scAPAatlas: an atlas of alternative polyadenylation across cell types in human and mouse

Single-cell alternative polyadenylation analysis delineates GABAergic neuron types

(2021) Yang Yang et al.   BMC BIOLOGY

Choice of Alternative Polyadenylation Sites, Mediated by the RNA-Binding Protein Elavl3, Plays a Role in Differentiation of Inhibitory Neuronal Progenitors

(2019) Elena Grassi et al.   Frontiers in Cellular Neuroscience

Alternative cleavage and polyadenylation in health and disease

(2019) Andreas J. Gruber et al.   NATURE REVIEWS GENETICS

Cell-type-specific analysis of alternative polyadenylation using single-cell transcriptomics data

(2019) Eldad David Shulman et al.   NUCLEIC ACIDS RESEARCH

APAatlas: decoding alternative polyadenylation across human tissues

(2019) Wei Hong et al.   NUCLEIC ACIDS RESEARCH

Nudt21 Controls Cell Fate by Connecting Alternative Polyadenylation to Chromatin Signaling

(2018) Justin Brumbaugh et al.   CELL

Widespread intronic polyadenylation diversifies immune cell transcriptomes

(2018) Irtisha Singh et al.   Nature Communications

Alternative Polyadenylation Directs Tissue-Specific miRNA Targeting inCaenorhabditis elegansSomatic Tissues

(2017) Stephen M. Blazie et al.   GENETICS

UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy

(2017) Tom Smith et al.   GENOME RESEARCH

cTag-PAPERCLIP Reveals Alternative Polyadenylation Promotes Cell-Type Specific Protein Diversity and Shifts Araf Isoforms with Microglia Activation

(2017) Hun-Way Hwang et al.   NEURON

PolyA_DB 3 catalogs cleavage and polyadenylation sites identified by deep sequencing in multiple genomes

(2017) Ruijia Wang et al.   NUCLEIC ACIDS RESEARCH

OUP accepted manuscript

(2017)   NUCLEIC ACIDS RESEARCH

Massively parallel digital transcriptional profiling of single cells

(2017) Grace X. Y. Zheng et al.   Nature Communications

Alternative Polyadenylation Directs Tissue-Specific miRNA Targeting inCaenorhabditis elegansSomatic Tissues

(2017) Stephen M. Blazie et al.   GENETICS

Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP)

(2016) Eric L Van Nostrand et al.   NATURE METHODS

Alternative polyadenylation of mRNA precursors

(2016) Bin Tian et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A novel role of microRNA 17-5p in the modulation of circadian rhythm

(2016) Qian Gao et al.   Scientific Reports

RBFOX1 and RBFOX2 are dispensable in iPSCs and iPSC-derived neurons and do not contribute to neural-specific paternal UBE3A silencing

(2016) Pin-Fang Chen et al.   Scientific Reports

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Dietary lipids modulate the expression of miR-107, an miRNA that regulates the circadian system

(2015) Lidia Daimiel-Ruiz et al.   MOLECULAR NUTRITION & FOOD RESEARCH

Alternative 3′ UTRs act as scaffolds to regulate membrane protein localization

(2015) Binyamin D. Berkovits et al.   NATURE

Spatial reconstruction of single-cell gene expression data

(2015) Rahul Satija et al.   NATURE BIOTECHNOLOGY

Loss of MBNL Leads to Disruption of Developmentally Regulated Alternative Polyadenylation in RNA-Mediated Disease

(2014) Ranjan Batra et al.   MOLECULAR CELL

CFIm25 links alternative polyadenylation to glioblastoma tumour suppression

(2014) Chioniso P. Masamha et al.   NATURE

Full-length RNA-seq from single cells using Smart-seq2

(2014) Simone Picelli et al.   Nature Protocols

APADB: a database for alternative polyadenylation and microRNA regulation events

(2014) S. Muller et al.   Database-The Journal of Biological Databases and Curation

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Ubiquitously transcribed genes use alternative polyadenylation to achieve tissue-specific expression

(2013) S. Lianoglou et al.   GENES & DEVELOPMENT

Analysis of alternative cleavage and polyadenylation by 3′ region extraction and deep sequencing

(2012) Mainul Hoque et al.   NATURE METHODS

MiR-206-mediated dynamic mechanism of the mammalian circadian clock

(2011) Wei Zhou et al.   BMC Systems Biology

Mechanisms and Consequences of Alternative Polyadenylation

(2011) Dafne Campigli Di Giammartino et al.   MOLECULAR CELL

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

(2011) David M Garcia et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Regulation of mRNA Translation and Stability by microRNAs

(2010) Marc Robert Fabian et al.   Annual Review of Biochemistry

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Proliferating Cells Express mRNAs with Shortened 3' Untranslated Regions and Fewer MicroRNA Target Sites

(2008) R. Sandberg et al.   SCIENCE