Shamsani et al. A plugin for the Ensembl Variant Effect Predictor that uses MaxEntScan to predict variant spliceogenicity
Sabatti et al. Co-expression pattern from DNA microarray experiments as a tool for operon prediction
Fu et al. Estimating misclassification error with small samples via bootstrap cross-validation
Lange et al. Global or local? Predicting secondary structure and accessibility in mRNAs
Arora et al. Variability in estimated gene expression among commonly used RNA-seq pipelines
Huynh-Thu et al. Statistical interpretation of machine learning-based feature importance scores for biomarker discovery
Shabalin et al. Merging two gene-expression studies via cross-platform normalization
Ye et al. seqMINER: an integrated ChIP-seq data interpretation platform
Parmigiani et al. A cross-study comparison of gene expression studies for the molecular classification of lung cancer
Huang et al. Detection of DNA copy number alterations using penalized least squares regression
Gu et al. Global network random walk for predicting potential human lncRNA-disease associations
Gatev et al. CoMeBack: DNA methylation array data analysis for co-methylated regions
Karanam et al. CONFAC: automated application of comparative genomic promoter analysis to DNA microarray datasets
Rahnenführer et al. Estimating cancer survival and clinical outcome based on genetic tumor progression scores
Ruan et al. Using association signal annotations to boost similarity network fusion
Baek et al. Development of biomarker classifiers from high-dimensional data
Hanumanthappa et al. Single-sequence and profile-based prediction of RNA solvent accessibility using dilated convolutional neural network
Yousefi et al. Reporting bias when using real data sets to analyze classification performance
Romualdi et al. MIDAW: a web tool for statistical analysis of microarray data
McCall et al. Affymetrix GeneChip microarray preprocessing for multivariate analyses
Pawitan et al. Estimation of false discovery proportion under general dependence