Cargando…

CAGE-TSSchip: promoter-based expression profiling using the 5'-leading label of capped transcripts

Cap analysis gene expression (CAGE) technology has revealed numerous transcription start sites (TSSs) in mammals and has suggested complex promoter-based patterns of regulation. We developed the CAGE-TSSchip to detect promoter-based transcriptional activity. The CAGE-TSSchip is a customized oligonuc...

Descripción completa

Detalles Bibliográficos
Autores principales:	Katayama, Shintaro, Kanamori-Katayama, Mutsumi, Yamaguchi, Kazumi, Carninci, Piero, Hayashizaki, Yoshihide
Formato:	Texto
Lenguaje:	English
Publicado:	BioMed Central 2007
Materias:	Method
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1868931/ http://dx.doi.org/10.1186/gb-2007-8-3-r42

Ejemplares similares

Comparison of CAGE and RNA-seq transcriptome profiling using clonally amplified and single-molecule next-generation sequencing
por: Kawaji, Hideya, et al.
Publicado: (2014)

CAGE Basic/Analysis Databases: the CAGE resource for comprehensive promoter analysis
por: Kawaji, Hideya, et al.
Publicado: (2006)

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

Methods for analyzing deep sequencing expression data: constructing the human and mouse promoterome with deepCAGE data
por: Balwierz, Piotr J, 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)

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

Simplified ontologies allowing comparison of developmental mammalian gene expression
por: Kruger, Adele, et al.
Publicado: (2007)

Dynamic usage of transcription start sites within core promoters
por: Kawaji, Hideya, et al.
Publicado: (2006)

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

SLIC-CAGE: high-resolution transcription start site mapping using nanogram-levels of total RNA
por: Cvetesic, Nevena, et al.
Publicado: (2018)

Protein-protein interactions of the hyperthermophilic archaeon Pyrococcus horikoshii OT3
por: Usui, Kengo, et al.
Publicado: (2005)

CAGEr: precise TSS data retrieval and high-resolution promoterome mining for integrative analyses
por: Haberle, Vanja, et al.
Publicado: (2015)

Deep sequencing of short capped RNAs reveals novel families of noncoding RNAs
por: de Hoon, Michiel, et al.
Publicado: (2022)

A Method for Similarity Search of Genomic Positional Expression Using CAGE
por: Seno, Shigeto, et al.
Publicado: (2006)

Large-scale clustering of CAGE tag expression data
por: Shimokawa, Kazuro, et al.
Publicado: (2007)

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

Genome Network and FANTOM3: Assessing the Complexity of the Transcriptome
por: Hayashizaki, Yoshihide, et al.
Publicado: (2006)

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

Full-length cDNAs from chicken bursal lymphocytes to facilitate gene function analysis
por: Caldwell, Randolph B, et al.
Publicado: (2005)

In vivo and in vitro knockout system labelled using fluorescent protein via microhomology-mediated end joining
por: Katayama, Shota, et al.
Publicado: (2019)

Hidden layers of human small RNAs
por: Kawaji, Hideya, et al.
Publicado: (2008)

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)

Transcriptional and structural impact of TATA-initiation site spacing in mammalian core promoters
por: Ponjavic, Jasmina, et al.
Publicado: (2006)

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

DeepCAGE: Incorporating Transcription Factors in Genome-wide Prediction of Chromatin Accessibility
por: Liu, Qiao, et al.
Publicado: (2022)

Genome-wide review of transcriptional complexity in mouse protein kinases and phosphatases
por: Forrest, Alistair RR, et al.
Publicado: (2006)

Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan
por: Plessy, Charles, et al.
Publicado: (2010)

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

Alternate transcription of the Toll-like receptor signaling cascade
por: Wells, Christine A, et al.
Publicado: (2006)

Profiling transcription initiation in human aged brain using deep-CAGE
por: Francescatto, Margherita, et al.
Publicado: (2011)

Comprehensive Characterization of Transcriptional Activity during Influenza A Virus Infection Reveals Biases in Cap-Snatching of Host RNA Sequences
por: Clohisey, Sara, et al.
Publicado: (2020)

High-fidelity promoter profiling reveals widespread alternative promoter usage and transposon-driven developmental gene expression
por: Batut, Philippe, et al.
Publicado: (2013)

“NAD-capQ” detection and quantitation of NAD caps
por: Grudzien-Nogalska, Ewa, et al.
Publicado: (2018)

A RecA-mediated exon profiling method
por: Hasegawa, Yuki, et al.
Publicado: (2006)

Beyond the FANTOM4
por: Suzuki, Harukazu, et al.
Publicado: (2010)

The FANTOM5 collection, a data series underpinning mammalian transcriptome atlases in diverse cell types
por: Kawaji, Hideya, 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)

Establishment of single-cell screening system for the rapid identification of transcriptional modulators involved in direct cell reprogramming
por: Shin, Jay W., et al.
Publicado: (2012)

NanoCAGE analysis of the mouse olfactory epithelium identifies the expression of vomeronasal receptors and of proximal LINE elements
por: Pascarella, Giovanni, et al.
Publicado: (2014)

CAGEE: Computational Analysis of Gene Expression Evolution
por: Bertram, Jason, et al.
Publicado: (2023)

Cannot write session to /tmp/vufind_sessions/sess_o8bj4g07lh1n0qlldc70lqtghg