4.7 Article

DEBrowser: interactive differential expression analysis and visualization tool for count data

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemistry & Molecular Biology

Comparative Analysis of Immune Cells Reveals a Conserved Regulatory Lexicon

Elisa Donnard et al.

CELL SYSTEMS (2018)

Article Multidisciplinary Sciences

A Novel Statistical Method to Diagnose, Quantify and Correct Batch Effects in Genomic Studies

Gift Nyamundanda et al.

SCIENTIFIC REPORTS (2017)

Article Mathematical & Computational Biology

DEApp: an interactive web interface for differential expression analysis of next generation sequence data

Yan Li et al.

SOURCE CODE FOR BIOLOGY AND MEDICINE (2017)

Article Biotechnology & Applied Microbiology

DEIVA: a web application for interactive visual analysis of differential gene expression profiles

Jayson Harshbarger et al.

BMC GENOMICS (2017)

Article Hematology

Platelet functional and transcriptional changes induced by intralipid infusion

Lea M. Beaulieu et al.

THROMBOSIS AND HAEMOSTASIS (2016)

Article Biochemical Research Methods

VisRseq: R-based visual framework for analysis of sequencing data

Hamid Younesy et al.

BMC BIOINFORMATICS (2015)

Meeting Abstract Oncology

OASIS: A centralized portal for cancer omics data analysis

Julio Fernandez-Banet et al.

CANCER RESEARCH (2015)

Article Cell Biology

Genetic and Epigenetic Variation, but Not Diet, Shape the Sperm Methylome

Jeremy M. Shea et al.

DEVELOPMENTAL CELL (2015)

Article Biochemical Research Methods

Orchestrating high-throughput genomic analysis with Bioconductor

Wolfgang Huber et al.

NATURE METHODS (2015)

Article Biochemistry & Molecular Biology

limma powers differential expression analyses for RNA-sequencing and microarray studies

Matthew E. Ritchie et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Biochemical Research Methods

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

Guangchuang Yu et al.

BIOINFORMATICS (2015)

Article Biochemistry & Molecular Biology

Staufen1 senses overall transcript secondary structure to regulate translation

Emiliano P. Ricci et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2014)

Article Biotechnology & Applied Microbiology

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love et al.

GENOME BIOLOGY (2014)

Article Mathematical & Computational Biology

A Two-Stage Procedure for the Removal of Batch Effects in Microarray Studies

Marco Giordan

STATISTICS IN BIOSCIENCES (2014)

Article Biochemical Research Methods

ASPeak: an abundance sensitive peak detection algorithm for RIP-Seq

Alper Kucukural et al.

BIOINFORMATICS (2013)

Article Biochemical Research Methods

Data-based filtering for replicated high-throughput transcriptome sequencing experiments

Andrea Rau et al.

BIOINFORMATICS (2013)

Article Neurosciences

Genome-wide assessment of post-transcriptional control in the fly brain

Shaul Mezan et al.

FRONTIERS IN MOLECULAR NEUROSCIENCE (2013)

Article Biochemical Research Methods

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

Jeffrey T. Leek et al.

BIOINFORMATICS (2012)

Article Biochemistry & Molecular Biology

The Cellular EJC Interactome Reveals Higher-Order mRNP Structure and an EJC-SR Protein Nexus

Guramrit Singh et al.

Editorial Material Biotechnology & Applied Microbiology

The difficult calls in RNA editing

Brenda Bass et al.

NATURE BIOTECHNOLOGY (2012)

Article Biochemical Research Methods

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

Cole Trapnell et al.

NATURE PROTOCOLS (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

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

Bo Li et al.

BMC BIOINFORMATICS (2011)

Article Biotechnology & Applied Microbiology

Chipster: user-friendly analysis software for microarray and other high-throughput data

M. Aleksi Kallio et al.

BMC GENOMICS (2011)

Article Biochemistry & Molecular Biology

Identification of Neuronal RNA Targets of TDP-43-containing Ribonucleoprotein Complexes

Chantelle F. Sephton et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2011)

Article Biochemistry & Molecular Biology

Genomic Maps of Long Noncoding RNA Occupancy Reveal Principles of RNA-Chromatin Interactions

Ci Chu et al.

MOLECULAR CELL (2011)

Article Biochemistry & Molecular Biology

Accurate quantification of transcriptome from RNA-Seq data by effective length normalization

Soohyun Lee et al.

NUCLEIC ACIDS RESEARCH (2011)

Article Biochemical Research Methods

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

Mark D. Robinson et al.

BIOINFORMATICS (2010)

Article Multidisciplinary Sciences

Independent filtering increases detection power for high-throughput experiments

Richard Bourgon et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Article Biotechnology & Applied Microbiology

A scaling normalization method for differential expression analysis of RNA-seq data

Mark D. Robinson et al.

GENOME BIOLOGY (2010)

Article Biotechnology & Applied Microbiology

Differential expression analysis for sequence count data

Simon Anders et al.

GENOME BIOLOGY (2010)

Article Mathematical & Computational Biology

Adjusting batch effects in microarray expression data using empirical Bayes methods

W. Evan Johnson et al.

BIOSTATISTICS (2007)

Article Biotechnology & Applied Microbiology

Bioconductor: open software development for computational biology and bioinformatics

RC Gentleman et al.

GENOME BIOLOGY (2004)

Article Biochemical Research Methods

Normalization of cDNA microarray data

GK Smyth et al.

METHODS (2003)

Article Multidisciplinary Sciences

Singular value decomposition for genome-wide expression data processing and modeling

O Alter et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2000)