4.7 Article

POSREG: proteomic signature discovered by simultaneously optimizing its reproducibility and generalizability

Related references

Note: Only part of the references are listed.
Review Biology

Feature selection methods on gene expression microarray data for cancer classification: A systematic review

Esra'a Alhenawi et al.

Summary: This systematic review provides comprehensive information on the main research directions for gene expression classification in the past seven years, with a focus on feature selection. The review identified 'propose hybrid FS methods' as the most interesting research direction, guiding researchers to select competitive research areas based on the findings. The papers were thoroughly reviewed based on six perspectives to provide insights for further research in this field.

COMPUTERS IN BIOLOGY AND MEDICINE (2022)

Article Biology

Deep learning based pipelines for Alzheimer's disease diagnosis: A comparative study and a novel deep-ensemble method

Andrea Loddo et al.

Summary: This study aims to contribute to Alzheimer's disease research through computer-aided diagnosis by comparing different deep learning models. By conducting a comprehensive analysis on MRI and fMRI public datasets, the proposed approach achieved excellent accuracy in both binary and multiclass classification tasks.

COMPUTERS IN BIOLOGY AND MEDICINE (2022)

Article Biology

A deep learning framework with an embedded-based feature selection approach for the early detection of the Alzheimer's disease

Nivedhitha Mahendran et al.

Summary: This study used a deep learning-based classification model with an embedded feature selection approach to improve the early diagnosis of Alzheimer's disease (AD). The results showed a significant improvement in the classification accuracy of the proposed model compared to other methods.

COMPUTERS IN BIOLOGY AND MEDICINE (2022)

Article Biology

A novel ensemble learning method using multiple objective particle swarm optimization for subject-independent EEG-based emotion recognition

Rui Li et al.

Summary: In this study, a novel ensemble learning method based on multiple objective particle swarm optimization for subject-independent EEG-based emotion recognition was proposed. The experimental results show that the proposed method achieves better recognition performance than single methods, commonly used ensemble learning methods, and state-of-the-art methods. The average accuracies for arousal and valence are 65.70% and 64.22% on the DEAP database, and the average accuracy on the SEED database is 84.44%.

COMPUTERS IN BIOLOGY AND MEDICINE (2022)

Article Biochemical Research Methods

Optimization of metabolomic data processing using NOREVA

Jianbo Fu et al.

Summary: A peak table is a typical output of metabolomic experiments, and its processing is crucial in metabolomics research. The NOREVA protocol, a newly developed software tool, evaluates and optimizes data processing through various workflows, making data processing more efficient.

NATURE PROTOCOLS (2022)

Article Biochemistry & Molecular Biology

SYNBIP: synthetic binding proteins for research, diagnosis and therapy

Xiaona Wang et al.

Summary: The SYNBIP database provides comprehensive information on thousands of SBPs, illustrating their scaffolds, biophysical and functional properties, binding targets and applications, as well as enabling similarity search. This database serves as a valuable resource for future development of novel SBPs through experimental protein engineering and in-silico studies. The SYNBIP database is accessible without login requirement at both official and mirror sites.

NUCLEIC ACIDS RESEARCH (2022)

Article Biochemistry & Molecular Biology

VARIDT 2.0: structural variability of drug transporter

Tingting Fu et al.

Summary: This study describes a major update of the VARIDT database, including experimental resolved structures and structural variability data updates through literature review and homology modeling. The newly collected data are essential for explaining drug sensitivity, revealing drug-drug interaction mechanisms, and more.

NUCLEIC ACIDS RESEARCH (2022)

Review Pharmacology & Pharmacy

Feature, Function, and Information of Drug Transporter-Related Databases

Jiayi Yin et al.

Summary: This study comprehensively reviews databases related to drug transporters, organizing them based on their importance in research on drug absorption, distribution, metabolism, and excretion. These databases collectively contribute to research on rational drug use.

DRUG METABOLISM AND DISPOSITION (2022)

Article Biochemical Research Methods

MetaFS: Performance assessment of biomarker discovery in metaproteomics

Jing Tang et al.

Summary: Metaproteomics faces challenges of dimensionality and sparsity, and data reduction methods are crucial for identifying significant features and reducing redundancy. The performance of feature selection methods depends on data characteristics, and the online tool MetaFS offers a variety of FS methods for evaluating potential biomarkers in microbiome studies through comprehensive criteria.

BRIEFINGS IN BIOINFORMATICS (2021)

Article Biochemistry & Molecular Biology

INTEDE: interactome of drug-metabolizing enzymes

Jiayi Yin et al.

Summary: INTEDE is a database providing interaction data of drug-metabolizing enzymes (DMEs), including microbiome-DME, xenobiotics-DME, and host protein-DME interactions. The comprehensive collection and provision of multiple types of interaction data enable crosstalk analysis among various types, serving as important reference for future precision medicine practice. Furthermore, the vast amount of accumulated data in INTEDE allows for the generalization of key features to reveal disease etiology and optimize clinical treatment.

NUCLEIC ACIDS RESEARCH (2021)

Article Oncology

High glucose-ROS conditions enhance the progression in cholangiocarcinoma via upregulation of MAN2A2 and CHD8

Unchalee Thonsri et al.

Summary: The study demonstrated that high glucose conditions promote the progression of cholangiocarcinoma through ROS-mediated upregulation of MAN2A2 and CHD8. CHD8 regulates cell proliferation and migration by controlling the expression of MAN2A2.

CANCER SCIENCE (2021)

Article Biology

Biomarker discovery by feature ranking: Evaluation on a case study of embryonal tumors

Matej Petkovic et al.

Summary: The task of biomarker discovery translates to the machine learning task of feature ranking to identify potentially viable targets for addressing specific biological statuses. A methodology for evaluating feature rankings was proposed and successfully demonstrated on datasets related to cancer, identifying a set of viable biomarkers.

COMPUTERS IN BIOLOGY AND MEDICINE (2021)

Review Biology

A review on omics-based biomarkers discovery for Alzheimer's disease from the bioinformatics perspectives: Statistical approach vs machine learning approach

Mei Sze Tan et al.

Summary: Alzheimer's Disease is a common neurodegenerative disease affecting cognition, with increasing incidence as the elderly population grows. Diagnosis is based on clinical criteria including patient history, physical examination, neuropsychological testing and appropriate investigations. Omics techniques may aid in diagnosis and exploration of disease development mechanisms.

COMPUTERS IN BIOLOGY AND MEDICINE (2021)

Article Biochemical Research Methods

The miRNA: a small but powerful RNA for COVID-19

Song Zhang et al.

Summary: This article summarizes the role of miRNA in COVID-19 infection and suggests that COVID-19 cleverly exploits the interaction between miRNA and other biomolecules to evade host immune response. The study proposes that the miRNA-based interplay between the host and SARS-CoV-2 may be the primary cause of SARS-CoV-2 accessing and attacking host cells.

BRIEFINGS IN BIOINFORMATICS (2021)

Article Biochemical Research Methods

MMEASE: Online meta-analysis of metabolomic data by enhanced metabolite annotation, marker selection and enrichment analysis

Qingxia Yang et al.

Summary: Large-scale and long-term metabolomic studies have been a focal point in biomedical research, but challenges persist due to ineffective experiment integration and limited metabolite annotation capacity. The online tool MMEASE was developed to address these issues, allowing for integration of multiple analytical experiments, enhanced metabolite annotation, and enrichment analysis. MMEASE aims to provide a comprehensive service for large-scale and long-term metabolomics, potentially guiding current biomedical studies.

JOURNAL OF PROTEOMICS (2021)

Review Biochemical Research Methods

Pharmacometabonomics: data processing and statistical analysis

Jianbo Fu et al.

Summary: Individual variations in drug efficacy, side effects, and adverse drug reactions present a challenge in drug research. Pharmacometabonomics aims to understand drug pharmacokinetics and monitor metabolic pathways. This review discusses technological advances, analytical techniques, data processing strategies, and databases in pharmacometabonomics for personalized medicine.

BRIEFINGS IN BIOINFORMATICS (2021)

Article Biology

Machine learning-based prognostic modeling using clinical data and quantitative radiomic features from chest CT images in COVID-19 patients

Isaac Shiri et al.

Summary: This study aimed to develop prognostic models for predicting survival of COVID-19 patients using clinical data and radiomic features extracted from chest CT images. The combination of lung, lesion, and clinical features provided the most accurate prognostic model with high sensitivity and specificity, showing significant potential for improving the management of COVID-19 patients.

COMPUTERS IN BIOLOGY AND MEDICINE (2021)

Article Biochemical Research Methods

Feature Selection Methods for Protein Biomarker Discovery from Proteomics or Multiomics Data

Zhiao Shi et al.

Summary: ProMS is a computational algorithm for selecting protein markers based on clustering, showing superior performance in two clinically relevant classification problems compared to existing feature selection methods. It can be extended to the multiomics setting through a constrained weighted k-medoids clustering algorithm, leading to improved performance on independent test data. In addition to performance, ProMS and ProMS_mo provide functional interpretation of selected protein markers and facilitate robust transition to verification and validation platforms.

MOLECULAR & CELLULAR PROTEOMICS (2021)

Article Microbiology

ggpubfigs: Colorblind-Friendly Color Palettes and ggplot2 Graphic System Extensions for Publication-Quality Scientific Figures

Jacob L. Steenwyk et al.

Summary: ggpubfigs is an open-source R package that offers colorblind-friendly color palettes and extensions of the ggplot2 graphic system, helping users create publication-quality scientific figures from quantitative data.

MICROBIOLOGY RESOURCE ANNOUNCEMENTS (2021)

Article Biochemical Research Methods

PScL-HDeep: image-based prediction of protein subcellular location in human tissue using ensemble learning of handcrafted and deep learned features with two-layer feature selection

Matee Ullah et al.

Summary: The study developed a novel computational approach, PScL-HDeep, for accurate and efficient prediction of protein subcellular location in human tissues. The method combined handcrafted and deep learned features, leveraging information from different highlighted image viewpoints, ultimately achieving outstanding performance.

BRIEFINGS IN BIOINFORMATICS (2021)

Article Biology

Biolabel-led research pattern positions the effects and mechanisms of Sophorae Tonkinensis radix et rhizome on lung diseases: A novel strategy for computer-aided herbal medicine research based on omics and bioinformatics

Shuai-nan Zhang et al.

Summary: This study utilized proteomics and metabonomics to explore the biolabels responsible for the effect of Sophorae Tonkinensis radix et rhizome (ST) on lung tissue, identifying multiple biolabels involved in the mechanism of ST treatment of lung diseases. Verification experiments showed significant inhibitory effects of ST on lung squamous cell carcinoma, indicating a potential direction for future lung cancer treatment research.

COMPUTERS IN BIOLOGY AND MEDICINE (2021)

Article Biology

Hybrid dilation and attention residual U-Net for medical image segmentation

Zekun Wang et al.

Summary: This study introduces an improved U-Net model, HDA-ResUNet, with residual connections, channel attention block, and hybrid dilated attention convolutional layer for medical image segmentation, achieving more accurate results than traditional U-Net with faster convergence speed. Evaluated on four datasets, the proposed model outperforms U-Net in terms of segmentation accuracy and parameters efficiency.

COMPUTERS IN BIOLOGY AND MEDICINE (2021)

Article Biology

CytomegaloVirusDb: Multi-omics knowledge database for cytomegaloviruses

Taimoor Khan et al.

Summary: This study evaluated the genomes and proteomes of different CMV species and developed an open-access platform, providing researchers with species-specific information to further explore CMV immune response and therapeutics.

COMPUTERS IN BIOLOGY AND MEDICINE (2021)

Article Multidisciplinary Sciences

Integrating ensemble systems biology feature selection and bimodal deep neural network for breast cancer prognosis prediction

Li-Hsin Cheng et al.

Summary: This study successfully combined systems biology feature selection with ensemble learning to select genes with biological insights and robust prognostic predictive power. Additionally, using a multi-gene approach to predict breast cancer prognosis, the hybrid ensemble approach showed the most robust results, with the bimodal deep neural network achieving the highest test performance in prognosis prediction models.

SCIENTIFIC REPORTS (2021)

Article Education & Educational Research

Discrimination of the Contextual Features of Top Performers in Scientific Literacy Using a Machine Learning Approach

Jiangping Chen et al.

Summary: This study identified the most predictive contextual characteristics of top performers in scientific literacy, including the quality of teachers' instructional practices, parents' educational/occupational status, disciplinary climate, among others. These features may provide important information for future studies on students' performance in science literacy.

RESEARCH IN SCIENCE EDUCATION (2021)

Article Computer Science, Artificial Intelligence

Ensemble feature selection for high-dimensional data: a stability analysis across multiple domains

Barbara Pes

NEURAL COMPUTING & APPLICATIONS (2020)

Article Biochemistry & Molecular Biology

VARIDT 1.0: variability of drug transporter database

Jiayi Yin et al.

