LncRNA VEAL2 regulates PRKCB2 to modulate endothelial permeability in diabetic retinopathy

Angiogenesis Analyzer for ImageJ — A comparative morphometric analysis of “Endothelial Tube Formation Assay” and “Fibrin Bead Assay”

(2020) Gilles Carpentier et al.   Scientific Reports

Strategies for Genetic Inactivation of Long Noncoding RNAs in Zebrafish

(2019) Perrine Lavalou et al.   RNA

The lncRNA Locus Handsdown Regulates Cardiac Gene Programs and Is Essential for Early Mouse Development

(2019) Nicole Ritter et al.   DEVELOPMENTAL CELL

Functional Conservation of lncRNA JPX despite Sequence and Structural Divergence

(2019) Heather M. Karner et al.   JOURNAL OF MOLECULAR BIOLOGY

Conserved Pseudoknots in lncRNA MEG3 Are Essential for Stimulation of the p53 Pathway

(2019) Tina Uroda et al.   MOLECULAR CELL

Functional Classification and Experimental Dissection of Long Noncoding RNAs

(2018) Florian Kopp et al.   CELL

Blood–brain barrier breakdown in Alzheimer disease and other neurodegenerative disorders

(2018) Melanie D. Sweeney et al.   Nature Reviews Neurology

The lncRNA GATA6-AS epigenetically regulates endothelial gene expression via interaction with LOXL2

(2018) Philipp Neumann et al.   Nature Communications

Enhancer-associated long non-coding RNA LEENE regulates endothelial nitric oxide synthase and endothelial function

(2018) Yifei Miao et al.   Nature Communications

Long Non-coding RNAs in Endothelial Biology

(2018) Tyler Weirick et al.   Frontiers in Physiology

PANTHER version 14: more genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools

(2018) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

HDOCK: a web server for protein–protein and protein–DNA/RNA docking based on a hybrid strategy

(2017) Yumeng Yan et al.   NUCLEIC ACIDS RESEARCH

Exploring the RNA landscape of endothelial exosomes

(2017) Jennifer Pérez-Boza et al.   RNA

Angiogenesis in metabolic-vascular disease

(2017) Georg Breier et al.   THROMBOSIS AND HAEMOSTASIS

Vascular endothelium – Gatekeeper of vessel health

(2016) Paul A. Cahill et al.   ATHEROSCLEROSIS

Whole exome sequencing identifies lncRNAGAS8-AS1andLPAR4as novel papillary thyroid carcinoma driver alternations

(2016) Wenting Pan et al.   HUMAN MOLECULAR GENETICS

A Long Noncoding RNA Regulates Sister Chromatid Cohesion

(2016) Francesco P. Marchese et al.   MOLECULAR CELL

A G-Rich Motif in the lncRNA Braveheart Interacts with a Zinc-Finger Transcription Factor to Specify the Cardiovascular Lineage

(2016) Zhihong Xue et al.   MOLECULAR CELL

A Role for the Long Noncoding RNA SENCR in Commitment and Function of Endothelial Cells

(2016) Mounia Boulberdaa et al.   MOLECULAR THERAPY

LncRNA NBR2 engages a metabolic checkpoint by regulating AMPK under energy stress

(2016) Xiaowen Liu et al.   NATURE CELL BIOLOGY

CHARMM36m: an improved force field for folded and intrinsically disordered proteins

(2016) Jing Huang et al.   NATURE METHODS

Non-coding RNAs as drug targets

(2016) Masayuki Matsui et al.   NATURE REVIEWS DRUG DISCOVERY

Mechanisms and regulation of endothelial VEGF receptor signalling

(2016) Michael Simons et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Functional conservation of the lncRNA NEAT1 in the ancestrally diverged marsupial lineage: Evidence for NEAT1 expression and associated paraspeckle assembly during late gestation in the opossumMonodelphis domestica

(2016) Guillaume Cornelis et al.   RNA Biology

A Cytoplasmic NF-κB Interacting Long Noncoding RNA Blocks IκB Phosphorylation and Suppresses Breast Cancer Metastasis

(2015) Bodu Liu et al.   CANCER CELL

PKC-β activation inhibits IL-18-binding protein causing endothelial dysfunction and diabetic atherosclerosis

(2015) Marie-Claude Durpès et al.   CARDIOVASCULAR RESEARCH

lncRNA-MIAT Regulates Microvascular Dysfunction by Functioning as a Competing Endogenous RNANovelty and Significance

