Cargando…

A framework for identification of on- and off-target transcriptional responses to drug treatment

Owing to safety concerns or insufficient efficacy, few drug candidates are approved for marketing. Drugs already on the market may be withdrawn due to adverse effects (AEs) discovered after market introduction. Comprehensively investigating the on-/off-target effects of drugs can help expose AEs dur...

Descripción completa

Detalles Bibliográficos
Autores principales:	Huang, Yi, Furuno, Masaaki, Arakawa, Takahiro, Takizawa, Satoshi, de Hoon, Michiel, Suzuki, Harukazu, Arner, Erik
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Nature Publishing Group UK 2019
Materias:	Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6879629/ https://www.ncbi.nlm.nih.gov/pubmed/31772269 http://dx.doi.org/10.1038/s41598-019-54180-4

Ejemplares similares

xcore: an R package for inference of gene expression regulators
por: Migdał, Maciej, et al.
Publicado: (2023)

ReFeaFi: Genome-wide prediction of regulatory elements driving transcription initiation
por: Umarov, Ramzan, et al.
Publicado: (2021)

Genome-scale regression analysis reveals a linear relationship for promoters and enhancers after combinatorial drug treatment
por: Rapakoulia, Trisevgeni, et al.
Publicado: (2017)

C1 CAGE detects transcription start sites and enhancer activity at single-cell resolution
por: Kouno, Tsukasa, et al.
Publicado: (2019)

DeepCellState: An autoencoder-based framework for predicting cell type specific transcriptional states induced by drug treatment
por: Umarov, Ramzan, et al.
Publicado: (2021)

Transcriptional features of genomic regulatory blocks
por: Akalin, Altuna, et al.
Publicado: (2009)

Core promoter structure and genomic context reflect histone 3 lysine 9 acetylation patterns
por: Kratz, Anton, et al.
Publicado: (2010)

Genome-wide investigation of in vivo EGR-1 binding sites in monocytic differentiation
por: Kubosaki, Atsutaka, et al.
Publicado: (2009)

Clusters of Internally Primed Transcripts Reveal Novel Long Noncoding RNAs
por: Furuno, Masaaki, et al.
Publicado: (2006)

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)

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

Reconstruction of Monocyte Transcriptional Regulatory Network Accompanies Monocytic Functions in Human Fibroblasts
por: Suzuki, Takahiro, et al.
Publicado: (2012)

Asymmetric Regulation of Peripheral Genes by Two Transcriptional Regulatory Networks
por: Li, Jing-Ru, et al.
Publicado: (2016)

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

Global analysis of pre-mRNA subcellular localization following splicing inhibition by spliceostatin A
por: Yoshimoto, Rei, et al.
Publicado: (2017)

Temporal dynamics and transcriptional control using single-cell gene expression analysis
por: Kouno, Tsukasa, et al.
Publicado: (2013)

A screening system to identify transcription factors that induce binding site-directed DNA demethylation
por: Suzuki, Takahiro, et al.
Publicado: (2017)

Identification of Distant Drug Off-Targets by Direct Superposition of Binding Pocket Surfaces
por: Schumann, Marcel, et al.
Publicado: (2013)

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

MicroRNA-27a/b-3p and PPARG regulate SCAMP3 through a feed-forward loop during adipogenesis
por: Kulyté, Agné, et al.
Publicado: (2019)

TCR Fingerprinting and Off-Target Peptide Identification
por: Karapetyan, Armen R., et al.
Publicado: (2019)

Off-targetP ML: an open source machine learning framework for off-target panel safety assessment of small molecules
por: Naga, Doha, et al.
Publicado: (2022)

Comprehensive transcriptomic analysis of molecularly targeted drugs in cancer for target pathway evaluation
por: Mashima, Tetsuo, et al.
Publicado: (2015)

Video-Rate Bioluminescence Imaging of Degranulation of Mast Cells Attached to the Extracellular Matrix
por: Yokawa, Satoru, et al.
Publicado: (2018)

Drug-target interaction prediction from chemical, genomic and pharmacological data in an integrated framework
por: Yamanishi, Yoshihiro, et al.
Publicado: (2010)

Benefit‐Risk Assessment of Off‐Label Drug Use in Children: The Bravo Framework
por: van der Zanden, Tjitske M., et al.
Publicado: (2021)

A transient disruption of fibroblastic transcriptional regulatory network facilitates trans-differentiation
por: Tomaru, Yasuhiro, et al.
Publicado: (2014)

Prediction of transcription factors associated with DNA demethylation during human cellular development
por: Miyajima, Yurina, et al.
Publicado: (2022)

Systemic cisplatin increases the number of patients showing positive off-frequency masking audiometry
por: Hiraumi, Harukazu, et al.
Publicado: (2023)

Targeting Batf2 for infectious diseases and cancer
por: Guler, Reto, et al.
Publicado: (2015)

In silico target prediction: identification of on- and off-targets for crop protection agents
por: Chiddarwar, Rucha K, et al.
Publicado: (2013)

Transcriptionally induced enhancers in the macrophage immune response to Mycobacterium tuberculosis infection
por: Denisenko, Elena, et al.
Publicado: (2019)

Systematic identification of CRISPR off-target effects by CROss-seq
por: Li, Yan, et al.
Publicado: (2022)

Warm-Up Intensity and Time-Course Effects on Jump Height under Cold Conditions
por: Chiba, Itaru, et al.
Publicado: (2022)

High-resolution analysis of aberrant regions in autosomal chromosomes in human leukemia THP-1 cell line
por: Adati, Naoki, et al.
Publicado: (2009)

The Transcriptional Network That Controls Growth Arrest and Macrophage Differentiation in the Human Myeloid Leukemia Cell Line THP-1
por: Gažová, Iveta, et al.
Publicado: (2020)

Drug target inference by mining transcriptional data using a novel graph convolutional network framework
por: Zhong, Feisheng, et al.
Publicado: (2021)

Empowering drug off-target discovery with metabolic and structural analysis
por: Chowdhury, Sourav, et al.
Publicado: (2023)

AMPK and Polycystic Kidney Disease Drug Development: An Interesting Off-Target Target
por: Caplan, Michael J.
Publicado: (2022)

A Bioinformatics Method Identifies Prominent Off-targeted Transcripts in RNAi Screens
por: Sigoillot, Frederic D., et al.
Publicado: (2012)

Cannot write session to /tmp/vufind_sessions/sess_9flm5eklhnr69r1v0nt9394l4t