NUCLEIC ACIDS RESEARCH (2020)

Article Biochemical Research Methods

ANPELA: analysis and performance assessment of the label-free quantification workflow for metaproteomic studies

Jing Tang et al.

BRIEFINGS IN BIOINFORMATICS (2020)

Article Biochemistry & Molecular Biology

SSizer: Determining the Sample Sufficiency for Comparative Biological Study

Fengcheng Li et al.

JOURNAL OF MOLECULAR BIOLOGY (2020)

Article Biochemistry & Molecular Biology

NOREVA: enhanced normalization and evaluation of time-course and multi-class metabolomic data

Qingxia Yang et al.

NUCLEIC ACIDS RESEARCH (2020)

Article Chemistry, Medicinal

In Silico Study of Membrane Lipid Composition Regulating Conformation and Hydration of Influenza Virus B M2 Channel

Yue Zhang et al.

JOURNAL OF CHEMICAL INFORMATION AND MODELING (2020)

Review Biochemistry & Molecular Biology

Computational advances of tumor marker selection and sample classification in cancer proteomics

Jing Tang et al.

COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL (2020)

Article Biochemical Research Methods

MinE-RFE: determine the optimal subset from RFE by minimizing the subset-accuracy-defined energy

Ran Su et al.

BRIEFINGS IN BIOINFORMATICS (2020)

Article Biochemistry & Molecular Biology

iProX: an integrated proteome resource

Jie Ma et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Computer Science, Information Systems

Robust clinical marker identification for diabetic kidney disease with ensemble feature selection

Xing Song et al.

JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION (2019)

Article Biochemical Research Methods

Best practices and benchmarks for intact protein analysis for top-down mass spectrometry

Daniel P. Donnelly et al.

NATURE METHODS (2019)

Article Biochemical Research Methods

Automatic discovery of 100-miRNA signature for cancer classification using ensemble feature selection

Alejandro Lopez-Rincon et al.

BMC BIOINFORMATICS (2019)

Article Biochemistry & Molecular Biology

Proteomics of Melanoma Response to Immunotherapy Reveals Mitochondrial Dependence

Michal Harel et al.

Editorial Material Dermatology

Research Techniques Made Simple: Feature Selection for Biomarker Discovery

Rodrigo Torres et al.

JOURNAL OF INVESTIGATIVE DERMATOLOGY (2019)

Review Biochemical Research Methods

Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data

Vera Ignjatovic et al.

JOURNAL OF PROTEOME RESEARCH (2019)

Article Multidisciplinary Sciences

Machine learning algorithm validation with a limited sample size

Andrius Vabalas et al.

PLOS ONE (2019)

Article Computer Science, Artificial Intelligence

On developing an automatic threshold applied to feature selection ensembles

B. Seijo-Pardo et al.

INFORMATION FUSION (2019)

Review Biochemical Research Methods

Statistical analysis of proteomics data: A review on feature selection

Marta Lualdi et al.

JOURNAL OF PROTEOMICS (2019)

Review Computer Science, Artificial Intelligence

Ensembles for feature selection: A review and future trends

Veronica Bolon-Canedo et al.

INFORMATION FUSION (2019)

Article Biochemistry & Molecular Biology

The PRIDE database and related tools and resources in 2019: improving support for quantification data

Yasset Perez-Riverol et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Biochemistry & Molecular Biology

The Gene Ontology Resource: 20 years and still GOing strong

S. Carbon et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Biochemical Research Methods

Advanced bioinformatics methods for practical applications in proteomics

Wilson Wen Bin Goh et al.

BRIEFINGS IN BIOINFORMATICS (2019)

Review Genetics & Heredity

Statistical and integrative system-level analysis of DNA methylation data

Andrew E. Teschendorff et al.

NATURE REVIEWS GENETICS (2018)

Article Biochemical Research Methods

Prediction of potential disease-associated microRNAs using structural perturbation method

Xiangxiang Zeng et al.

BIOINFORMATICS (2018)

Review Computer Science, Interdisciplinary Applications

Relief-based feature selection: Introduction and review

Ryan J. Urbanowicz et al.

