Towards a comprehensive catalogue of validated and target-linked human enhancers

M Gasperini, JM Tome, J Shendure - Nature Reviews Genetics, 2020 - nature.com
The human gene catalogue is essentially complete, but we lack an equivalently vetted
inventory of bona fide human enhancers. Hundreds of thousands of candidate enhancers …

The psychencode project

S Akbarian, C Liu, JA Knowles, FM Vaccarino… - Nature …, 2015 - nature.com
Recent research on disparate psychiatric disorders has implicated rare variants in genes
involved in global gene regulation and chromatin modification, as well as many common …

CRISPR–Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome

TS Klann, JB Black, M Chellappan, A Safi, L Song… - Nature …, 2017 - nature.com
Large genome-mapping consortia and thousands of genome-wide association studies have
identified non-protein-coding elements in the genome as having a central role in various …

Variant interpretation: functional assays to the rescue

LM Starita, N Ahituv, MJ Dunham, JO Kitzman… - The American Journal of …, 2017 - cell.com
Classical genetic approaches for interpreting variants, such as case-control or co-
segregation studies, require finding many individuals with each variant. Because the …

Direct identification of hundreds of expression-modulating variants using a multiplexed reporter assay

R Tewhey, D Kotliar, DS Park, B Liu, S Winnicki… - Cell, 2016 - cell.com
Although studies have identified hundreds of loci associated with human traits and diseases,
pinpointing causal alleles remains difficult, particularly for non-coding variants. To address …

Interrogation of enhancer function by enhancer-targeting CRISPR epigenetic editing

K Li, Y Liu, H Cao, Y Zhang, Z Gu, X Liu, A Yu… - Nature …, 2020 - nature.com
Tissue-specific gene expression requires coordinated control of gene-proximal and-distal
cis-regulatory elements (CREs), yet functional analysis of gene-distal CREs such as …

[HTML][HTML] Systematic functional dissection of common genetic variation affecting red blood cell traits

JC Ulirsch, SK Nandakumar, L Wang, FC Giani… - Cell, 2016 - cell.com
Genome-wide association studies (GWAS) have successfully identified thousands of
associations between common genetic variants and human disease phenotypes, but the …

A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity

F Inoue, M Kircher, B Martin, GM Cooper… - Genome …, 2017 - genome.cshlp.org
Candidate enhancers can be identified on the basis of chromatin modifications, the binding
of chromatin modifiers and transcription factors and cofactors, or chromatin accessibility …

High-throughput identification of human SNPs affecting regulatory element activity

J van Arensbergen, L Pagie, VD FitzPatrick… - Nature …, 2019 - nature.com
Most of the millions of SNPs in the human genome are non-coding, and many overlap with
putative regulatory elements. Genome-wide association studies (GWAS) have linked many …

Functional regulatory variants implicate distinct transcriptional networks in dementia

YA Cooper, N Teyssier, NM Dräger, Q Guo, JE Davis… - Science, 2022 - science.org
Predicting the function of noncoding variation is a major challenge in modern genetics. In
this study, we used massively parallel reporter assays to screen 5706 variants identified …