Transcriptome analysis demonstrates that long noncoding RNA is involved in the hypoxic response in Larimichthys crocea

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(2017) Karolina Kwasek et al.   FISH PHYSIOLOGY AND BIOCHEMISTRY

Dysregulation of long non-coding RNAs in mouse models of localization-related epilepsy

(2015) Doo Young Lee et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

ENViz: a Cytoscape App for integrated statistical analysis and visualization of sample-matched data with multiple data types

(2015) I. Steinfeld et al.   BIOINFORMATICS

The Long Noncoding RNA lncTCF7 Promotes Self-Renewal of Human Liver Cancer Stem Cells through Activation of Wnt Signaling

(2015) Yanying Wang et al.   Cell Stem Cell

Opposing Roles for the lncRNA Haunt and Its Genomic Locus in Regulating HOXA Gene Activation during Embryonic Stem Cell Differentiation

(2015) Yafei Yin et al.   Cell Stem Cell

Cancer metabolism and the Warburg effect: the role of HIF-1 and PI3K

(2015) Rupert Courtnay et al.   MOLECULAR BIOLOGY REPORTS

DeCoN: Genome-wide Analysis of In Vivo Transcriptional Dynamics during Pyramidal Neuron Fate Selection in Neocortex

(2015) Bradley J. Molyneaux et al.   NEURON

Spatiotemporal expression and transcriptional perturbations by long noncoding RNAs in the mouse brain

(2015) Loyal A. Goff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Head-to-head antisense transcription and R-loop formation promotes transcriptional activation

(2015) Raquel Boque-Sastre et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA transcribed from a distal enhancer is required for activating the chromatin at the promoter of the gonadotropin α-subunit gene

(2015) Lilach Pnueli et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Epigenetic silencing of Oct4 by a complex containing SUV39H1 and Oct4 pseudogene lncRNA

(2015) Michele Scarola et al.   Nature Communications

Genome Sequencing of the Perciform Fish Larimichthys crocea Provides Insights into Molecular and Genetic Mechanisms of Stress Adaptation

(2015) Jingqun Ao et al.   PLoS Genetics

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

TAK1-binding proteins (TAB1 and TAB2) in grass carp (Ctenopharyngodon idella): Identification, characterization, and expression analysis after infection with Ichthyophthirius multifiliis

(2014) Fei Zhao et al.   FISH & SHELLFISH IMMUNOLOGY

Cross-talking noncoding RNAs contribute to cell-specific neurodegeneration in SCA7

(2014) Jennifer Y Tan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Rfam 12.0: updates to the RNA families database

(2014) Eric P. Nawrocki et al.   NUCLEIC ACIDS RESEARCH

Gene regulation by the act of long non-coding RNA transcription

(2013) Aleksandra E Kornienko et al.   BMC BIOLOGY

Roles of long noncoding RNAs in brain development, functional diversification and neurodegenerative diseases

(2013) Ping Wu et al.   BRAIN RESEARCH BULLETIN

Developmental Changes in the Transcriptome of Human Cerebral Cortex Tissue: Long Noncoding RNA Transcripts

(2013) Leonard Lipovich et al.   CEREBRAL CORTEX

Targeting long non-coding RNAs in cancers: Progress and prospects

(2013) Chi Han Li et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

A pseudogene long-noncoding-RNA network regulates PTEN transcription and translation in human cells

(2013) Per Johnsson et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Long Non-coding RNAs: Novel Targets for Nervous System Disease Diagnosis and Therapy

(2013) Irfan A. Qureshi et al.   Neurotherapeutics

Long Non-Coding RNA Expression Profiling of Mouse Testis during Postnatal Development

(2013) Jin Sun et al.   PLoS One

Bidirectional regulation between WDR83 and its natural antisense transcript DHPS in gastric cancer

(2012) Wen-Yu Su et al.   CELL RESEARCH

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

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

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

(2011) Igor Ulitsky et al.   CELL

HIF-1α is critical for hypoxia-mediated maintenance of glioblastoma stem cells by activating Notch signaling pathway

(2011) L Qiang et al.   CELL DEATH AND DIFFERENTIATION

Genome-wide impact of endogenous antisense transcripts in eukaryotes

(2011) Koji Numata   Frontiers in Bioscience-Landmark

HIF-1α mRNA levels in Eurasian perch (Perca fluviatilis) exposed to acute and chronic hypoxia

(2011) Simona Rimoldi et al.   MOLECULAR BIOLOGY REPORTS

A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression

(2011) Kevin C. Wang et al.   NATURE

HIF-1α and -2α genes in a hypoxia-sensitive teleost species Megalobrama amblycephala: cDNA cloning, expression and different responses to hypoxia

(2010) Rui-Jie Shen et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY B-BIOCHEMISTRY & MOLECULAR BIOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

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

Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes

(2010) M.-C. Tsai et al.   SCIENCE

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression

(2009) Ahmad M. Khalil et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Proteasomal Regulation of the Hypoxic Response Modulates Aging in C. elegans

(2009) R. Mehta et al.   SCIENCE

HIF-1 Modulates Dietary Restriction-Mediated Lifespan Extension via IRE-1 in Caenorhabditis elegans

(2009) Di Chen et al.   PLoS Genetics

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Oxygen Sensing by Metazoans: The Central Role of the HIF Hydroxylase Pathway

(2008) William G. Kaelin et al.   MOLECULAR CELL

Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs

(2008) Kouji Hirota et al.   NATURE