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References from Non-coding RNA: a new frontier in regulatory biology. Local targets link to admitted publications; unresolved targets remain external evidence.
Initial sequencing and analysis of the human genome
10.1038/35057062 · 2001 · External reference
An integrated encyclopedia of DNA elements in the human genome
10.1038/nature11247 · 2012 · External reference
Non-coding RNA genes and the modern RNA world
10.1038/35103511 · 2001 · External reference
Ribosome profiling provides evidence that large noncoding RNAs do not encode proteins
10.1016/j.cell.2013.06.009 · 2013 · External reference
Long noncoding RNAs are rarely translated in two human cell lines
10.1101/gr.134767.111 · 2012 · External reference
The long arm of long noncoding RNAs: roles as sensors regulating gene transcriptional programs
10.1101/cshperspect.a003756 · 2011 · External reference
Genome regulation by long noncoding RNAs
10.1146/annurev-biochem-051410-092902 · 2012 · External reference
Long noncoding RNAs: fresh perspectives into the RNA world
10.1016/j.tibs.2013.10.002 · 2014 · External reference
Non-coding RNAs in human disease
10.1038/nrg3074 · 2011 · External reference
Long noncoding RNAs: cellular address codes in development and disease
10.1016/j.cell.2013.02.012 · 2013 · External reference
Long non-coding RNAs: new players in cell differentiation and development
10.1038/nrg3606 · 2014 · External reference
Finding the end: recruitment of telomerase to telomeres
10.1038/nrm3505 · 2013 · External reference
Small RNAs as guardians of the genome
10.1016/j.cell.2009.01.045 · 2009 · External reference
Regulation of mRNA translation and stability by microRNAs
10.1146/annurev-biochem-060308-103103 · 2010 · External reference
The biogenesis and function of PIWI proteins and piRNAs: progress and prospect
10.1146/annurev.cellbio.24.110707.175327 · 2009 · External reference
Beyond transposons: the epigenetic and somatic functions of the Piwi-piRNA mechanism
10.1016/j.ceb.2013.01.010 · 2013 · External reference
MicroRNAs and their targets: recognition, regulation and an emerging reciprocal relationship
10.1038/nrg3162 · 2012 · External reference
The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression
10.1101/gr.132159.111 · 2012 · External reference
Rfam 11.0: 10 years of RNA families
10.1093/nar/gks1005 · 2013 · External reference
Rev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription
10.1038/nature12209 · 2013 · External reference
Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals
10.1038/nature07672 · 2009 · External reference
Transcriptional noise and the fidelity of initiation by RNA polymerase II
10.1038/nsmb0207-103 · 2007 · External reference
RNA evolution and the origins of life
10.1038/338217a0 · 1989 · External reference
The RNA world
10.1038/319618a0 · 1986 · External reference
RNase P: interface of the RNA and protein worlds
10.1016/j.tibs.2006.04.007 · 2006 · External reference
The chemical repertoire of natural ribozymes
10.1038/418222a · 2002 · External reference
Continuous in vitro evolution of catalytic function
10.1126/science.276.5312.614 · 1997 · External reference
RNA-catalyzed RNA polymerization: accurate and general RNA-templated primer extension
10.1126/science.1060786 · 2001 · External reference
The involvement of RNA in ribosome function
10.1038/418229a · 2002 · External reference
Crystal structure of Prp8 reveals active site cavity of the spliceosome
10.1038/nature11843 · 2013 · External reference
Small RNA sorting: matchmaking for Argonautes
10.1038/nrg2916 · 2011 · External reference
Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding
10.1016/j.cell.2013.03.043 · 2013 · External reference
CDD: conserved domains and protein three-dimensional structure
10.1093/nar/gks1243 · 2013 · External reference
The Pfam protein families database
10.1093/nar/gkr1065 · 2012 · External reference
