A new era in functional genomics screens

L Przybyla, LA Gilbert - Nature Reviews Genetics, 2022 - nature.com
The past 25 years of genomics research first revealed which genes are encoded by the
human genome and then a detailed catalogue of human genome variation associated with …

Epigenome editing technologies for discovery and medicine

SR McCutcheon, D Rohm, N Iglesias… - Nature …, 2024 - nature.com
Epigenome editing has rapidly evolved in recent years, with diverse applications that
include elucidating gene regulation mechanisms, annotating coding and noncoding …

CRISPR screening in hematology research: from bulk to single-cell level

S Meyers, S Demeyer, J Cools - Journal of Hematology & Oncology, 2023 - Springer
The CRISPR genome editing technology has revolutionized the way gene function is
studied. Genome editing can be achieved in single genes or for thousands of genes …

[HTML][HTML] Chromatin modules and their implication in genomic organization and gene regulation

G van Mierlo, O Pushkarev, JF Kribelbauer… - Trends in Genetics, 2023 - cell.com
Regulation of gene expression is a complex but highly guided process. While genomic
technologies and computational approaches have allowed high-throughput map** of cis …

Multicenter integrated analysis of noncoding CRISPRi screens

D Yao, J Tycko, JW Oh, LR Bounds, SJ Gosai… - Nature …, 2024 - nature.com
The ENCODE Consortium's efforts to annotate noncoding cis-regulatory elements (CREs)
have advanced our understanding of gene regulatory landscapes. Pooled, noncoding …

Review of computational methods and database sources for predicting the effects of coding frameshift small insertion and deletion variations

F Ge, M Arif, Z Yan, H Alahmadi… - ACS …, 2024 - ACS Publications
Genetic variations (including substitutions, insertions, and deletions) exert a profound
influence on DNA sequences. These variations are systematically classified as synonymous …

CHD-associated enhancers shape human cardiomyocyte lineage commitment

DA Armendariz, SC Goetsch, A Sundarrajan… - Elife, 2023 - elifesciences.org
Enhancers orchestrate gene expression programs that drive multicellular development and
lineage commitment. Thus, genetic variants at enhancers are thought to contribute to …

[HTML][HTML] Machine learning methods for predicting guide RNA effects in CRISPR epigenome editing experiments

W Mu, T Luo, A Barrera, LR Bounds, TS Klann… - bioRxiv, 2024 - ncbi.nlm.nih.gov
CRISPR epigenomic editing technologies enable functional interrogation of non-coding
elements. However, current computational methods for guide RNA (gRNA) design do not …