CRISPR-SONIC: targeted somatic oncogene knock-in enables rapid in vivo cancer modeling.

Abstract:

:CRISPR/Cas9 has revolutionized cancer mouse models. Although loss-of-function genetics by CRISPR/Cas9 is well-established, generating gain-of-function alleles in somatic cancer models is still challenging because of the low efficiency of gene knock-in. Here we developed CRISPR-based Somatic Oncogene kNock-In for Cancer Modeling (CRISPR-SONIC), a method for rapid in vivo cancer modeling using homology-independent repair to integrate oncogenes at a targeted genomic locus. Using a dual guide RNA strategy, we integrated a plasmid donor in the 3'-UTR of mouse β-actin, allowing co-expression of reporter genes or oncogenes from the β-actin promoter. We showed that knock-in of oncogenic Ras and loss of p53 efficiently induced intrahepatic cholangiocarcinoma in mice. Further, our strategy can generate bioluminescent liver cancer to facilitate tumor imaging. This method simplifies in vivo gain-of-function genetics by facilitating targeted integration of oncogenes.

journal_name

Genome Med

journal_title

Genome medicine

authors

Mou H,Ozata DM,Smith JL,Sheel A,Kwan SY,Hough S,Kucukural A,Kennedy Z,Cao Y,Xue W

doi

10.1186/s13073-019-0627-9

subject

Has Abstract

pub_date

2019-04-16 00:00:00

pages

21

issue

1

issn

1756-994X

pii

10.1186/s13073-019-0627-9

journal_volume

11

pub_type

杂志文章
  • Cancer detection and biopsy classification using concurrent histopathological and metabolomic analysis of core biopsies.

    abstract:BACKGROUND:Metabolomics, the non-targeted interrogation of small molecules in a biological sample, is an ideal technology for identifying diagnostic biomarkers. Current tissue extraction protocols involve sample destruction, precluding additional uses of the tissue. This is particularly problematic for high value sampl...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm332

    authors: Brown MV,McDunn JE,Gunst PR,Smith EM,Milburn MV,Troyer DA,Lawton KA

    更新日期:2012-04-30 00:00:00

  • High-dimensional assessment of B-cell responses to quadrivalent meningococcal conjugate and plain polysaccharide vaccine.

    abstract:BACKGROUND:Neisseria meningitidis is a globally important cause of meningitis and septicaemia. Twelve capsular groups of meningococci are known, and quadrivalent vaccines against four of these (A, C, W and Y) are available as plain-polysaccharide and protein-polysaccharide conjugate vaccines. Here we apply contemporary...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-017-0400-x

    authors: O'Connor D,Clutterbuck EA,Thompson AJ,Snape MD,Ramasamy MN,Kelly DF,Pollard AJ

    更新日期:2017-01-30 00:00:00

  • Sharing knowledge: a new frontier for public-private partnerships in medicine.

    abstract::To help overcome the bottlenecks that limit the development of diagnostic and therapeutic products, academic and industrial researchers, patient organizations and charities, and regulatory and funding institutions should redefine the basis for sharing the knowledge collected in large-scale clinical and experimental st...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm29

    authors: Auffray C

    更新日期:2009-03-04 00:00:00

  • Wnt-regulated lncRNA discovery enhanced by in vivo identification and CRISPRi functional validation.

    abstract:BACKGROUND:Wnt signaling is an evolutionarily conserved developmental pathway that is frequently hyperactivated in cancer. While multiple protein-coding genes regulated by Wnt signaling are known, the functional lncRNAs regulated by Wnt signaling have not been systematically characterized. METHODS:We comprehensively m...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-020-00788-5

    authors: Liu S,Harmston N,Glaser TL,Wong Y,Zhong Z,Madan B,Virshup DM,Petretto E

    更新日期:2020-10-22 00:00:00

  • Polygenic risk scores: from research tools to clinical instruments.

    abstract::Genome-wide association studies have shown unequivocally that common complex disorders have a polygenic genetic architecture and have enabled researchers to identify genetic variants associated with diseases. These variants can be combined into a polygenic risk score that captures part of an individual's susceptibilit...

    journal_title:Genome medicine

    pub_type: 杂志文章,评审

    doi:10.1186/s13073-020-00742-5

    authors: Lewis CM,Vassos E

    更新日期:2020-05-18 00:00:00

  • Network-based approaches elucidate differences within APOBEC and clock-like signatures in breast cancer.

    abstract:BACKGROUND:Studies of cancer mutations have typically focused on identifying cancer driving mutations that confer growth advantage to cancer cells. However, cancer genomes accumulate a large number of passenger somatic mutations resulting from various endogenous and exogenous causes, including normal DNA damage and rep...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-020-00745-2

    authors: Kim YA,Wojtowicz D,Sarto Basso R,Sason I,Robinson W,Hochbaum DS,Leiserson MDM,Sharan R,Vadin F,Przytycka TM

