Journal ArticleDOI
A new era in functional genomics screens.
Reads0
Chats0
TLDR
A review of the latest approaches for CRISPR-based functional genomics screens, including the adoption of single-cell transcriptomic readout and applications in characterizing the non-coding genome and mapping genetic interactions at scale, can be found in this paper.Abstract:
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 many diseases. Despite this, the function of many genes and gene regulatory elements remains poorly characterized, which limits our ability to apply these insights to human disease. The advent of new CRISPR functional genomics tools allows for scalable and multiplexable characterization of genes and gene regulatory elements encoded by the human genome. These approaches promise to reveal mechanisms of gene function and regulation, and to enable exploration of how genes work together to modulate complex phenotypes. In this Review, Przybyla and Gilbert describe the latest approaches for CRISPR-based functional genomics screens, including the adoption of single-cell transcriptomic read-outs and applications in characterizing the non-coding genome and mapping genetic interactions at scale.read more
Citations
More filters
Journal ArticleDOI
The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest
Damian Szklarczyk,Rebecca Kirsch,Mikaela Koutrouli,Katerina C. Nastou,Farrokh Mehryary,Radja Hachilif,Annika L. Gable,Tao Fang,Nadezhda Tsankova Doncheva,Sampo Pyysalo,Peer Bork,Lars Juhl Jensen,Christian von Mering +12 more
TL;DR: STRING as mentioned in this paper collects and integrates protein-protein interactions, both physical interactions as well as functional associations, from a number of sources: automated text mining of the scientific literature, computational interaction predictions from co-expression, conserved genomic context, databases of interaction experiments and known complexes/pathways from curated sources.
Journal ArticleDOI
Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq
TL;DR: In this paper , the authors perform genome-scale Perturb-seq targeting all expressed genes with CRISPR interference (CRISPRi) across >2.5 million human cells.
Journal ArticleDOI
CRISPR technology: A decade of genome editing is only the beginning
Joy Y. Wang,Jennifer A. Doudna +1 more
TL;DR: Wang et al. as mentioned in this paper reviewed the origins and utility of CRISPR-based genome editing, the successes and current limitations of the technology, and where innovation and engineering are needed.
Journal ArticleDOI
Big data in basic and translational cancer research
TL;DR: Jiang et al. as discussed by the authors reviewed the current state of the art and future challenges for harnessing big data to advance cancer research and treatment, and discussed considerations and strategies for wielding "big data" in basic research and for translational applications such as identifying biomarkers, informing clinical trials and developing new assays and treatments.
Journal ArticleDOI
A guide to systems-level immunomics
Lorenzo Bonaguro,Jonas Schulte-Schrepping,Thomas Ulas,Anna C. Aschenbrenner,Marc Beyer,Joachim L. Schultze +5 more
TL;DR: The immune system is highly complex and distributed throughout an organism, with hundreds to thousands of cell states existing in parallel with diverse molecular pathways interacting in a highly dynamic and coordinated fashion as discussed by the authors .
References
More filters
Journal ArticleDOI
Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors.
TL;DR: Induction of pluripotent stem cells from mouse embryonic or adult fibroblasts by introducing four factors, Oct3/4, Sox2, c-Myc, and Klf4, under ES cell culture conditions is demonstrated and iPS cells, designated iPS, exhibit the morphology and growth properties of ES cells and express ES cell marker genes.
Journal ArticleDOI
MicroRNA signatures in human cancers
George A. Calin,Carlo M. Croce +1 more
TL;DR: MiRNA-expression profiling of human tumours has identified signatures associated with diagnosis, staging, progression, prognosis and response to treatment and has been exploited to identify miRNA genes that might represent downstream targets of activated oncogenic pathways, or that target protein-coding genes involved in cancer.
Journal ArticleDOI
The new frontier of genome engineering with CRISPR-Cas9
TL;DR: The power of the CRISPR-Cas9 technology to systematically analyze gene functions in mammalian cells, study genomic rearrangements and the progression of cancers or other diseases, and potentially correct genetic mutations responsible for inherited disorders is illustrated.
Journal ArticleDOI
Genome-Scale CRISPR-Cas9 Knockout Screening in Human Cells
Ophir Shalem,Ophir Shalem,Neville E. Sanjana,Neville E. Sanjana,Ella Hartenian,Xi-Shun Shi,David A. Scott,David A. Scott,Tarjei S. Mikkelsen,Dirk Heckl,Benjamin L. Ebert,David E. Root,John G. Doench,Feng Zhang,Feng Zhang +14 more
TL;DR: This work shows that lentiviral delivery of a genome-scale CRISPR-Cas9 knockout (GeCKO) library targeting 18,080 genes with 64,751 unique guide sequences enables both negative and positive selection screening in human cells, and observes a high level of consistency between independent guide RNAs targeting the same gene and a high rate of hit confirmation.
Journal ArticleDOI
Improved vectors and genome-wide libraries for CRISPR screening.
TL;DR: In this paper, Zhang et al. used a Genome-scale CRISPR Knock-Out (GeCKO) library to identify loss-of-function mutations in a melanoma model.