DUFs: families in search of function
10.1107/s1744309110001685 · 2010 · External reference
Regulation of polymerase II transcription by 7SK snRNA: two distinct RNA elements direct P-TEFb and HEXIM1 binding
10.1128/mcb.26.2.630-642.2006 · 2006 · External reference
Long noncoding RNA as modular scaffold of histone modification complexes
10.1126/science.1192002 · 2010 · External reference
Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes
10.1101/gad.590910 · 2010 · External reference
A steroid receptor coactivator, SRA, functions as an RNA and is present in an SRC-1 complex
10.1016/s0092-8674(00)80711-4 · 1999 · External reference
Long noncoding RNAs with enhancer-like function in human cells
10.1016/j.cell.2010.09.001 · 2010 · External reference
Antisense transcription controls cell fate in Saccharomyces cerevisiae
10.1016/j.cell.2006.09.038 · 2006 · External reference
Transcriptional interferences in cis natural antisense transcripts of humans and mice
10.1534/genetics.106.069484 · 2007 · External reference
Bedrock displacements in Greenland manifest ice mass variations, climate cycles and climate change
10.1073/pnas.1204664109 · 2012 · External reference
Human Alu RNA is a modular transacting repressor of mRNA transcription during heat shock
10.1016/j.molcel.2007.12.013 · 2008 · External reference
Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters
10.1038/ng.848 · 2011 · External reference
Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation
10.1038/nature12210 · 2013 · External reference
lncRNA-dependent mechanisms of androgen-receptor-regulated gene activation programs
10.1038/nature12451 · 2013 · External reference
Mechanism of protein translocation across the endoplasmic reticulum
1982 · External reference
Repression of the human dihydrofolate reductase gene by a non-coding interfering transcript
10.1038/nature05519 · 2007 · External reference
Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription
10.1038/nature06992 · 2008 · External reference
A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression
10.1038/nature09819 · 2011 · External reference
lincRNAs act in the circuitry controlling pluripotency and differentiation
10.1038/nature10398 · 2011 · External reference
Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA
10.1038/nature10006 · 2011 · External reference
Widespread transcription at neuronal activity-regulated enhancers
10.1038/nature09033 · 2010 · External reference
eRNAs are required for p53-dependent enhancer activity and gene transcription
10.1016/j.molcel.2012.11.021 · 2013 · External reference
Activating RNAs associate with Mediator to enhance chromatin architecture and transcription
10.1038/nature11884 · 2013 · External reference
Noncoding RNAs of trithorax response elements recruit Drosophila Ash1 to Ultrabithorax
10.1126/science.1117705 · 2006 · External reference
Divergent transcription from active promoters
10.1126/science.1162253 · 2008 · External reference
Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters
10.1126/science.1162228 · 2008 · External reference
Promoter directionality is controlled by U1 snRNP and polyadenylation signals
10.1038/nature12349 · 2013 · External reference
U1 snRNP protects pre-mRNAs from premature cleavage and polyadenylation
10.1038/nature09479 · 2010 · External reference
Promoter-proximal pausing of RNA polymerase II: emerging roles in metazoans
10.1038/nrg3293 · 2012 · External reference
RNA polymerase II elongation control
10.1146/annurev-biochem-052610-095910 · 2012 · External reference
SR proteins collaborate with 7SK and promoter-associated nascent RNA to release paused polymerase
10.1016/j.cell.2013.04.028 · 2013 · External reference
PRC2 binds active promoters and contacts nascent RNAs in embryonic stem cells
10.1038/nsmb.2700 · 2013 · External reference
A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language?
