Cargando…

Identification of novel cerebellar developmental transcriptional regulators with motif activity analysis

BACKGROUND: The work of the FANTOM5 Consortium has brought forth a new level of understanding of the regulation of gene transcription and the cellular processes involved in creating diversity of cell types. In this study, we extended the analysis of the FANTOM5 Cap Analysis of Gene Expression (CAGE)...

Descripción completa

Detalles Bibliográficos
Autores principales:	Ha, Thomas J., Zhang, Peter G. Y., Robert, Remi, Yeung, Joanna, Swanson, Douglas J., Mathelier, Anthony, Wasserman, Wyeth W., Im, Sujin, Itoh, Masayoshi, Kawaji, Hideya, Lassmann, Timo, Daub, Carsten O., Arner, Erik, Carninci, Piero, Hayashizaki, Yoshihide, Forrest, Alistair R. R., Goldowitz, Daniel
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2019
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6751898/ https://www.ncbi.nlm.nih.gov/pubmed/31533632 http://dx.doi.org/10.1186/s12864-019-6063-9

Ejemplares similares

Correction to: Relatively frequent switching of transcription start sites during cerebellar development
por: Zhang, Peter, et al.
Publicado: (2018)

CAGEd-oPOSSUM: motif enrichment analysis from CAGE-derived TSSs
por: Arenillas, David J., et al.
Publicado: (2016)

Conserved temporal ordering of promoter activation implicates common mechanisms governing the immediate early response across cell types and stimuli
por: Vacca, Annalaura, et al.
Publicado: (2018)

Application of Gene Expression Trajectories Initiated from ErbB Receptor Activation Highlights the Dynamics of Divergent Promoter Usage
por: Carbajo, Daniel, et al.
Publicado: (2015)

Promoter-level expression clustering identifies time development of transcriptional regulatory cascades initiated by ErbB receptors in breast cancer cells
por: Mina, Marco, et al.
Publicado: (2015)

YY1 binding association with sex-biased transcription revealed through X-linked transcript levels and allelic binding analyses
por: Chen, Chih-yu, et al.
Publicado: (2016)

The FANTOM5 collection, a data series underpinning mammalian transcriptome atlases in diverse cell types
por: Kawaji, Hideya, et al.
Publicado: (2017)

Transcriptional Dynamics Reveal Critical Roles for Non-coding RNAs in the Immediate-Early Response
por: Aitken, Stuart, et al.
Publicado: (2015)

The frequent evolutionary birth and death of functional promoters in mouse and human
por: Young, Robert S., et al.
Publicado: (2015)

Transcriptional Dynamics During Human Adipogenesis and Its Link to Adipose Morphology and Distribution
por: Ehrlund, Anna, et al.
Publicado: (2017)

Promoter Usage and Dynamics in Vascular Smooth Muscle Cells Exposed to Fibroblast Growth Factor-2 or Interleukin-1β
por: Alhendi, Ahmad M. N., et al.
Publicado: (2018)

Analysis of the human monocyte-derived macrophage transcriptome and response to lipopolysaccharide provides new insights into genetic aetiology of inflammatory bowel disease
por: Baillie, J. Kenneth, et al.
Publicado: (2017)

Automated Workflow for Preparation of cDNA for Cap Analysis of Gene Expression on a Single Molecule Sequencer
por: Itoh, Masayoshi, et al.
Publicado: (2012)

Mapping Mammalian Cell-type-specific Transcriptional Regulatory Networks Using KD-CAGE and ChIP-seq Data in the TC-YIK Cell Line
por: Lizio, Marina, et al.
Publicado: (2015)

Systematic analysis of transcription start sites in avian development
por: Lizio, Marina, et al.
Publicado: (2017)

SDRF2GRAPH – a visualization tool of a spreadsheet-based description of experimental processes
por: Kawaji, Hideya, et al.
Publicado: (2009)

RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE)
por: Ohmiya, Hiroko, et al.
Publicado: (2014)

Transcriptome Analysis Uncovers a Growth-Promoting Activity of Orosomucoid-1 on Hepatocytes
por: Qin, Xian-Yang, et al.
Publicado: (2017)

Transcriptome analysis of periodontitis-associated fibroblasts by CAGE sequencing identified DLX5 and RUNX2 long variant as novel regulators involved in periodontitis
por: Horie, Masafumi, et al.
Publicado: (2016)

Antisense Transcription in Loci Associated to Hereditary Neurodegenerative Diseases
por: Zucchelli, Silvia, et al.
Publicado: (2019)

Ceruloplasmin Is a Novel Adipokine Which Is Overexpressed in Adipose Tissue of Obese Subjects and in Obesity-Associated Cancer Cells
por: Arner, Erik, et al.
Publicado: (2014)

Transcriptional landscape of Mycobacterium tuberculosis infection in macrophages
por: Roy, Sugata, et al.
Publicado: (2018)

MOIRAI: a compact workflow system for CAGE analysis
por: Hasegawa, Akira, et al.
Publicado: (2014)

FANTOM4 EdgeExpressDB: an integrated database of promoters, genes, microRNAs, expression dynamics and regulatory interactions
por: Severin, Jessica, et al.
Publicado: (2009)

Monitoring transcription initiation activities in rat and dog
por: Lizio, Marina, et al.
Publicado: (2017)

The FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation
por: Kawaji, Hideya, et al.
Publicado: (2009)

Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation
por: Kawaji, Hideya, et al.
Publicado: (2011)

Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium
por: Yu, Nancy Yiu-Lin, et al.
Publicado: (2015)

Redefining the transcriptional regulatory dynamics of classically and alternatively activated macrophages by deepCAGE transcriptomics
por: Roy, Sugata, et al.
Publicado: (2015)

Technical Advance: Transcription factor, promoter, and enhancer utilization in human myeloid cells
por: Joshi, Anagha, et al.
Publicado: (2015)

Functional annotation of the vlinc class of non-coding RNAs using systems biology approach
por: Laurent, Georges St., et al.
Publicado: (2016)

Building promoter aware transcriptional regulatory networks using siRNA perturbation and deepCAGE
por: Vitezic, Morana, et al.
Publicado: (2010)

Exploration of Small RNAs
por: Kawaji, Hideya, et al.
Publicado: (2008)

FANTOM5 transcriptome catalog of cellular states based on Semantic MediaWiki
por: Abugessaisa, Imad, et al.
Publicado: (2016)

Chromatin states reveal functional associations for globally defined transcription start sites in four human cell lines
por: Rye, Morten, et al.
Publicado: (2014)

Linking FANTOM5 CAGE peaks to annotations with CAGEscan
por: Bertin, Nicolas, et al.
Publicado: (2017)

Transcription start site profiling of 15 anatomical regions of the Macaca mulatta central nervous system
por: Francescatto, Margherita, et al.
Publicado: (2017)

Author Correction: Transcription start site profiling of 15 anatomical regions of the Macaca mulatta central nervous system
por: Francescatto, Margherita, et al.
Publicado: (2018)

NGSView: an extensible open source editor for next-generation sequencing data
por: Arner, Erik, et al.
Publicado: (2010)

SAMStat: monitoring biases in next generation sequencing data
por: Lassmann, Timo, et al.
Publicado: (2011)

Cannot write session to /tmp/vufind_sessions/sess_7p50006vjsgkci81196npqruai