Cargando…

MMARGE: Motif Mutation Analysis for Regulatory Genomic Elements

Cell-specific patterns of gene expression are determined by combinatorial actions of sequence-specific transcription factors at cis-regulatory elements. Studies indicate that relatively simple combinations of lineage-determining transcription factors (LDTFs) play dominant roles in the selection of e...

Descripción completa

Detalles Bibliográficos
Autores principales:	Link, Verena M, Romanoski, Casey E, Metzler, Dirk, Glass, Christopher K
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2018
Materias:	Computational Biology
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6101580/ https://www.ncbi.nlm.nih.gov/pubmed/29893919 http://dx.doi.org/10.1093/nar/gky491

Ejemplares similares

Discovery of cell-type specific regulatory elements in the human genome using differential chromatin modification analysis
por: Chen, Chen, et al.
Publicado: (2013)

Imogene: identification of motifs and cis-regulatory modules underlying gene co-regulation
por: Rouault, Hervé, et al.
Publicado: (2014)

Single base-pair resolution analysis of DNA binding motif with MoMotif reveals an oncogenic function of CTCF zinc-finger 1 mutation
por: Lebeau, Benjamin, et al.
Publicado: (2022)

Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation
por: Vardhanabhuti, Saran, et al.
Publicado: (2007)

Labelled regulatory elements are pervasive features of the macrophage genome and are dynamically utilized by classical and alternative polarization signals
por: Horvath, Attila, et al.
Publicado: (2019)

Many sequence-specific chromatin modifying protein-binding motifs show strong positional preferences for potential regulatory regions in the Saccharomyces cerevisiae genome
por: Hansen, Loren, et al.
Publicado: (2010)

Function, dynamics and evolution of network motif modules in integrated gene regulatory networks of worm and plant
por: Defoort, Jonas, et al.
Publicado: (2018)

Synthetic and genomic regulatory elements reveal aspects of cis-regulatory grammar in mouse embryonic stem cells
por: King, Dana M, et al.
Publicado: (2020)

MOPAT: a graph-based method to predict recurrent cis-regulatory modules from known motifs
por: Hu, Jianfei, et al.
Publicado: (2008)

Prediction of regulatory motifs from human Chip-sequencing data using a deep learning framework
por: Yang, Jinyu, et al.
Publicado: (2019)

Recovering motifs from biased genomes: application of signal correction
por: Hasan, Samiul, et al.
Publicado: (2006)

Prediction of clustered RNA-binding protein motif sites in the mammalian genome
por: Zhang, Chaolin, et al.
Publicado: (2013)

Genome-wide analysis of mobile genetic element insertion sites
por: Rawal, Kamal, et al.
Publicado: (2011)

Genome-wide prediction and analysis of human chromatin boundary elements
por: Wang, Jianrong, et al.
Publicado: (2012)

Efficient motif search in ranked lists and applications to variable gap motifs
por: Leibovich, Limor, et al.
Publicado: (2012)

Retrotransposons spread potential cis-regulatory elements during mammary gland evolution
por: Nishihara, Hidenori
Publicado: (2019)

Evidence in disease and non-disease contexts that nonsense mutations cause altered splicing via motif disruption
por: Abrahams, Liam, et al.
Publicado: (2021)

Cis-regulatory mutations associate with transcriptional and post-transcriptional deregulation of gene regulatory programs in cancers
por: Castro-Mondragon, Jaime A, et al.
Publicado: (2022)

PreCisIon: PREdiction of CIS-regulatory elements improved by gene’s positION
por: Elati, Mohamed, et al.
Publicado: (2013)

Peak-valley-peak pattern of histone modifications delineates active regulatory elements and their directionality
por: Pundhir, Sachin, et al.
Publicado: (2016)

Inherent regulatory asymmetry emanating from network architecture in a prevalent autoregulatory motif
por: Ali, Md Zulfikar, et al.
Publicado: (2020)

Mapping the sequences of potential guanine quadruplex motifs
por: Todd, Alan K., et al.
Publicado: (2011)

The cis-regulatory map of Shewanella genomes
por: Liu, Jiajian, et al.
Publicado: (2008)

Comprehensive discovery of DNA motifs in 349 human cells and tissues reveals new features of motifs
por: Zheng, Yiyu, et al.
Publicado: (2015)

Kinetics of transcription initiation directed by multiple cis-regulatory elements on the glnAp2 promoter
por: Wang, Yaolai, et al.
Publicado: (2016)

Functional 5′ UTR motif discovery with LESMoN: Local Enrichment of Sequence Motifs in biological Networks
por: Lavallée-Adam, Mathieu, et al.
Publicado: (2017)

A correlation with exon expression approach to identify cis-regulatory elements for tissue-specific alternative splicing
por: Das, Debopriya, et al.
Publicado: (2007)

Annotating RNA motifs in sequences and alignments
por: Gardner, Paul P., et al.
Publicado: (2015)

Heterodimeric DNA motif synthesis and validations
por: Wong, Ka-Chun, et al.
Publicado: (2019)

Considering the kinetics of mRNA synthesis in the analysis of the genome and epigenome reveals determinants of co-transcriptional splicing
por: Davis-Turak, Jeremy C., et al.
Publicado: (2015)

Prediction of genome-wide DNA methylation in repetitive elements
por: Zheng, Yinan, et al.
Publicado: (2017)

A genome-wide scan for correlated mutations detects macromolecular and chromatin interactions in Arabidopsis thaliana
por: Perlaza-Jiménez, Laura, et al.
Publicado: (2018)

Transcriptomic and epigenetic mechanisms underlying myeloid diversity in the lung
por: Sajti, Eniko, et al.
Publicado: (2020)

Computational identification of new structured cis-regulatory elements in the 3′-untranslated region of human protein coding genes
por: Chen, Xiaowei Sylvia, et al.
Publicado: (2012)

Computational characterization of chromatin domain boundary-associated genomic elements
por: Hong, Seungpyo, et al.
Publicado: (2017)

Towards a map of cis-regulatory sequences in the human genome
por: Niu, Meng, et al.
Publicado: (2018)

Hole in One: an element reduction approach to modeling bone porosity in finite element analysis
por: Santaella, Beatriz L., et al.
Publicado: (2019)

Arrangement of 3D structural motifs in ribosomal RNA
por: Sargsyan, Karen, et al.
Publicado: (2010)

Functional characterization of motif sequences under purifying selection
por: Chen, De-Hua, et al.
Publicado: (2013)

Discovering sequence and structure landscapes in RNA interaction motifs
por: Adinolfi, Marta, et al.
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_st6kof3216t17t7fj64ooslblo