Long Non-Coding RNA and Alternative Splicing Modulations in Parkinson's Leukocytes Identified by RNA Sequencing

Deep brain stimulation modulates nonsense-mediated RNA decay in Parkinson’s patients leukocytes

(2013) Lilach Soreq et al.   BMC GENOMICS

Insights into the evolution of Darwin’s finches from comparative analysis of the Geospiza magnirostris genome sequence

(2013) Chris M Rands et al.   BMC GENOMICS

RETRACTED ARTICLE: Gene expression profiling analysis of the putamen for the investigation of compensatory mechanisms in Parkinson’s disease

(2013) Lianbo Gao et al.   BMC Neurology

TCEA3 binds to TGF-beta receptor I and induces Smad-independent, JNK-dependent apoptosis in ovarian cancer cells

(2013) Young Cha et al.   CELLULAR SIGNALLING

Exploratory Bioinformatics Study of lncRNAs in Alzheimer’s Disease mRNA Sequences with Application to Drug Development

(2013) T. Holden et al.   Computational and Mathematical Methods in Medicine

Identification and function of long non-coding RNAs

(2013) Robert S. Young et al.   Essays in Biochemistry

The prognosis of CALM-AF10-positive adult T-cell acute lymphoblastic leukemias depends on the stage of maturation arrest

(2013) R. Ben Abdelali et al.   HAEMATOLOGICA

Blood RNA profiling in a large cohort of multiple sclerosis patients and healthy controls

(2013) Dorothee Nickles et al.   HUMAN MOLECULAR GENETICS

Two Phases of Inflammatory Mediator Production Defined by the Study of IRAK2 and IRAK1 Knock-in Mice

(2013) E. Pauls et al.   JOURNAL OF IMMUNOLOGY

Predicting long non-coding RNAs using RNA sequencing

(2013) Nicholas E. Ilott et al.   METHODS

Mutations in prion-like domains in hnRNPA2B1 and hnRNPA1 cause multisystem proteinopathy and ALS

(2013) Hong Joo Kim et al.   NATURE

Systematic Transcriptome Wide Analysis of lncRNA-miRNA Interactions

(2013) Saakshi Jalali et al.   PLoS One

Dynamic Proteomics of Nucleus Accumbens in Response to Acute Psychological Stress in Environmentally Enriched and Isolated Rats

(2013) Xiuzhen Fan et al.   PLoS One

Alteration in Abundance and Compartmentalization of Inflammation-Related miRNAs in Plasma After Intracerebral Hemorrhage

(2013) Dong Guo et al.   STROKE

SIRT3 Reverses Aging-Associated Degeneration

(2013) Katharine Brown et al.   Cell Reports

Small RNA sequencing-microarray analyses in Parkinson leukocytes reveal deep brain stimulation-induced splicing changes that classify brain region transcriptomes

(2013) Lilach Soreq et al.   Frontiers in Molecular Neuroscience

Parkin- and PINK1-Dependent Mitophagy in Neurons: Will the Real Pathway Please Stand Up?

(2013) Karl Grenier et al.   Frontiers in Neurology

Protein degradation and iron homeostasis

(2012) Joel W. Thompson et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

GO-Elite: a flexible solution for pathway and ontology over-representation

(2012) Alexander C. Zambon et al.   BIOINFORMATICS

A Long ncRNA Links Copy Number Variation to a Polycomb/Trithorax Epigenetic Switch in FSHD Muscular Dystrophy

(2012) Daphne S. Cabianca et al.   CELL

Cholinergic-associated loss of hnRNP-A/B in Alzheimer's disease impairs cortical splicing and cognitive function in mice

(2012) Amit Berson et al.   EMBO Molecular Medicine

Combining RT-PCR-seq and RNA-seq to catalog all genic elements encoded in the human genome

(2012) C. Howald et al.   GENOME RESEARCH

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

GENCODE: The reference human genome annotation for The ENCODE Project

(2012) J. Harrow et al.   GENOME RESEARCH

DJ-1 Expression Modulates Astrocyte-Mediated Protection Against Neuronal Oxidative Stress