    更新日期:2020-05-29 00:00:00

  • Microbiome mediation of infections in the cancer setting.

    abstract::Infections encountered in the cancer setting may arise from intensive cancer treatments or may result from the cancer itself, leading to risk of infections through immune compromise, disruption of anatomic barriers, and exposure to nosocomial (hospital-acquired) pathogens. Consequently, cancer-related infections are u...

    journal_title:Genome medicine

    pub_type: 杂志文章,评审

    doi:10.1186/s13073-016-0306-z

    authors: Taur Y,Pamer EG

    更新日期:2016-04-18 00:00:00

  • Virulence genes are a signature of the microbiome in the colorectal tumor microenvironment.

    abstract:BACKGROUND:The human gut microbiome is associated with the development of colon cancer, and recent studies have found changes in the microbiome in cancer patients compared to healthy controls. Studying the microbial communities in the tumor microenvironment may shed light on the role of host-bacteria interactions in co...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-015-0177-8

    authors: Burns MB,Lynch J,Starr TK,Knights D,Blekhman R

    更新日期:2015-06-24 00:00:00

  • PPAR action in insulin resistance unraveled by metabolomics: potential clinical implications.

    abstract::Metabolomic analysis will provide the next large set of clues to further our understanding of human health and disease. A recent study has elucidated the significant differences in the metabolomes of adipocytes, serum and an adipocyte cell line after activation of two nuclear receptors, peroxisome proliferator activat...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm270

    authors: Patterson AD,Peters JM

    更新日期:2011-08-23 00:00:00

  • Genetic and epigenetic insights into fetal alcohol spectrum disorders.

    abstract::The magnitude of the detrimental effects following in utero alcohol exposure, including fetal alcohol syndrome and other fetal alcohol spectrum disorders (FASD), is globally underestimated. The effects include irreversible cognitive and behavioral disabilities as a result of abnormal brain development, pre- and postna...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm148

    authors: Ramsay M

    更新日期:2010-04-28 00:00:00

  • A population-based gene expression signature of molecular clock phase from a single epidermal sample.

    abstract:BACKGROUND:For circadian medicine to influence health, such as when to take a drug or undergo a procedure, a biomarker of molecular clock phase is required--one that is easily measured and generalizable across a broad population. It is not clear that any circadian biomarker yet satisfies these criteria. METHODS:We ana...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-020-00768-9

    authors: Wu G,Ruben MD,Francey LJ,Smith DF,Sherrill JD,Oblong JE,Mills KJ,Hogenesch JB

    更新日期:2020-08-21 00:00:00

  • Exploiting the noise: improving biomarkers with ensembles of data analysis methodologies.

    abstract:BACKGROUND:The advent of personalized medicine requires robust, reproducible biomarkers that indicate which treatment will maximize therapeutic benefit while minimizing side effects and costs. Numerous molecular signatures have been developed over the past decade to fill this need, but their validation and up-take into...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm385

    authors: Starmans MH,Pintilie M,John T,Der SD,Shepherd FA,Jurisica I,Lambin P,Tsao MS,Boutros PC

    更新日期:2012-11-12 00:00:00

  • DNA methylation signature in blood mirrors successful weight-loss during lifestyle interventions: the CENTRAL trial.

    abstract:BACKGROUND:One of the major challenges in obesity treatment is to explain the high variability in the individual's response to specific dietary and physical activity interventions. With this study, we tested the hypothesis that specific DNA methylation changes reflect individual responsiveness to lifestyle intervention...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-020-00794-7

    authors: Keller M,Yaskolka Meir A,Bernhart SH,Gepner Y,Shelef I,Schwarzfuchs D,Tsaban G,Zelicha H,Hopp L,Müller L,Rohde K,Böttcher Y,Stadler PF,Stumvoll M,Blüher M,Kovacs P,Shai I

    更新日期:2020-11-16 00:00:00

  • Functional profiling of the gut microbiome in disease-associated inflammation.

    abstract::The microbial residents of the human gut are a major factor in the development and lifelong maintenance of health. The gut microbiota differs to a large degree from person to person and has an important influence on health and disease due to its interaction with the human immune system. Its overall composition and mic...

    journal_title:Genome medicine

    pub_type: 杂志文章,评审

    doi:10.1186/gm469

    authors: Börnigen D,Morgan XC,Franzosa EA,Ren B,Xavier RJ,Garrett WS,Huttenhower C

    更新日期:2013-07-31 00:00:00

  • Prenatal diagnosis of fetal aneuploidies: post-genomic developments.

