Hairpin sequence and structure is associated with features of isomiR biogenesis

miRGTF-net: Integrative miRNA-gene-TF network analysis reveals key drivers of breast cancer recurrence

(2021) Stepan Nersisyan et al.   PLoS One

A Mechanism for microRNA Arm Switching Regulated by Uridylation

(2020) Haedong Kim et al.   MOLECULAR CELL

Differences in the Drosha and Dicer Cleavage Profiles in Colorectal Cancer and Normal Colon Tissue Samples

(2020) M. Yu. Shkurnikov et al.   Doklady Biochemistry and Biophysics

Too Many False Targets for MicroRNAs: Challenges and Pitfalls in Prediction of miRNA Targets and Their Gene Ontology in Model and Non‐model Organisms

(2019) Arie Fridrich et al.   BIOESSAYS

miRDB: an online database for prediction of functional microRNA targets

(2019) Yuhao Chen et al.   NUCLEIC ACIDS RESEARCH

MicroRNA-411 and Its 5′-IsomiR Have Distinct Targets and Functions and Are Differentially Regulated in the Vasculature under Ischemia

(2019) Reginald V.C.T. van der Kwast et al.   MOLECULAR THERAPY

Logomaker: beautiful sequence logos in Python

(2019) Ammar Tareen et al.   BIOINFORMATICS

Systematic Discovery of RNA Binding Proteins that Regulate MicroRNA Levels

(2018) Julia K. Nussbacher et al.   MOLECULAR CELL

GENCODE reference annotation for the human and mouse genomes

(2018) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

miRBase: from microRNA sequences to function

(2018) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

Characterizing isomiR variants within the microRNA-34/449 family

(2017) Olivier Mercey et al.   FEBS LETTERS

A Compendium of RNA-Binding Proteins that Regulate MicroRNA Biogenesis

(2017) Thomas Treiber et al.   MOLECULAR CELL

Knowledge about the presence or absence of miRNA isoforms (isomiRs) can successfully discriminate amongst 32 TCGA cancer types

(2017) Aristeidis G. Telonis et al.   NUCLEIC ACIDS RESEARCH

Issues in current microRNA target identification methods

(2017) Hervé Seitz   RNA Biology

MicroRNAs and their variants in an RNA world: implications for complex interactions and diverse roles in an RNA regulatory network

(2016) Li Guo et al.   BRIEFINGS IN BIOINFORMATICS

microRNA target prediction programs predict many false positives

(2016) Natalia Pinzón et al.   GENOME RESEARCH

Guidelines for the optimal design of miRNA-based shRNAs

(2016) Xavier Bofill-De Ros et al.   METHODS

Re-evaluation of the roles ofDROSHA,Exportin 5, andDICERin microRNA biogenesis

(2016) Young-Kook Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sequence Features of Drosha and Dicer Cleavage Sites Affect the Complexity of IsomiRs

(2015) Julia Starega-Roslan et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Beyond the one-locus-one-miRNA paradigm: microRNA isoforms enable deeper insights into breast cancer heterogeneity

(2015) Aristeidis G. Telonis et al.   NUCLEIC ACIDS RESEARCH

IsomiR expression profiles in human lymphoblastoid cell lines exhibit population and gender dependencies

(2015) Phillipe Loher et al.   Oncotarget

5′ isomiR variation is of functional and evolutionary importance

(2014) Geok Chin Tan et al.   NUCLEIC ACIDS RESEARCH

The Loop Position of shRNAs and Pre-miRNAs Is Critical for the Accuracy of Dicer Processing In Vivo

(2012) Shuo Gu et al.   CELL

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

(2011) Marc R. Friedländer et al.   NUCLEIC ACIDS RESEARCH

Selective gene silencing by viral delivery of short hairpin RNA

(2010) Katja Sliva et al.   Virology Journal

MiRNAs and Cancer

(2009) Rosa Visone et al.   AMERICAN JOURNAL OF PATHOLOGY

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

(2009) M. D. Robinson et al.   BIOINFORMATICS

siDirect 2.0: updated software for designing functional siRNA with reduced seed-dependent off-target effect

(2009) Yuki Naito et al.   BMC BIOINFORMATICS

Recognizing and avoiding siRNA off-target effects for target identification and therapeutic application

(2009) Aimee L. Jackson et al.   NATURE REVIEWS DRUG DISCOVERY

siDRM: an effective and generally applicable online siRNA design tool

(2008) Wuming Gong et al.   BIOINFORMATICS

Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells

(2008) R. D. Morin et al.   GENOME RESEARCH

Inducible and reversible gene silencing by stable integration of an shRNA-encoding lentivirus in transgenic rats

(2008) M. J. Herold et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA