Activity-dependent human brain coding/noncoding gene regulatory networks (Q30529883)

14 August 2017

Activity-dependent human brain coding/noncoding gene regulatory networks (English)

1 reference

14 August 2017

Leonard Lipovich

1

1 reference

14 August 2017

Fabien Dachet

2

1 reference

14 August 2017

Juan Cai

3

1 reference

14 August 2017

Shruti Bagla

4

1 reference

14 August 2017

Karina Balan

5

1 reference

14 August 2017

Hui Jia

6

1 reference

14 August 2017

Jeffrey A Loeb

7

1 reference

14 August 2017

language of work or name

English

0 references

publication date

7 September 2012

1 reference

14 August 2017

16

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inferred from page(s)

published in

Genetics

1 reference

14 August 2017

192

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14 August 2017

3

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14 August 2017

1133-1148

1 reference

describes a project that uses

14 August 2017

Cytoscape

1 reference

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

inferred from PubMed Central ID database lookup

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/3522156

inferred from PubMed Central ID database lookup

cites work

Layer-specific CREB target gene induction in human neocortical epilepsy

1 reference

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Electrical, molecular and behavioral effects of interictal spiking in the rat.

20 June 2018

1 reference

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Inhibition of natural antisense transcripts in vivo results in gene-specific transcriptional upregulation.

20 June 2018

1 reference

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Transcriptomic analysis of autistic brain reveals convergent molecular pathology

20 June 2018

1 reference

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Identifying targets for preventing epilepsy using systems biology

20 June 2018

1 reference

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lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3' UTRs via Alu elements

20 June 2018

1 reference

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The Polycomb complex PRC2 and its mark in life

20 June 2018

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Cytoscape 2.8: new features for data integration and network visualization

20 June 2018

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Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells

20 June 2018

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Endogenous siRNAs and noncoding RNA-derived small RNAs are expressed in adult mouse hippocampus and are up-regulated in olfactory discrimination training

20 June 2018

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The long noncoding RNA, Jpx, is a molecular switch for X chromosome inactivation

20 June 2018

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MacroRNA underdogs in a microRNA world: evolutionary, regulatory, and biomedical significance of mammalian long non-protein-coding RNA.

20 June 2018

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A human MAP kinase interactome

20 June 2018

1 reference

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Long noncoding RNAs with enhancer-like function in human cells

20 June 2018

1 reference

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Genome-wide measurement of RNA secondary structure in yeast

20 June 2018

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A long nuclear-retained non-coding RNA regulates synaptogenesis by modulating gene expression

20 June 2018

1 reference

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A human systems biology approach to discover new drug targets in epilepsy

20 June 2018

1 reference

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Genome-wide computational identification and manual annotation of human long noncoding RNA genes

20 June 2018

1 reference

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Kcnq1ot1 noncoding RNA mediates transcriptional gene silencing by interacting with Dnmt1

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Caffeine modulates CREB-dependent gene expression in developing cortical neurons

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Cyr61 mediates hepatocyte growth factor-dependent tumor cell growth, migration, and Akt activation

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Conserved long noncoding RNAs transcriptionally regulated by Oct4 and Nanog modulate pluripotency in mouse embryonic stem cells

20 June 2018

1 reference

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Global discovery of primate-specific genes in the human genome

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Functional and evolutionary insights into human brain development through global transcriptome analysis

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

MEN epsilon/beta nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Differentiating protein-coding and noncoding RNA: challenges and ambiguities

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

3' end processing of a long nuclear-retained noncoding RNA yields a tRNA-like cytoplasmic RNA

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Bidirectional transcription directs both transcriptional gene activation and suppression in human cells

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

A set of differentially expressed miRNAs, including miR-30a-5p, act as post-transcriptional inhibitors of BDNF in prefrontal cortex

20 June 2018

1 reference

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Antisense transcripts are targets for activating small RNAs

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Quality assessment of the Affymetrix U133A&B probesets by target sequence mapping and expression data analysis.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

BDNF activates CaMKIV and PKA in parallel to block MAG-mediated inhibition of neurite outgrowth

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Immune transcriptome alterations in the temporal cortex of subjects with autism.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Liver-specific hepatocyte nuclear factor-4alpha deficiency: greater impact on gene expression in male than in female mouse liver.

20 June 2018

1 reference

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BDNF and the diseased nervous system: a delicate balance between adaptive and pathological processes of gene regulation.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Epigenetic silencing of tumour suppressor gene p15 by its antisense RNA

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

The mRNA-like noncoding RNA Gomafu constitutes a novel nuclear domain in a subset of neurons.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Human RNase P: a tRNA-processing enzyme and transcription factor

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Noncoding RNA transcription beyond annotated genes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Mouse and rat BDNF gene structure and expression revisited

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Complex Loci in human and mouse genomes

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Sustained hippocampal chromatin regulation in a mouse model of depression and antidepressant action

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

A common pattern of persistent gene activation in human neocortical epileptic foci

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Antisense transcription in the mammalian transcriptome

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Do interictal spikes drive epileptogenesis?

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Brain-derived neurotrophic factor

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Accuracy of cDNA microarray methods to detect small gene expression changes induced by neuregulin on breast epithelial cells

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Normalization of cDNA microarray data

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

MALAT-1, a novel noncoding RNA, and thymosin beta4 predict metastasis and survival in early-stage non-small cell lung cancer

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Regulation of transcription factors by neuronal activity.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Genetic approaches to molecular and cellular cognition: a focus on LTP and learning and memory

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

BLAT—The BLAST-Like Alignment Tool

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Short interspersed transposable elements (SINEs) are excluded from imprinted regions in the human genome

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Assessing gene significance from cDNA microarray expression data via mixed models

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

The molecular biology of memory storage: a dialogue between genes and synapses

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Analysis of variance for gene expression microarray data

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

BDNF and epilepsy: too much of a good thing?

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Neurotrophins: key regulators of cell fate and cell shape in the vertebrate nervous system

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Inducible and constitutive transcription factors in the mammalian nervous system: control of gene expression by Jun, Fos and Krox, and CREB/ATF proteins

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Ca2+ influx regulates BDNF transcription by a CREB family transcription factor-dependent mechanism

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Synaptic activity and the construction of cortical circuits

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Neurotrophins and brain insults.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

BDNF mRNA expression is increased in adult rat forebrain after limbic seizures: temporal patterns of induction distinct from NGF.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Increased levels of messenger RNAs for neurotrophic factors in the brain during kindling epileptogenesis.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Activity-dependent gene expression correlates with interictal spiking in human neocortical epilepsy.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Dissecting the human BDNF locus: bidirectional transcription, complex splicing, and multiple promoters

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Rodent BDNF genes, novel promoters, novel splice variants, and regulation by cocaine

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

The contributions of sex, genotype and age to transcriptional variance in Drosophila melanogaster

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Identification and cataloging of genes induced by long-lasting long-term potentiation in awake rats.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Regulation of BDNF and trkB mRNA in rat brain by chronic electroconvulsive seizure and antidepressant drug treatments.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3522156

Statistical design and the analysis of gene expression microarray data

26 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22960213

12 December 2020

inferred from PubMed ID database lookup

Membrane depolarization and calcium induce c-fos transcription via phosphorylation of transcription factor CREB

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22960213

12 December 2020

inferred from PubMed ID database lookup

Experimental design for gene expression microarrays

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22960213

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1534/GENETICS.112.145128

1 reference

14 August 2017

1 reference

14 August 2017

1 reference