Cargando…

TELS: A Novel Computational Framework for Identifying Motif Signatures of Transcribed Enhancers

In mammalian cells, transcribed enhancers (TrEns) play important roles in the initiation of gene expression and maintenance of gene expression levels in a spatiotemporal manner. One of the most challenging questions is how the genomic characteristics of enhancers relate to enhancer activities. To da...

Descripción completa

Detalles Bibliográficos
Autores principales:	Kleftogiannis, Dimitrios, Ashoor, Haitham, Bajic, Vladimir B.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Elsevier 2018
Materias:	Method
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6364045/ https://www.ncbi.nlm.nih.gov/pubmed/30578915 http://dx.doi.org/10.1016/j.gpb.2018.05.003

Ejemplares similares

DEEP: a general computational framework for predicting enhancers
por: Kleftogiannis, Dimitrios, et al.
Publicado: (2015)

DENdb: database of integrated human enhancers
por: Ashoor, Haitham, et al.
Publicado: (2015)

Discriminative identification of transcriptional responses of promoters and enhancers after stimulus
por: Kleftogiannis, Dimitrios, et al.
Publicado: (2017)

Large-Scale Detection of Telomeric Motif Sequences in Genomic Data Using TelFinder
por: Sun, Qing, et al.
Publicado: (2023)

Zebrafish promoter microarrays identify actively transcribed embryonic genes
por: Wardle, Fiona C, et al.
Publicado: (2006)

HMCan-diff: a method to detect changes in histone modifications in cells with different genetic characteristics
por: Ashoor, Haitham, et al.
Publicado: (2017)

A novel method for improved accuracy of transcription factor binding site prediction
por: Khamis, Abdullah M, et al.
Publicado: (2018)

Progress and challenges in bioinformatics approaches for enhancer identification
por: Kleftogiannis, Dimitrios, et al.
Publicado: (2016)

A new framework for identifying cis-regulatory motifs in prokaryotes
por: Li, Guojun, et al.
Publicado: (2011)

DDR: efficient computational method to predict drug–target interactions using graph mining and machine learning approaches
por: Olayan, Rawan S, et al.
Publicado: (2018)

DDR: efficient computational method to predict drug–target interactions using graph mining and machine learning approaches
por: Olayan, Rawan S, et al.
Publicado: (2018)

A novel approach to identifying regulatory motifs in distantly related genomes
por: Van Hellemont, Ruth, et al.
Publicado: (2005)

Comparing Memory-Efficient Genome Assemblers on Stand-Alone and Cloud Infrastructures
por: Kleftogiannis, Dimitrios, et al.
Publicado: (2013)

Revealing signaling pathway deregulation by using gene expression signatures and regulatory motif analysis
por: Liu, Yingchun, et al.
Publicado: (2007)

Genome-wide TOP2A DNA cleavage is biased toward translocated and highly transcribed loci
por: Yu, Xiang, et al.
Publicado: (2017)

Computational discovery of cis-regulatory modules in Drosophila without prior knowledge of motifs
por: Ivan, Andra, et al.
Publicado: (2008)

DWFS: A Wrapper Feature Selection Tool Based on a Parallel Genetic Algorithm
por: Soufan, Othman, et al.
Publicado: (2015)

Tel quel
por: Valéry, Paul, 1871-1945
Publicado: (1941)

spatzie: an R package for identifying significant transcription factor motif co-enrichment from enhancer–promoter interactions
por: Hammelman, Jennifer, et al.
Publicado: (2022)

Discovering human transcription factor physical interactions with genetic variants, novel DNA motifs, and repetitive elements using enhanced yeast one-hybrid assays
por: Shrestha, Shaleen, et al.
Publicado: (2019)

Quantifying similarity between motifs
por: Gupta, Shobhit, et al.
Publicado: (2007)

Evidence-ranked motif identification
por: Georgiev, Stoyan, et al.
Publicado: (2010)

SSCC: A Novel Computational Framework for Rapid and Accurate Clustering Large-scale Single Cell RNA-seq Data
por: Ren, Xianwen, et al.
Publicado: (2019)

A network module-based method for identifying cancer prognostic signatures
por: Wu, Guanming, et al.
Publicado: (2012)

Quantitative-enhancer-FACS-seq (QeFS) reveals epistatic interactions among motifs within transcriptional enhancers in developing Drosophila tissue
por: Waters, Colin T., et al.
Publicado: (2021)

Un tel potentiel !
por: Jenni, Peter
Publicado: (2004)

Tel quel 1 /
por: Valéry, Paul, 1871-1945
Publicado: (1977)

The CRIT framework for identifying cross patterns in systems biology and application to chemogenomics
por: Gianoulis, Tara A, et al.
Publicado: (2011)

ENVE: a novel computational framework characterizes copy-number mutational landscapes in colorectal cancers from African American patients
por: Varadan, Vinay, et al.
Publicado: (2015)

Coalescent Theory of Migration Network Motifs
por: Alcala, Nicolas, et al.
Publicado: (2019)

Identifying transcribed sequences, and beyond
por: Wellenreuther, Ruth, et al.
Publicado: (2003)

Computational generation and screening of RNA motifs in large nucleotide sequence pools
por: Kim, Namhee, et al.
Publicado: (2010)

A novel k-mer set memory (KSM) motif representation improves regulatory variant prediction
por: Guo, Yuchun, et al.
Publicado: (2018)

Widespread effects of DNA methylation and intra-motif dependencies revealed by novel transcription factor binding models
por: Grau, Jan, et al.
Publicado: (2023)

MINT: software to identify motifs and short-range interactions in trajectories of nucleic acids
por: Górska, Anna, et al.
Publicado: (2015)

A general framework for identifying oligogenic combinations of rare variants in complex disorders
por: Pounraja, Vijay Kumar, et al.
Publicado: (2022)

High-salt transcription from enzymatically gapped promoters nets higher yields and purity of transcribed RNAs
por: MalagodaPathiranage, Kithmie, et al.
Publicado: (2023)

BLM helicase suppresses recombination at G-quadruplex motifs in transcribed genes
por: van Wietmarschen, Niek, et al.
Publicado: (2018)

Using the Tevatron Electron Lens (TEL) as a Wire and other TEL Studies at FNAL
por: Zimmermann, Frank, et al.
Publicado: (2004)

Measuring spatial preferences at fine-scale resolution identifies known and novel cis-regulatory element candidates and functional motif-pair relationships
por: Yokoyama, Ken Daigoro, et al.
Publicado: (2009)

Cannot write session to /tmp/vufind_sessions/sess_n0gf6acs59v9er949qkirdv10m