(2015) Biao Yan et al.   CIRCULATION RESEARCH

The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3

(2015) Colleen A. McHugh et al.   NATURE

The Phyre2 web portal for protein modeling, prediction and analysis

(2015) Lawrence A Kelley et al.   Nature Protocols

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Elavl1a regulates zebrafish erythropoiesis via posttranscriptional control of gata1

(2014) X. Li et al.   BLOOD

Long Noncoding RNA MALAT1 Regulates Endothelial Cell Function and Vessel Growth

(2014) Katharina M. Michalik et al.   CIRCULATION RESEARCH

An online bioinformatics tool predicts zinc finger and TALE nuclease off-target cleavage

(2014) Eli J. Fine et al.   NUCLEIC ACIDS RESEARCH

A knowledge-based scoring function for protein-RNA interactions derived from a statistical mechanics-based iterative method

(2014) Sheng-You Huang et al.   NUCLEIC ACIDS RESEARCH

Dynamic Expression of Long Non-Coding RNAs (lncRNAs) in Adult Zebrafish

(2014) Kriti Kaushik et al.   PLoS One

Enzastaurin, an inhibitor of PKCβ, Enhances Antiangiogenic Effects and Cytotoxicity of Radiation against Endothelial Cells

(2014) Aaron C. Spalding et al.   Translational Oncology

Evolutionary conservation of long non-coding RNAs; sequence, structure, function

(2013) Per Johnsson et al.   BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS

Mojo Hand, a TALEN design tool for genome editing applications

(2013) Kevin L Neff et al.   BMC BIOINFORMATICS

Ribosome profiling reveals resemblance between long non-coding RNAs and 5′ leaders of coding RNAs

(2013) Guo-Liang Chew et al.   DEVELOPMENT

Efficient identification of TALEN-mediated genome modifications using heteroduplex mobility assays

(2013) Satoshi Ota et al.   GENES TO CELLS

CPAT: Coding-Potential Assessment Tool using an alignment-free logistic regression model

(2013) Liguo Wang et al.   NUCLEIC ACIDS RESEARCH

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

STIM1 Controls Endothelial Barrier Function Independently of Orai1 and Ca2+ Entry

(2013) A. V. Shinde et al.   Science Signaling

Multiple knockout mouse models reveal lincRNAs are required for life and brain development

(2013) Martin Sauvageau et al.   eLife

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Transcript Dynamics of Proinflammatory Genes Revealed by Sequence Analysis of Subcellular RNA Fractions

(2012) Dev M. Bhatt et al.   CELL

Incorporating RNA-seq data into the zebrafish Ensembl genebuild

(2012) J. E. Collins et al.   GENOME RESEARCH

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

(2012) Cole Trapnell et al.   Nature Protocols

Reverse Genetics Screen in Zebrafish Identifies a Role of miR-142a-3p in Vascular Development and Integrity

(2012) Mukesh Kumar Lalwani et al.   PLoS One

PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions

(2011) M. F. Lin et al.   BIOINFORMATICS

Conserved Function of lincRNAs in Vertebrate Embryonic Development despite Rapid Sequence Evolution

(2011) Igor Ulitsky et al.   CELL

Crystal Structure and Allosteric Activation of Protein Kinase C βII

(2011) Thomas A. Leonard et al.   CELL

Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis

(2011) A. Pauli et al.   GENOME RESEARCH

Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting

(2011) Tomas Cermak et al.   NUCLEIC ACIDS RESEARCH

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

(2010) Murray P Cox et al.   BMC BIOINFORMATICS

A PKC-β inhibitor treatment reverses cardiac microvascular barrier dysfunction in diabetic rats

(2010) Liping Wei et al.   MICROVASCULAR RESEARCH

CHARMM general force field: A force field for drug-like molecules compatible with the CHARMM all-atom additive biological force fields

(2009) K. Vanommeslaeghe et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Stim1 and Orai1 Mediate CRAC Currents and Store-Operated Calcium Entry Important for Endothelial Cell Proliferation

(2008) Iskandar F. Abdullaev et al.   CIRCULATION RESEARCH

The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data

(2008) Marc Parisien et al.   NATURE

The Vienna RNA Websuite

(2008) A. R. Gruber et al.   NUCLEIC ACIDS RESEARCH

High-resolution in situ hybridization to whole-mount zebrafish embryos

(2007) Christine Thisse et al.   Nature Protocols