10.1016/j.cell.2011.07.014 · 2011 · External reference
A coding-independent function of gene and pseudogene mRNAs regulates tumour biology
10.1038/nature09144 · 2010 · External reference
lincRNAs: genomics, evolution, and mechanisms
10.1016/j.cell.2013.06.020 · 2013 · External reference
The imprinted H19 lncRNA antagonizes let-7 microRNAs
10.1016/j.molcel.2013.08.027 · 2013 · External reference
Noncoding RNA gas5 is a growth arrest- and starvation-associated repressor of the glucocorticoid receptor
10.1126/scisignal.2000568 · 2010 · External reference
Stable intronic sequence RNA (sisRNA), a new class of noncoding RNA from the oocyte nucleus of Xenopus tropicalis
10.1101/gad.202184.112 · 2012 · External reference
Natural RNA circles function as efficient microRNA sponges
10.1038/nature11993 · 2013 · External reference
Circular RNAs are a large class of animal RNAs with regulatory potency
10.1038/nature11928 · 2013 · External reference
Circular intronic long noncoding RNAs
10.1016/j.molcel.2013.08.017 · 2013 · External reference
Long noncoding RNAs with snoRNA ends
10.1016/j.molcel.2012.07.033 · 2012 · External reference
Formation of triple-helical structures by the 3′-end sequences of MALAT1 and MENβ noncoding RNAs
10.1073/pnas.1217338109 · 2012 · External reference
A triple helix stabilizes the 3′ ends of long noncoding RNAs that lack poly(A) tails
10.1101/gad.204438.112 · 2012 · External reference
Poly(A) tail recognition by a viral RNA element through assembly of a triple helix
10.1126/science.1195858 · 2010 · External reference
An unconventional role for miRNA: let-7 activates Toll-like receptor 7 and causes neurodegeneration
10.1038/nn.3113 · 2012 · External reference
piRNA-triggered MIWI ubiquitination and removal by APC/C in late spermatogenesis
10.1016/j.devcel.2012.12.006 · 2013 · External reference
Paraspeckles: nuclear bodies built on long noncoding RNA
10.1083/jcb.200906113 · 2009 · External reference
Paraspeckles: a novel nuclear domain
10.1016/s0960-9822(01)00632-7 · 2002 · External reference
Long noncoding RNA NEAT1-dependent SFPQ relocation from promoter region to paraspeckle mediates IL8 expression upon immune stimuli
10.1016/j.molcel.2014.01.009 · 2014 · External reference
Alternative 3′-end processing of long noncoding RNA initiates construction of nuclear paraspeckles
10.1038/emboj.2012.251 · 2012 · External reference
Regulating gene expression through RNA nuclear retention
10.1016/j.cell.2005.08.033 · 2005 · External reference
Long noncoding RNAs in mammalian cells: what, where, and why?
10.1002/wrna.5 · 2010 · External reference
Altered nuclear retention of mRNAs containing inverted repeats in human embryonic stem cells: functional role of a nuclear noncoding RNA
10.1016/j.molcel.2009.06.027 · 2009 · External reference
An architectural role for a nuclear noncoding RNA: NEAT1 RNA is essential for the structure of paraspeckles
10.1016/j.molcel.2009.01.026 · 2009 · External reference
Direct visualization of the co-transcriptional assembly of a nuclear body by noncoding RNAs
10.1038/ncb2140 · 2011 · External reference
Factor required for mammalian spliceosome assembly is localized to discrete regions in the nucleus
10.1038/343437a0 · 1990 · External reference
Nuclear speckles
10.1101/cshperspect.a000646 · 2011 · External reference
Biogenesis of nuclear bodies
10.1101/cshperspect.a000711 · 2010 · External reference
SR proteins in vertical integration of gene expression from transcription to RNA processing to translation
10.1016/j.molcel.2009.06.016 · 2009 · External reference
3′ end processing of a long nuclear-retained noncoding RNA yields a tRNA-like cytoplasmic RNA
10.1016/j.cell.2008.10.012 · 2008 · External reference
The lncRNA Malat1 is dispensable for mouse development but its transcription plays a cis-regulatory role in the adult
10.1016/j.celrep.2012.06.003 · 2012 · External reference
The nuclear-retained noncoding RNA MALAT1 regulates alternative splicing by modulating SR splicing factor phosphorylation
10.1016/j.molcel.2010.08.011 · 2010 · External reference
A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains
10.1186/1471-2164-8-39 · 2007 · External reference
The noncoding RNA MALAT1 is a critical regulator of the metastasis phenotype of lung cancer cells
10.1158/0008-5472.can-12-2850 · 2013 · External reference
Paraspeckles are subpopulation-specific nuclear bodies that are not essential in mice
10.1083/jcb.201011110 · 2011 · External reference
Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression
10.1073/pnas.0904715106 · 2009 · External reference
ncRNA- and Pc2 methylation-dependent gene relocation between nuclear structures mediates gene activation programs
