4.8 Article

Biclustering analysis of transcriptome big data identifies condition-specific microRNA targets

Related references

Note: Only part of the references are listed.
Article Biochemistry & Molecular Biology

miRTarBase update 2018: a resource for experimentally validated microRNA-target interactions

Chih-Hung Chou et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Biochemistry & Molecular Biology

The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible

Damian Szklarczyk et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Genetics & Heredity

General rules for functional microRNA targeting

Doyeon Kim et al.

NATURE GENETICS (2016)

Article Multidisciplinary Sciences

The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans

Kristin G. Ardlie et al.

SCIENCE (2015)

Article Biochemical Research Methods

From miRNA regulation to miRNA-TF co-regulation: computational approaches and challenges

Thuc Duy Le et al.

BRIEFINGS IN BIOINFORMATICS (2015)

Article Multidisciplinary Sciences

miRLAB: An R Based Dry Lab for Exploring miRNA-mRNA Regulatory Relationships

Thuc Duy Le et al.

PLOS ONE (2015)

Article Biochemical Research Methods

Identifying miRNAs, targets and functions

Bing Liu et al.

BRIEFINGS IN BIOINFORMATICS (2014)

Article Biochemistry & Molecular Biology

miRBase: annotating high confidence microRNAs using deep sequencing data

Ana Kozomara et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Biochemical Research Methods

Inferring microRNA-mRNA causal regulatory relationships from expression data

Thuc Duy Le et al.

BIOINFORMATICS (2013)

Article Biochemical Research Methods

Joint analysis of miRNA and mRNA expression data

Ander Muniategui et al.

BRIEFINGS IN BIOINFORMATICS (2013)

Review Genetics & Heredity

Integrative approaches for finding modular structure in biological networks

Koyel Mitra et al.

NATURE REVIEWS GENETICS (2013)

Article Biochemistry & Molecular Biology

DIANA-microT web server v5.0: service integration into miRNA functional analysis workflows

Maria D. Paraskevopoulou et al.

NUCLEIC ACIDS RESEARCH (2013)

Article Biochemistry & Molecular Biology

Identification of microRNA-regulated gene networks by expression analysis of target genes

Vincenzo Alessandro Gennarino et al.

GENOME RESEARCH (2012)

Review Biochemistry & Molecular Biology

MicroRNAs and the cell cycle

Maria Jose Bueno et al.

BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE (2011)

Article Biochemical Research Methods

A biclustering algorithm for extracting bit-patterns from binary datasets

Domingo S. Rodriguez-Baena et al.

BIOINFORMATICS (2011)

Article Biochemical Research Methods

A Lasso regression model for the construction of microRNA-target regulatory networks

Yiming Lu et al.

BIOINFORMATICS (2011)

Article Biochemical Research Methods

Molecular signatures database (MSigDB) 3.0

Arthur Liberzon et al.

BIOINFORMATICS (2011)

Article Mathematical & Computational Biology

MicroRNAs coordinately regulate protein complexes

Steffen Sass et al.

BMC SYSTEMS BIOLOGY (2011)

Article Biochemistry & Molecular Biology

A ceRNA Hypothesis: The Rosetta Stone of a Hidden RNA Language?

Leonardo Salmena et al.

Article Biochemistry & Molecular Biology

Weak seed-pairing stability and high target-site abundance decrease the proficiency of lsy-6 and other microRNAs

David M. Garcia et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2011)

Article Transplantation

Circulating microRNA expression is reduced in chronic kidney disease

Calida S. Neal et al.

NEPHROLOGY DIALYSIS TRANSPLANTATION (2011)

Article Biochemical Research Methods

FABIA: factor analysis for bicluster acquisition

Sepp Hochreiter et al.

BIOINFORMATICS (2010)

Article Mathematical & Computational Biology

GeneCards Version 3: the human gene integrator

Marilyn Safran et al.

DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2010)

Article Biotechnology & Applied Microbiology

Comprehensive modeling of microRNA targets predicts functional non-conserved and non-canonical sites

Doron Betel et al.

GENOME BIOLOGY (2010)

Article Biochemistry & Molecular Biology

QUBIC: a qualitative biclustering algorithm for analyses of gene expression data

Guojun Li et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

DIANA-microT web server: elucidating microRNA functions through target prediction

M. Maragkakis et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemical Research Methods

Using expression profiling data to identify human microRNA targets

Jim C. Huang et al.

NATURE METHODS (2007)

Article Biochemistry & Molecular Biology

Determinants of targeting by endogenous and exogenous microRNAs and siRNAs

Cydney B. Nielsen et al.

Article Genetics & Heredity

The role of site accessibility in microRNA target recognition

Michael Kertesz et al.

NATURE GENETICS (2007)

Article Biochemistry & Molecular Biology

MicroRNA regulation of human protein-protein interaction network

Han Liang et al.

Article Biochemical Research Methods

Discovery of microRNA-mRNA modules via population-based probabilistic learning

Je-Gun Joung et al.

BIOINFORMATICS (2007)

Review Developmental Biology

microRNAs as oncogenes and tumor suppressors

Baohong Zhang et al.

DEVELOPMENTAL BIOLOGY (2007)

Review Genetics & Heredity

The evolution of gene regulation by transcription factors and microRNAs

Kevin Chen et al.

NATURE REVIEWS GENETICS (2007)

Article Biochemical Research Methods

A systematic comparison and evaluation of biclustering methods for gene expression data

A Prelic et al.

BIOINFORMATICS (2006)

Article Biochemical Research Methods

Prediction of regulatory modules comprising microRNAs and target genes

SR Yoon et al.

BIOINFORMATICS (2005)

Article Genetics & Heredity

Combinatorial microRNA target predictions

A Krek et al.

NATURE GENETICS (2005)

Article Biochemical Research Methods

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

L Gautier et al.

BIOINFORMATICS (2004)

Review Biochemistry & Molecular Biology

Human MicroRNA targets

B John et al.

PLOS BIOLOGY (2004)

Article Cell Biology

A combined computational-experimental approach predicts human microRNA targets

M Kiriakidou et al.

GENES & DEVELOPMENT (2004)

Article Physics, Fluids & Plasmas

Iterative signature algorithm for the analysis of large-scale gene expression data

S Bergmann et al.

PHYSICAL REVIEW E (2003)