(2012) Steven J. Mullett et al.   JOURNAL OF MOLECULAR NEUROSCIENCE

Aberrant Expression of Long Noncoding RNAs in Autistic Brain

(2012) Mark N. Ziats et al.   JOURNAL OF MOLECULAR NEUROSCIENCE

An Activity-Regulated microRNA, miR-188, Controls Dendritic Plasticity and Synaptic Transmission by Downregulating Neuropilin-2

(2012) K. Lee et al.   JOURNAL OF NEUROSCIENCE

Modular regulatory principles of large non-coding RNAs

(2012) Mitchell Guttman et al.   NATURE

Emerging roles of non-coding RNAs in brain evolution, development, plasticity and disease

(2012) Irfan A. Qureshi et al.   NATURE REVIEWS NEUROSCIENCE

MicroRNAs in Parkinson's disease

(2012) M. Maral Mouradian   NEUROBIOLOGY OF DISEASE

LNCipedia: a database for annotated human lncRNA transcript sequences and structures

(2012) Pieter-Jan Volders et al.   NUCLEIC ACIDS RESEARCH

The novel long non-coding RNA CRG regulates Drosophila locomotor behavior

(2012) Meixia Li et al.   NUCLEIC ACIDS RESEARCH

ArrayExpress update—trends in database growth and links to data analysis tools

(2012) Gabriella Rustici et al.   NUCLEIC ACIDS RESEARCH

Emerging functional and mechanistic paradigms of mammalian long non-coding RNAs

(2012) V. A. Moran et al.   NUCLEIC ACIDS RESEARCH

Comparison of Peripheral and Central Schizophrenia Biomarker Profiles

(2012) Laura W. Harris et al.   PLoS One

Macro lncRNAs

(2012) Philipp M. Guenzl et al.   RNA Biology

Epigenetic Regulation by Long Noncoding RNAs

(2012) J. T. Lee   SCIENCE

Pharmacological Rescue of Mitochondrial Deficits in iPSC-Derived Neural Cells from Patients with Familial Parkinson's Disease

(2012) O. Cooper et al.   Science Translational Medicine

Alternative α-synuclein transcript usage as a convergent mechanism in Parkinson's disease pathology

(2012) Herve Rhinn et al.   Nature Communications

Position-dependent FUS-RNA interactions regulate alternative splicing events and transcriptions

(2012) Shinsuke Ishigaki et al.   Scientific Reports

Integrative Genome-wide Analysis Reveals Cooperative Regulation of Alternative Splicing by hnRNP Proteins

(2012) Stephanie C. Huelga et al.   Cell Reports

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

(2011) Leonardo Salmena et al.   CELL

MicroRNA profiling of Parkinson's disease brains identifies early downregulation of miR-34b/c which modulate mitochondrial function

(2011) Elena Miñones-Moyano et al.   HUMAN MOLECULAR GENETICS

Collybistin splice variants differentially interact with gephyrin and Cdc42 to regulate gephyrin clustering at GABAergic synapses

(2011) S. K. Tyagarajan et al.   JOURNAL OF CELL SCIENCE

Deep brain stimulation induces rapidly reversible transcript changes in Parkinson's leucocytes

(2011) Lilach Soreq et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

MicroRNAs in Parkinson's disease

(2011) Maged M. Harraz et al.   JOURNAL OF CHEMICAL NEUROANATOMY

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

Long non-coding RNAs in Huntington's disease neurodegeneration

(2011) Rory Johnson   NEUROBIOLOGY OF DISEASE

Exon Arrays Reveal Alternative Splicing Aberrations in Parkinson’s Disease Leukocytes

