Cargando…

Multiscale Representation of Genomic Signals

Genomic information is encoded on a wide range of distance scales, ranging from tens of base pairs to megabases. We developed a multiscale framework to analyze and visualize the information content of genomic signals. Different types of signals, such as GC content or DNA methylation, are characteriz...

Descripción completa

Detalles Bibliográficos
Autores principales:	Knijnenburg, Theo A., Ramsey, Stephen A., Berman, Benjamin P., Kennedy, Kathleen A., Smit, Arian F.A., Wessels, Lodewyk F.A., Laird, Peter W., Aderem, Alan, Shmulevich, Ilya
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	2014
Materias:	Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4040162/ https://www.ncbi.nlm.nih.gov/pubmed/24727652 http://dx.doi.org/10.1038/nmeth.2924

Ejemplares similares

A multilevel pan-cancer map links gene mutations to cancer hallmarks
por: Knijnenburg, Theo A., et al.
Publicado: (2015)

Fewer permutations, more accurate P-values
por: Knijnenburg, Theo A., et al.
Publicado: (2009)

Identifying novel transcription factors involved in the inflammatory response by using binding site motif scanning in genomic regions defined by histone acetylation
por: Askovich, Peter S., et al.
Publicado: (2017)

Multiscale mutation clustering algorithm identifies pan-cancer mutational clusters associated with pathway-level changes in gene expression
por: Poole, William, et al.
Publicado: (2017)

Logic models to predict continuous outputs based on binary inputs with an application to personalized cancer therapy
por: Knijnenburg, Theo A., et al.
Publicado: (2016)

Genome-wide histone acetylation data improve prediction of mammalian transcription factor binding sites
por: Ramsey, Stephen A., et al.
Publicado: (2010)

Role of the transcription factor C/EBPδ in a regulatory circuit that discriminates between transient and persistent Toll-like receptor 4-induced signals
por: Litvak, Vladimir, et al.
Publicado: (2009)

EPEPT: A web service for enhanced P-value estimation in permutation tests
por: Knijnenburg, Theo A, et al.
Publicado: (2011)

Exploiting combinatorial cultivation conditions to infer transcriptional regulation
por: Knijnenburg, Theo A, et al.
Publicado: (2007)

Combinatorial effects of environmental parameters on transcriptional regulation in Saccharomyces cerevisiae: A quantitative analysis of a compendium of chemostat-based transcriptome data
por: Knijnenburg, Theo A, et al.
Publicado: (2009)

A regression model approach to enable cell morphology correction in high-throughput flow cytometry
por: Knijnenburg, Theo A, et al.
Publicado: (2011)

SMARCE1 suppresses EGFR expression and controls responses to MET and ALK inhibitors in lung cancer
por: Papadakis, Andreas I, et al.
Publicado: (2015)

A scale-space method for detecting recurrent DNA copy number changes with analytical false discovery rate control
por: van Dyk, Ewald, et al.
Publicado: (2013)

Characterizing the Impact of Communication on Cellular and Collective Behavior Using a Three-Dimensional Multiscale Cellular Model
por: Echlin, Moriah, et al.
Publicado: (2023)

Flexible co‐data learning for high‐dimensional prediction
por: van Nee, Mirrelijn M., et al.
Publicado: (2021)

CloudForest: A Scalable and Efficient Random Forest Implementation for Biological Data
por: Bressler, Ryan, et al.
Publicado: (2015)

A systems biology approach to understanding atherosclerosis
por: Ramsey, Stephen A, et al.
Publicado: (2010)

RUNX2/CBFB modulates the response to MEK inhibitors through activation of receptor tyrosine kinases in KRAS-mutant colorectal cancer
por: Šuštić, Tonći, et al.
Publicado: (2019)

Using Incomplete Trios to Boost Confidence in Family Based Association Studies
por: Dhankani, Varsha, et al.
Publicado: (2016)

Uncovering a Macrophage Transcriptional Program by Integrating Evidence from Motif Scanning and Expression Dynamics
por: Ramsey, Stephen A., et al.
Publicado: (2008)

Correction: Uncovering a Macrophage Transcriptional Program by Integrating Evidence from Motif Scanning and Expression Dynamics
por: Ramsey, Stephen A., et al.
Publicado: (2008)

Correction: Uncovering a Macrophage Transcriptional Program by Integrating Evidence from Motif Scanning and Expression Dynamics
por: Ramsey, Stephen A., et al.
Publicado: (2008)

Targeting the RB-E2F pathway in breast cancer
por: Johnson, Jackie, et al.
Publicado: (2016)

Fastbreak: a tool for analysis and visualization of structural variations in genomic data
por: Bressler, Ryan, et al.
Publicado: (2012)

Genome-Wide Analysis of Effectors of Peroxisome Biogenesis
por: Saleem, Ramsey A., et al.
Publicado: (2010)

Identifying mutant-specific multi-drug combinations using comparative network reconstruction
por: Bosdriesz, Evert, et al.
Publicado: (2022)

Bright Field Microscopy as an Alternative to Whole Cell Fluorescence in Automated Analysis of Macrophage Images
por: Selinummi, Jyrki, et al.
Publicado: (2009)

Knowledge driven decomposition of tumor expression profiles
por: van Vliet, Martin H, et al.
Publicado: (2009)

Multiscale Representation of Observation Error Statistics in Data Assimilation
por: Chabot, Vincent, et al.
Publicado: (2020)

Multiscale representations of community structures in attractor neural networks
por: Haga, Tatsuya, et al.
Publicado: (2021)

A comparison of univariate and multivariate gene selection techniques for classification of cancer datasets
por: Lai, Carmen, et al.
Publicado: (2006)

Epigenome-Guided Analysis of the Transcriptome of Plaque Macrophages during Atherosclerosis Regression Reveals Activation of the Wnt Signaling Pathway
por: Ramsey, Stephen A., et al.
Publicado: (2014)

The Innate Immune Database (IIDB)
por: Korb, Martin, et al.
Publicado: (2008)

Approximating multivariate posterior distribution functions from Monte Carlo samples for sequential Bayesian inference
por: Thijssen, Bram, et al.
Publicado: (2020)

Androgen receptor DNA binding and chromatin accessibility profiling in prostate cancer
por: Nevedomskaya, Ekaterina, et al.
Publicado: (2015)

Combinatorial influence of environmental parameters on transcription factor activity
por: Knijnenburg, T.A., et al.
Publicado: (2008)

Lack of Genomic Heterogeneity at High-Resolution aCGH between Primary Breast Cancers and Their Paired Lymph Node Metastases
por: Vollebergh, Marieke A., et al.
Publicado: (2014)

Systematic functional perturbations uncover a prognostic genetic network driving human breast cancer
por: Gallenne, Tristan, et al.
Publicado: (2017)

Mixtures of Conditional Gaussian Scale Mixtures Applied to Multiscale Image Representations
por: Theis, Lucas, et al.
Publicado: (2012)

NRVC: Neural Representation for Video Compression with Implicit Multiscale Fusion Network
por: Liu, Shangdong, et al.
Publicado: (2023)

Cannot write session to /tmp/vufind_sessions/sess_d49f3vph7dsecg09hkbdutim59