Long noncoding RNAs are spatially correlated with transcription factors and regulate lung development (Q33789606)

29 July 2017

Long noncoding RNAs are spatially correlated with transcription factors and regulate lung development (English)

1 reference

29 July 2017

Michael J Herriges

1

1 reference

29 July 2017

Daniel T Swarr

2

1 reference

29 July 2017

Michael P Morley

3

1 reference

29 July 2017

Komal S Rathi

4

1 reference

29 July 2017

Tien Peng

5

1 reference

29 July 2017

Kathleen M Stewart

6

1 reference

29 July 2017

Edward E Morrisey

7

1 reference

29 July 2017

language of work or name

1 reference

1 June 2014

1 reference

29 July 2017

1 reference

29 July 2017

28

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29 July 2017

1363-1379

1 reference

29 July 2017

12

1 reference

describes a project that uses

29 July 2017

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/4066405

inferred from PubMed Central ID database lookup

cites work

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

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Evf2 (Dlx6as) lncRNA regulates ultraconserved enhancer methylation and the differential transcriptional control of adjacent genes

4 July 2018

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Coordination of heart and lung co-development by a multipotent cardiopulmonary progenitor

4 July 2018

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lincRNAs: genomics, evolution, and mechanisms

4 July 2018

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PIWI-interacting RNAs: from generation to transgenerational epigenetics

4 July 2018

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Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer

4 July 2018

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4 July 2018

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Downregulated LncRNA-ANCR promotes osteoblast differentiation by targeting EZH2 and regulating Runx2 expression

4 July 2018

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The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse

4 July 2018

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Differential analysis of gene regulation at transcript resolution with RNA-seq

4 July 2018

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ENCODE data in the UCSC Genome Browser: year 5 update

4 July 2018

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The spatial and temporal origin of chandelier cells in mouse neocortex

4 July 2018

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Small noncoding differentially methylated copy-number variants, including lncRNA genes, cause a lethal lung developmental disorder

4 July 2018

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

4 July 2018

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Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs

4 July 2018

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The lncRNA Malat1 is dispensable for mouse development but its transcription plays a cis-regulatory role in the adult

4 July 2018

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Exploring massive, genome scale datasets with the GenometriCorr package

4 July 2018

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Foxp1/4 control epithelial cell fate during lung development and regeneration through regulation of anterior gradient 2

4 July 2018

1 reference

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Generation of multipotent lung and airway progenitors from mouse ESCs and patient-specific cystic fibrosis iPSCs

4 July 2018

1 reference

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Genome-wide analysis of long noncoding RNA stability

4 July 2018

1 reference

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Suppression of progenitor differentiation requires the long noncoding RNA ANCR.

4 July 2018

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The long noncoding MALAT-1 RNA indicates a poor prognosis in non-small cell lung cancer and induces migration and tumor growth

4 July 2018

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AnimalTFDB: a comprehensive animal transcription factor database

4 July 2018

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A resource of Cre driver lines for genetic targeting of GABAergic neurons in cerebral cortex.

4 July 2018

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Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses

4 July 2018

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Thyroid transcription factor-1 (TTF-1) gene: identification of ZBP-89, Sp1, and TTF-1 sites in the promoter and regulation by TNF-α in lung epithelial cells

4 July 2018

1 reference

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

4 July 2018

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Long noncoding RNAs and human disease

4 July 2018

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MALAT-1: a long non-coding RNA and its important 3' end functional motif in colorectal cancer metastasis

4 July 2018

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Long noncoding RNAs as enhancers of gene expression

4 July 2018

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

4 July 2018

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Regulation of lung endoderm progenitor cell behavior by miR302/367

4 July 2018

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FIMO: scanning for occurrences of a given motif

4 July 2018

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Genome-wide identification of polycomb-associated RNAs by RIP-seq

4 July 2018

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Long noncoding RNAs with enhancer-like function in human cells

4 July 2018

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A retinoic acid-dependent network in the foregut controls formation of the mouse lung primordium

4 July 2018

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Foxp1/2/4-NuRD interactions regulate gene expression and epithelial injury response in the lung via regulation of interleukin-6

4 July 2018

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Fast and SNP-tolerant detection of complex variants and splicing in short reads

4 July 2018

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BEDTools: a flexible suite of utilities for comparing genomic features

4 July 2018

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beta-Catenin promotes respiratory progenitor identity in mouse foregut

4 July 2018

1 reference

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Wnt2/2b and beta-catenin signaling are necessary and sufficient to specify lung progenitors in the foregut

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

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

4 July 2018

1 reference

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Retinoic acid signaling organizes endodermal organ specification along the entire antero-posterior axis

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Genomic and genic deletions of the FOX gene cluster on 16q24.1 and inactivating mutations of FOXF1 cause alveolar capillary dysplasia and other malformations

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Eukaryotic snoRNAs: a paradigm for gene expression flexibility.