JOURNAL OF BIOMEDICAL INFORMATICS (2018)

Article Biochemistry & Molecular Biology

MetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis

Jasmine Chong et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Biochemistry & Molecular Biology

Loss-of-function of IFT88 determines metabolic phenotypes in thyroid cancer

Junguee Lee et al.

ONCOGENE (2018)

Review Biotechnology & Applied Microbiology

Dealing with Confounders in Omics Analysis

Wilson Wen Bin Goh et al.

TRENDS IN BIOTECHNOLOGY (2018)

Review Cell Biology

Protein Phase Separation: A New Phase in Cell Biology

Steven Boeynaems et al.

TRENDS IN CELL BIOLOGY (2018)

Editorial Material Pharmacology & Pharmacy

Clinical Success of Drug Targets Prospectively Predicted by In Silico Study

Feng Zhu et al.

TRENDS IN PHARMACOLOGICAL SCIENCES (2018)

Article Multidisciplinary Sciences

A proteomic landscape of diffuse-type gastric cancer

Sai Ge et al.

NATURE COMMUNICATIONS (2018)

Article Multidisciplinary Sciences

A closer look at cross-validation for assessing the accuracy of gene regulatory networks and models

Shayan Tabe-Bordbar et al.

SCIENTIFIC REPORTS (2018)

Review Biochemistry & Molecular Biology

A Review of Matched-pairs Feature Selection Methods for Gene Expression Data Analysis

Sen Liang et al.

COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL (2018)

Article Biochemical Research Methods

Identification of differentially expressed peptides in high-throughput proteomics data

Michiel P. van Ooijen et al.

BRIEFINGS IN BIOINFORMATICS (2018)

Article Computer Science, Artificial Intelligence

Exploiting the ensemble paradigm for stable feature selection: A case study on high-dimensional genomic data

Barbara Pes et al.

INFORMATION FUSION (2017)

Article Computer Science, Artificial Intelligence

Ensemble feature selection: Homogeneous and heterogeneous approaches

B. Seijo-Pardo et al.

KNOWLEDGE-BASED SYSTEMS (2017)

Article Biochemistry & Molecular Biology

NOREVA: normalization and evaluation of MS-based metabolomics data

Bo Li et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Multidisciplinary Sciences

Trisomy 21 causes changes in the circulating proteome indicative of chronic autoinflammation

Kelly D. Sullivan et al.

SCIENTIFIC REPORTS (2017)

Article Computer Science, Artificial Intelligence

Feature Selection Based on Structured Sparsity: A Comprehensive Study

Jie Gui et al.

IEEE TRANSACTIONS ON NEURAL NETWORKS AND LEARNING SYSTEMS (2017)

Article Biochemical Research Methods

mixOmics: An R package for 'omics feature selection and multiple data integration

Florian Rohart et al.

PLOS COMPUTATIONAL BIOLOGY (2017)

Article Mathematical & Computational Biology

EFS: an ensemble feature selection tool implemented as R-package and web-application

Ursula Neumann et al.

BIODATA MINING (2017)

Review Pharmacology & Pharmacy

Feature selection in clinical proteomics: with great power comes great reproducibility

Wei Wang et al.

DRUG DISCOVERY TODAY (2017)

Article Biochemical Research Methods

Secretome protein signature of human pancreatic cancer stem-like cells

Jessica Brandi et al.

JOURNAL OF PROTEOMICS (2016)

Review Multidisciplinary Sciences

Mass-spectrometric exploration of proteome structure and function

Ruedi Aebersold et al.

NATURE (2016)

Article Biochemical Research Methods

Label-free quantification in ion mobility-enhanced data-independent acquisition proteomics

Ute Distler et al.

NATURE PROTOCOLS (2016)

Article Computer Science, Artificial Intelligence

A novel features ranking metric with application to scalable visual and bioinformatics data classification

Quan Zou et al.

NEUROCOMPUTING (2016)

Article Multidisciplinary Sciences

Proteomic maps of breast cancer subtypes

Stefka Tyanova et al.

NATURE COMMUNICATIONS (2016)

Article Multidisciplinary Sciences

Tissue-based map of the human proteome

Mathias Uhlen et al.

SCIENCE (2015)

Article Biochemical Research Methods

DOSE: an R/Bioconductor package for disease ontology semantic and enrichment analysis

Guangchuang Yu et al.

BIOINFORMATICS (2015)

Article Biochemical Research Methods

Pathview: an R/Bioconductor package for pathway-based data integration and visualization

Weijun Luo et al.

