ChIP-seq accurately predicts tissue-specific activity of enhancers

…, I Plajzer-Frick, M Shoukry, C Wright, F Chen, V Afzal… - Nature, 2009 - nature.com
A major yet unresolved quest in decoding the human genome is the identification of the
regulatory sequences that control the spatial and temporal expression of genes. Distant-acting …

In vivo enhancer analysis of human conserved non-coding sequences

…, KD Lewis, I Plajzer-Frick, J Akiyama, S De Val, V Afzal… - Nature, 2006 - nature.com
Identifying the sequences that direct the spatial and temporal expression of genes and
defining their function in vivo remains a significant challenge in the annotation of vertebrate …

Scanning human gene deserts for long-range enhancers

MA Nobrega, I Ovcharenko, V Afzal, EM Rubin - Science, 2003 - science.org
Approximately 25% of the genome consists of gene-poor regions greater than 500 kb,
termed gene deserts (1). These segments have been minimally explored, and their functional …

Enhancer redundancy provides phenotypic robustness in mammalian development

…, V Tissières, Y Fukuda-Yuzawa, BJ Mannion, SY Afzal… - Nature, 2018 - nature.com
Distant-acting tissue-specific enhancers, which regulate gene expression, vastly outnumber
protein-coding genes in mammalian genomes, but the functional importance of this …

ChIP-Seq identification of weakly conserved heart enhancers

…, I Plajzer-Frick, M Shoukry, C Wright, F Chen, V Afzal… - Nature …, 2010 - nature.com
Accurate control of tissue-specific gene expression plays a pivotal role in heart development,
but few cardiac transcriptional enhancers have thus far been identified. Extreme noncoding-…

Targeted deletion of the 9p21 non-coding coronary artery disease risk interval in mice

A Visel, Y Zhu, D May, V Afzal, E Gong, C Attanasio… - Nature, 2010 - nature.com
Sequence polymorphisms in a 58-kilobase (kb) interval on chromosome 9p21 confer a
markedly increased risk of coronary artery disease (CAD), the leading cause of death worldwide …

Human-specific gain of function in a developmental enhancer

…, I Plajzer-Frick, H Morrison, DR FitzPatrick, V Afzal… - Science, 2008 - science.org
Changes in gene regulation are thought to have contributed to the evolution of human
development. However, in vivo evidence for uniquely human developmental regulatory function …

[HTML][HTML] Deletion of ultraconserved elements yields viable mice

N Ahituv, Y Zhu, A Visel, A Holt, V Afzal… - PLoS …, 2007 - journals.plos.org
Ultraconserved elements have been suggested to retain extended perfect sequence identity
between the human, mouse, and rat genomes due to essential functional properties. To …

[HTML][HTML] Rapid and pervasive changes in genome-wide enhancer usage during mammalian development

…, S Phouanenavong, I Plajzer-Frick, M Shoukry, V Afzal… - Cell, 2013 - cell.com
Enhancers are distal regulatory elements that can activate tissue-specific gene expression
and are abundant throughout mammalian genomes. Although substantial progress has been …

Ultraconservation identifies a small subset of extremely constrained developmental enhancers

…, M Shoukry, KD Lewis, A Holt, I Plajzer-Frick, V Afzal… - Nature …, 2008 - nature.com
Extended perfect human-rodent sequence identity of at least 200 base pairs (ultraconservation)
is potentially indicative of evolutionary or functional uniqueness. We used a transgenic …