10.1016/j.cell.2011.08.054 · 2011 · External reference
Stable C0T-1 repeat RNA is abundant and is associated with euchromatic interphase chromosomes
10.1016/j.cell.2014.01.042 · 2014 · External reference
Secreted monocytic miR-150 enhances targeted endothelial cell migration
10.1016/j.molcel.2010.06.010 · 2010 · External reference
Trash or Treasure: extracellular microRNAs and cell-to-cell communication
10.3389/fgene.2013.00173 · 2013 · External reference
MicroRNAs are transported in plasma and delivered to recipient cells by high-density lipoproteins
10.1038/ncb2210 · 2011 · External reference
Circulating microRNAs as biomarkers for disease staging in multiple sclerosis
10.1002/ana.23880 · 2013 · External reference
A microRNA regulon that mediates endothelial recruitment and metastasis by cancer cells
10.1038/nature10661 · 2012 · External reference
MicroRNAs bind to Toll-like receptors to induce prometastatic inflammatory response
10.1073/pnas.1209414109 · 2012 · External reference
Exogenous plant MIR168a specifically targets mammalian LDLRAP1: evidence of cross-kingdom regulation by microRNA
10.1038/cr.2011.158 · 2012 · External reference
Lack of detectable oral bioavailability of plant microRNAs after feeding in mice
10.1038/nbt.2737 · 2013 · External reference
A gene from the region of the human X inactivation centre is expressed exclusively from the inactive X chromosome
10.1038/349038a0 · 1991 · External reference
X-inactivation, imprinting, and long noncoding RNAs in health and disease
10.1016/j.cell.2013.02.016 · 2013 · External reference
Control of Cdc28 CDK1 by a stress-induced lncRNA
10.1016/j.molcel.2014.01.006 · 2014 · External reference
Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells
10.1038/ng.710 · 2010 · External reference
Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation
10.1101/gr.078378.108 · 2008 · External reference
Control of somatic tissue differentiation by the long non-coding RNA TINCR
10.1038/nature11661 · 2013 · External reference
The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse
10.1016/j.devcel.2012.12.012 · 2013 · External reference
Braveheart, a long noncoding RNA required for cardiovascular lineage commitment
10.1016/j.cell.2013.01.003 · 2013 · External reference
Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis
10.1038/nature08975 · 2010 · External reference
Xist RNA is a potent suppressor of hematologic cancer in mice
10.1016/j.cell.2013.01.034 · 2013 · External reference
Mapping and quantifying mammalian transcriptomes by RNA-Seq
10.1038/nmeth.1226 · 2008 · External reference
Multiplex analysis of polyA-linked sequences (MAPS): an RNA-seq strategy to profile poly(A+) RNA
10.1007/978-1-62703-971-0_15 · 2014 · External reference
Transcription regulation through promoter-proximal pausing of RNA polymerase II
10.1126/science.1150843 · 2008 · External reference
Coordinated regulation of synthesis and stability of RNA during the acute TNF-induced proinflammatory response
10.1073/pnas.1219192110 · 2013 · External reference
Conserved long noncoding RNAs transcriptionally regulated by Oct4 and Nanog modulate pluripotency in mouse embryonic stem cells
10.1261/rna.1441510 · 2010 · External reference
linc-HOXA1 is a noncoding RNA that represses Hoxa1 transcription in cis
10.1101/gad.217018.113 · 2013 · External reference
Global analysis of mRNA localization reveals a prominent role in organizing cellular architecture and function
10.1016/j.cell.2007.08.003 · 2007 · External reference
The genomic binding sites of a noncoding RNA
10.1073/pnas.1113536108 · 2011 · External reference
High-resolution Xist binding maps reveal two-step spreading during X-chromosome inactivation
10.1038/nature12719 · 2013 · External reference
Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions
10.1016/j.molcel.2011.08.027 · 2011 · External reference
Brd4 and JMJD6-associated anti-pause enhancers in regulation of transcriptional pause release
10.1016/j.cell.2013.10.056 · 2013 · External reference
RNA SHAPE analysis in living cells
10.1038/nchembio.1131 · 2013 · External reference
Landscape and variation of RNA secondary structure across the human transcriptome
10.1038/nature12946 · 2014 · External reference
In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features
10.1038/nature12756 · 2014 · External reference
Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo
10.1038/nature12894 · 2014 · External reference
MS2-TRAP (MS2-tagged RNA affinity purification): tagging RNA to identify associated miRNAs
10.1016/j.ymeth.2012.07.004 · 2012 · External reference