(2011) Lilach Soreq et al.   Neurodegenerative Diseases

NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy

(2011) K. D. Pruitt et al.   NUCLEIC ACIDS RESEARCH

MicroRNAs in neurodegenerative diseases and their therapeutic potential

(2011) Eunsung Junn et al.   PHARMACOLOGY & THERAPEUTICS

RNA-Seq of Human Neurons Derived from iPS Cells Reveals Candidate Long Non-Coding RNAs Involved in Neurogenesis and Neuropsychiatric Disorders

(2011) Mingyan Lin et al.   PLoS One

Long noncoding RNAs and human disease

(2011) Orly Wapinski et al.   TRENDS IN CELL BIOLOGY

Prediction of RNA secondary structure by maximizing pseudo-expected accuracy

(2010) Michiaki Hamada et al.   BMC BIOINFORMATICS

Post-transcriptional Regulation of α-Synuclein Expression by mir-7 and mir-153

(2010) Epaminondas Doxakis   JOURNAL OF BIOLOGICAL CHEMISTRY

Parkin Directly Modulates 26S Proteasome Activity

(2010) J. W. Um et al.   JOURNAL OF NEUROSCIENCE

The Nuclear-Retained Noncoding RNA MALAT1 Regulates Alternative Splicing by Modulating SR Splicing Factor Phosphorylation

(2010) Vidisha Tripathi et al.   MOLECULAR CELL

Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis

(2010) Rajnish A. Gupta et al.   NATURE

Oxidant stress evoked by pacemaking in dopaminergic neurons is attenuated by DJ-1

(2010) Jaime N. Guzman et al.   NATURE

Ab initio reconstruction of cell type–specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs

(2010) Mitchell Guttman et al.   NATURE BIOTECHNOLOGY

Molecular and clinical prodrome of Parkinson disease: implications for treatment

(2010) Anthony H. V. Schapira et al.   Nature Reviews Neurology

iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

(2010) Julian König et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

genenames.org: the HGNC resources in 2011

(2010) R. L. Seal et al.   NUCLEIC ACIDS RESEARCH

Detection of splice junctions from paired-end RNA-seq data by SpliceMap

(2010) K. F. Au et al.   NUCLEIC ACIDS RESEARCH

HMMSplicer: A Tool for Efficient and Sensitive Discovery of Known and Novel Splice Junctions in RNA-Seq Data

(2010) Michelle T. Dimon et al.   PLoS One

Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation

(2010) N. Salomonis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2010) Mark D Robinson et al.   GENOME BIOLOGY

ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks

(2009) Gabriela Bindea et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

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

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

Long noncoding RNAs: functional surprises from the RNA world

(2009) J. E. Wilusz et al.   GENES & DEVELOPMENT

Heterogeneous breakpoints in patients with acute lymphoblastic leukemia and the dic(9;20)(p11 13;q11) show recurrent involvement of genes at 20q11.21

(2009) Q. An et al.   HAEMATOLOGICA

MicroRNA-125b Promotes Neuronal Differentiation in Human Cells by Repressing Multiple Targets

(2009) M. T. N. Le et al.   MOLECULAR AND CELLULAR BIOLOGY

CENTROIDFOLD: a web server for RNA secondary structure prediction

(2009) K. Sato et al.   NUCLEIC ACIDS RESEARCH

FIRMA: a method for detection of alternative splicing from exon array data

(2008) E. Purdom et al.   BIOINFORMATICS

RNA STRAND: The RNA Secondary Structure and Statistical Analysis Database

(2008) Mirela Andronescu et al.   BMC BIOINFORMATICS

Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts

(2008) J. R. Sanford et al.   GENOME RESEARCH

Advanced microarray analysis highlights modified neuro-immune signaling in nucleated blood cells from Parkinson's disease patients

(2008) Lilach Soreq et al.   JOURNAL OF NEUROIMMUNOLOGY

Mosaic serine proteases in the mammalian central nervous system

(2007) Shinichi Mitsui   Frontiers in Bioscience-Landmark

Disease-modifying drugs and Parkinson's disease

(2007) Hervé Allain et al.   PROGRESS IN NEUROBIOLOGY