Identifying and Characterizing Regulatory Sequences in the Human Genome with Chromatin Accessibility Assays

Identifying and Characterizing Regulatory Sequences in the Human Genome with Chromatin Accessibility Assays

After finishing a human genome reference sequence in 2002, the genomics community has turned to the task of interpreting it. A primary focus is to identify and characterize not only protein-coding genes, but all functional elements in the genome. The effort includes both individual investigators and...

Full description

Bibliographic Details
Main Authors:	Sheffield, Nathan C., Furey, Terrence S.
Format:	Online
Language:	English
Published:	MDPI 2012
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3899983/

Similar Items

The accessible chromatin landscape of the human genome
by: Thurman, Robert E., et al.
Published: (2012)

Comparison of human (and other) genome browsers
by: Furey, Terrence S
Published: (2006)

Identification and Characterization of Cell Type–Specific and Ubiquitous Chromatin Regulatory Structures in the Human Genome
by: Xi, Hualin, et al.
Published: (2007)

Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity
by: Tewari, Alok K, et al.
Published: (2012)

Chromatin Accessibility Mapping Identifies Mediators of Basal Transcription and Retinoid-Induced Repression of OTX2 in Medulloblastoma
by: Wortham, Matthew, et al.
Published: (2014)

Evidence of Influence of Genomic DNA Sequence on Human X Chromosome Inactivation
by: Wang, Zhong, et al.
Published: (2006)

Characterization of chromatin accessibility with a transposome hypersensitive sites sequencing (THS-seq) assay
by: Sos, Brandon Chin, et al.
Published: (2016)

Chromatin accessibility: a window into the genome
by: Tsompana, Maria, et al.
Published: (2014)

LOLA: enrichment analysis for genomic region sets and regulatory elements in R and Bioconductor
by: Sheffield, Nathan C., et al.
Published: (2016)

Rapid genome-scale mapping of chromatin accessibility in tissue
by: Grøntved, Lars, et al.
Published: (2012)

Single-cell chromatin accessibility reveals principles of regulatory variation
by: Buenrostro, Jason D., et al.
Published: (2015)

Genome-Wide Association between Transcription Factor Expression and Chromatin Accessibility Reveals Regulators of Chromatin Accessibility.
by: David Lamparter, et al.
Published: (2017-01-01)

Fast chromatin immunoprecipitation assay
by: Nelson, Joel D., et al.
Published: (2006)

Identifying genomic features by BLASTing through chromatin
by: Lai, William KM, et al.
Published: (2013)

Genome-wide sequence and functional analysis of early replicating DNA in normal human fibroblasts
by: Cohen, Stephanie M, et al.
Published: (2006)

Correcting nucleotide-specific biases in high-throughput sequencing data
by: Jeremy R. Wang, et al.
Published: (2017-08-01)

Regulation of the Boundaries of Accessible Chromatin
by: Chai, Xiaoran, et al.
Published: (2013)

Identifying regulatory elements and gene boundaries with comparative genomic sequence analysis
by: Lund, Jim
Published: (2008)

Discovering chromatin motifs using FAIRE sequencing and the human diploid genome
by: Yang, Chia-Chun, et al.
Published: (2013)

The nucleosome landscape of Plasmodium falciparum reveals chromatin architecture and dynamics of regulatory sequences
by: Kensche, Philip Reiner, et al.
Published: (2016)

Extensive Evolutionary Changes in Regulatory Element Activity during Human Origins Are Associated with Altered Gene Expression and Positive Selection
by: Shibata, Yoichiro, et al.
Published: (2012)

Proteomic and genomic characterization of chromatin complexes at a boundary
by: Tackett, Alan J., et al.
Published: (2005)

Chromatin structure and evolution in the human genome
by: Prendergast, James GD, et al.
Published: (2007)

Genome-wide profiling of nucleosome sensitivity and chromatin accessibility in Drosophila melanogaster
by: Chereji, Răzvan V., et al.
Published: (2016)

On Accounting for Sequence-Specific Bias in Genome-Wide Chromatin Accessibility Experiments: Recent Advances and Contradictions
by: Madrigal, Pedro
Published: (2015)

F-Seq: a feature density estimator for high-throughput sequence tags
by: Boyle, Alan P., et al.
Published: (2008)

Condensed mitotic chromatin is accessible to transcription factors and chromatin structural proteins
by: Chen, Danyang, et al.
Published: (2005)

Genome-wide assays that identify and quantify modified cytosines in human disease studies
by: Ulahannan, Netha, et al.
Published: (2015)

Identification of chromatin accessibility domains in human breast cancer stem cells
by: Hardy, K., et al.
Published: (2016)

Genome-Wide Identification of Regulatory Sequences Undergoing Accelerated Evolution in the Human Genome
by: Dong, Xinran, et al.
Published: (2016)

Identifying Cis-Regulatory Sequences by Word Profile Similarity
by: Leung, Garmay, et al.
Published: (2009)

Topological Domains in Mammalian Genomes Identified by Analysis of Chromatin Interactions
by: Dixon, Jesse R., et al.
Published: (2012)

An atlas of transcriptional, chromatin accessibility, and surface marker changes in human mesoderm development
by: Koh, Pang Wei, et al.
Published: (2016)

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

Identifying synonymous regulatory elements in vertebrate genomes
by: Ovcharenko, Ivan, et al.
Published: (2005)

Integrated analyses of chromatin accessibility and gene expression data for elucidating the transcriptional regulatory mechanisms during early hematopoietic development in mouse
by: Viiavabaskar, Mahalingam S, et al.
Published: (2013)

Sequences specify centromeric chromatin
by: LeBrasseur, Nicole
Published: (2002)

Distinct chromatin features characterize different classes of repeat sequences in Drosophila melanogaster
by: Krassovsky, Kristina, et al.
Published: (2014)

Functional DNA demethylation is accompanied by chromatin accessibility
by: Pandiyan, Kurinji, et al.
Published: (2013)

Evaluation of chromatin accessibility in prefrontal cortex of individuals with schizophrenia
by: Julien Bryois, et al.
Published: (2018-08-01)