4 July 2018

1 reference

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

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

A Gata6-Wnt pathway required for epithelial stem cell development and airway regeneration.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

The GAS5 (growth arrest-specific transcript 5) gene fuses to BCL6 as a result of t(1;3)(q25;q27) in a patient with B-cell lymphoma

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Targeted deletion reveals essential and overlapping functions of the miR-17 through 92 family of miRNA clusters

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Foxp2 inhibits Nkx2.1-mediated transcription of SP-C via interactions with the Nkx2.1 homeodomain

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Site-directed, virus-free, and inducible RNAi in embryonic stem cells

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Transgenic over-expression of the microRNA miR-17-92 cluster promotes proliferation and inhibits differentiation of lung epithelial progenitor cells

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Foxp2 and Foxp1 cooperatively regulate lung and esophagus development

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Quantifying similarity between motifs

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Retinoic acid regulates morphogenesis and patterning of posterior foregut derivatives

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Dorsal pancreas agenesis in retinoic acid-deficient Raldh2 mutant mice

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Compensatory roles of Foxa1 and Foxa2 during lung morphogenesis

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Foxa2 is required for transition to air breathing at birth

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Evidence for an expansion-based temporal Shh gradient in specifying vertebrate digit identities

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Gene expression regulation by retinoic acid

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

GATA6 regulates differentiation of distal lung epithelium

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Inactivation of the beta-catenin gene by Wnt1-Cre-mediated deletion results in dramatic brain malformation and failure of craniofacial development

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Intronic U50 small-nucleolar-RNA (snoRNA) host gene of no protein-coding potential is mapped at the chromosome breakpoint t(3;6)(q27;q15) of human B-cell lymphoma

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Defects in tracheoesophageal and lung morphogenesis in Nkx2.1(-/-) mouse embryos

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

GATA-6: a zinc finger transcription factor that is expressed in multiple cell lineages derived from lateral mesoderm

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

The T/ebp null mouse: thyroid-specific enhancer-binding protein is essential for the organogenesis of the thyroid, lung, ventral forebrain, and pituitary

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Fitting a mixture model by expectation maximization to discover motifs in biopolymers

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Efficient derivation of purified lung and thyroid progenitors from embryonic stem cells

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Long non-coding RNA MALAT-1 overexpression predicts tumor recurrence of hepatocellular carcinoma after liver transplantation

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Inhibition of Tgf beta signaling by endogenous retinoic acid is essential for primary lung bud induction.

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Foxa2 regulates alveolarization and goblet cell hyperplasia.

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

TTF-1 is an epithelial morphoregulatory transcriptional factor

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

TTF-1 regulates lung epithelial morphogenesis

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Choreoathetosis, congenital hypothyroidism and neonatal respiratory distress syndrome with intactNKX2-1

30 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4066405

Co-Immunoprecipitation of long noncoding RNAs

30 October 2018

1 reference

12 December 2020

Inversion upstream of FOXF1 in a case of lethal alveolar capillary dysplasia with misalignment of pulmonary veins

1 reference

12 December 2020

GATA-6 activates transcription of thyroid transcription factor-1

1 reference

12 December 2020

A protocol for designing siRNAs with high functionality and specificity

1 reference

12 December 2020

Haploinsufficiencies of FOXF1 and FOXC2 genes associated with lethal alveolar capillary dysplasia and congenital heart disease

1 reference

12 December 2020

Identifiers

DOI

10.1101/GAD.238782.114

1 reference

release_phu6v54h7bfnrkfwklixpo555m

29 July 2017

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/phu6v54h7bfnrkfwklixpo555m

24 November 2022

mapped directly with Wikidata item

PMCID

4066405

1 reference

29 July 2017

1 reference