BIOINFORMATICS (2013)

Review Oncology

Diabetes mellitus and cancer risk: Review of the epidemiological evidence

Kentaro Shikata et al.

CANCER SCIENCE (2013)

Article Biochemical Research Methods

A Critical Assessment of Feature Selection Methods for Biomarker Discovery in Clinical Proteomics

Christin Christin et al.

MOLECULAR & CELLULAR PROTEOMICS (2013)

Article Gastroenterology & Hepatology

The Differentiation of Pancreatic Tumor-Initiating Cells by Vitronectin Can Be Blocked by Cilengitide

Stephanie M. Cabarcas et al.

PANCREAS (2013)

Review Biochemistry & Molecular Biology

Statistical methods for the analysis of high-throughput metabolomics data

Joerg Bartel et al.

COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL (2013)

Article Pharmacology & Pharmacy

Application of ggplot2 to Pharmacometric Graphics

K. Ito et al.

CPT-PHARMACOMETRICS & SYSTEMS PHARMACOLOGY (2013)

Article Biochemical Research Methods

Robust rank aggregation for gene list integration and meta-analysis

Raivo Kolde et al.

BIOINFORMATICS (2012)

Article Urology & Nephrology

The serum anion gap is altered in early kidney disease and associates with mortality

Matthew K. Abramowitz et al.

KIDNEY INTERNATIONAL (2012)

Article Biochemistry & Molecular Biology

Therapeutic target database update 2012: a resource for facilitating target-oriented drug discovery

Feng Zhu et al.

NUCLEIC ACIDS RESEARCH (2012)

Article Biotechnology & Applied Microbiology

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

Guangchuang Yu et al.

OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY (2012)

Article Biochemical Research Methods

pROC: an open-source package for R and S plus to analyze and compare ROC curves

Xavier Robin et al.

BMC BIOINFORMATICS (2011)

Article Biology

A hybrid feature selection method for DNA microarray data

Li-Yeh Chuang et al.

COMPUTERS IN BIOLOGY AND MEDICINE (2011)

Article Acoustics

Generalizability and Simplicity as Criteria in Feature Selection: Application to Mood Classification in Music

Pasi Saari et al.

IEEE TRANSACTIONS ON AUDIO SPEECH AND LANGUAGE PROCESSING (2011)

Article Multidisciplinary Sciences

Clustered patterns of species origins of nature-derived drugs and clues for future bioprospecting

Feng Zhu et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)

Article Computer Science, Artificial Intelligence

Evaluating Stability and Comparing Output of Feature Selectors that Optimize Feature Subset Cardinality

Petr Somol et al.

IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE (2010)

Article Engineering, Biomedical

Entropy-based optimization of wavelet spatial filters

Dario Farina et al.

IEEE TRANSACTIONS ON BIOMEDICAL ENGINEERING (2008)

Article Computer Science, Artificial Intelligence

Feature selection with kernel class separability

Lei Wang

IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE (2008)

Article Biochemical Research Methods

pcaMethods - a bioconductor package providing PCA methods for incomplete data

Wolfram Stacklies et al.

BIOINFORMATICS (2007)

Article Biotechnology & Applied Microbiology

Rat toxicogenomic study reveals analytical consistency across microarray platforms

Lei Guo et al.

NATURE BIOTECHNOLOGY (2006)

Article Statistics & Probability

A Lego system for conditional inference

Torsten Hothorn et al.

AMERICAN STATISTICIAN (2006)

Article Multidisciplinary Sciences

Thousands of samples are needed to generate a robust gene list for predicting outcome in cancer

L Ein-Dor et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Biochemical Research Methods

Bias in error estimation when using cross-validation for model selection

S Varma et al.

BMC BIOINFORMATICS (2006)

Article Biochemical Research Methods

Optimal number of features as a function of sample size for various classification rules

JP Hua et al.

BIOINFORMATICS (2005)

Article Biochemical Research Methods

Is cross-validation valid for small-sample microarray classification?

UM Braga-Neto et al.

BIOINFORMATICS (2004)

Article Biochemical Research Methods

affy -: analysis of Affymetrix GeneChip data at the probe level

L Gautier et al.

BIOINFORMATICS (2004)

Article Multidisciplinary Sciences

Significance analysis of microarrays applied to the ionizing radiation response

VG Tusher et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2001)