RNA-based affinity purification reveals 7SK RNPs with distinct composition and regulation
10.1261/rna.565207 · 2007 · External reference
Cas9 as a versatile tool for engineering biology
10.1038/nmeth.2649 · 2013 · External reference
Insights into RNA biology from an atlas of mammalian mRNA-binding proteins
10.1016/j.cell.2012.04.031 · 2012 · External reference
RNA-binding proteins: modular design for efficient function
10.1038/nrm2178 · 2007 · External reference
Promiscuous RNA binding by Polycomb repressive complex 2
10.1038/nsmb.2679 · 2013 · External reference
Protein-RNA interactions: new genomic technologies and perspectives
10.1038/nrg3141 · 2011 · External reference
Cooperativity in RNA-protein interactions: global analysis of RNA binding specificity
10.1016/j.celrep.2012.04.003 · 2012 · External reference
Rapid and systematic analysis of the RNA recognition specificities of RNA-binding proteins
10.1038/nbt.1550 · 2009 · External reference
Nuclear matrix factor hnRNP U/SAF-A exerts a global control of alternative splicing by regulating U2 snRNP maturation
10.1016/j.molcel.2012.01.009 · 2012 · External reference
StarBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-Seq data
10.1093/nar/gkt1248 · 2014 · External reference
A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response
10.1016/j.cell.2010.06.040 · 2010 · External reference
Crystal structure of a 70S ribosome-tRNA complex reveals functional interactions and rearrangements
10.1016/j.cell.2006.08.032 · 2006 · External reference
Structure of the 70S ribosome complexed with mRNA and tRNA
10.1126/science.1131127 · 2006 · External reference
Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes
10.1038/nature08434 · 2009 · External reference
Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex
10.1038/nature07666 · 2008 · External reference
Structure of the guide-strand-containing argonaute silencing complex
10.1038/nature07315 · 2008 · External reference
Crystal structure of an H/ACA box ribonucleoprotein particle
10.1038/nature05151 · 2006 · External reference
Structure and assembly of the SF3a splicing factor complex of U2 snRNP
10.1038/emboj.2012.7 · 2012 · External reference
Multiple knockout mouse models reveal lincRNAs are required for life and brain development
10.7554/elife.01749 · 2013 · External reference
TALEN or Cas9—rapid, efficient and specific choices for genome modifications
10.1016/j.jgg.2013.03.013 · 2013 · External reference
RNA-protein analysis using a conditional CRISPR nuclease
10.1073/pnas.1302807110 · 2013 · External reference
Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression
10.1016/j.cell.2013.02.022 · 2013 · External reference
CRISPR interference (CRISPRi) for sequence-specific control of gene expression
10.1038/nprot.2013.132 · 2013 · External reference
CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes
10.1016/j.cell.2013.06.044 · 2013 · External reference
Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system
10.1016/j.cell.2013.12.001 · 2013 · External reference
Expression of a noncoding RNA is elevated in Alzheimer's disease and drives rapid feed-forward regulation of beta-secretase
10.1038/nm1784 · 2008 · External reference
lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3′ UTRs via Alu elements
10.1038/nature09701 · 2011 · External reference
Organizing principles of mammalian nonsense-mediated mRNA decay
10.1146/annurev-genet-111212-133424 · 2013 · External reference
Ribosome profiling reveals resemblance between long non-coding RNAs and 5′' leaders of coding RNAs
10.1242/dev.098343 · 2013 · External reference
The dharma of nonsense-mediated mRNA decay in Mammalian cells
10.14348/molcells.2014.2193 · 2014 · External reference
Translation-dependent displacement of UPF1 from coding sequences causes its enrichment in 3′ UTRs
10.1038/nsmb.2635 · 2013 · External reference
Regulation of the apolipoprotein gene cluster by a long noncoding RNA
10.1016/j.celrep.2013.12.015 · 2014 · External reference
The Xist lncRNA exploits three-dimensional genome architecture to spread across the X chromosome
10.1126/science.1237973 · 2013 · External reference
Enhancing nuclear receptor-induced transcription requires nuclear motor and LSD1-dependent gene networking in interchromatin granules
10.1073/pnas.0810634105 · 2008 · External reference
Nuclear organization in the 3D space of the nucleus—cause or consequence?
10.1016/j.gde.2009.07.005 · 2009 · External reference
Architecture of the human regulatory network derived from ENCODE data
10.1038/nature11245 · 2012 · External reference
NONCODE v3.0: integrative annotation of long noncoding RNAs
10.1093/nar/gkr1175 · 2012 · External reference