    abstract::Prenatal diagnosis of fetal aneuploidies and chromosomal anomalies is likely to undergo a profound change in the near future. On the one hand this is mediated by new technical developments, such as chromosomal microarrays, which allow a much more precise delineation of minute sub-microscopic chromosomal aberrancies th...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm171

    authors: Hahn S,Jackson LG,Zimmermann BG

    更新日期:2010-08-05 00:00:00

  • Genomic analysis of the molecular neuropathology of tuberous sclerosis using a human stem cell model.

    abstract:BACKGROUND:Tuberous sclerosis complex (TSC) is a genetic disease characterized by benign tumor growths in multiple organs and neurological symptoms induced by mTOR hyperfunction. Because the molecular pathology is highly complex and the etiology poorly understood, we employed a defined human neuronal model with a singl...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-016-0347-3

    authors: Grabole N,Zhang JD,Aigner S,Ruderisch N,Costa V,Weber FC,Theron M,Berntenis N,Spleiss O,Ebeling M,Yeo GW,Jagasia R,Kiialainen A

    更新日期:2016-09-21 00:00:00

  • Predictive, preventive, personalized and participatory medicine: back to the future.

    abstract::The pioneering work of Jean Dausset on the HLA system established several principles that were later reflected in the Human Genome Project and contributed to the foundations of predictive, preventive, personalized and participatory (P4) medicine. To effectively develop systems medicine, we should take advantage of the...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm178

    authors: Auffray C,Charron D,Hood L

    更新日期:2010-08-26 00:00:00

  • Genomics and the classification of mental illness: focus on broader categories.

    abstract::Coinciding with the release of the fifth edition of the Diagnostic and Statistical Manual of Mental Disorders, two recently published molecular genetics analyses suggest large overlaps in genetic liability to schizophrenia, bipolar disorder and major depressive disorder. This indicates that a broader category of sever...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm501

    authors: Uher R

    更新日期:2013-10-25 00:00:00

  • A comparison of epigenetic mitotic-like clocks for cancer risk prediction.

    abstract:BACKGROUND:DNA methylation changes that accrue in the stem cell pool of an adult tissue in line with the cumulative number of cell divisions may contribute to the observed variation in cancer risk among tissues and individuals. Thus, the construction of epigenetic "mitotic" clocks that can measure the lifetime number o...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-020-00752-3

    authors: Teschendorff AE

    更新日期:2020-06-24 00:00:00

  • The three-body problem of therapy with induced pluripotent stem cells.

    abstract::Regenerative medicine has a three-body problem: alignment of the dynamics of the genome, stem cell and patient. Focusing on the rare inherited fragile skin disorder epidermolysis bullosa, three recent innovative studies have used induced pluripotent stem cells and gene correction, revertant mosaicism or genome editing...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-015-0141-7

    authors: Tolar J,McGrath JA

    更新日期:2015-02-20 00:00:00

  • Stem cell banking: between traceability and identifiability.

    abstract::Stem cell banks are increasingly seen as an essential resource of biological materials for both basic and translational research. Stem cell banks support transnational access to quality-controlled and ethically sourced stem cell lines from different origins and of varying grades. According to the Organisation for Econ...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm194

    authors: Knoppers BM,Isasi R

    更新日期:2010-10-05 00:00:00

  • Staging of biliary atresia at diagnosis by molecular profiling of the liver.

    abstract:BACKGROUND:Young age at portoenterostomy has been linked to improved outcome in biliary atresia, but pre-existing biological factors may influence the rate of disease progression. In this study, we aimed to determine whether molecular profiling of the liver identifies stages of disease at diagnosis. METHODS:We examine...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm154

    authors: Moyer K,Kaimal V,Pacheco C,Mourya R,Xu H,Shivakumar P,Chakraborty R,Rao M,Magee JC,Bove K,Aronow BJ,Jegga AG,Bezerra JA

    更新日期:2010-05-13 00:00:00

  • Best practices for bioinformatic characterization of neoantigens for clinical utility.

    abstract::Neoantigens are newly formed peptides created from somatic mutations that are capable of inducing tumor-specific T cell recognition. Recently, researchers and clinicians have leveraged next generation sequencing technologies to identify neoantigens and to create personalized immunotherapies for cancer treatment. To cr...

    journal_title:Genome medicine

    pub_type: 杂志文章,评审

    doi:10.1186/s13073-019-0666-2

    authors: Richters MM,Xia H,Campbell KM,Gillanders WE,Griffith OL,Griffith M

    更新日期:2019-08-28 00:00:00

  • Pancreatic cancer genomics: insights and opportunities for clinical translation.

    abstract::Pancreatic cancer is a highly lethal tumor type for which there are few viable therapeutic options. It is also caused by the accumulation of mutations in a variety of genes. These genetic alterations can be grouped into those that accumulate during pancreatic intraepithelial neoplasia (precursor lesions) and thus are ...

    journal_title:Genome medicine

    pub_type: 杂志文章,评审

    doi:10.1186/gm430

    authors: Makohon-Moore A,Brosnan JA,Iacobuzio-Donahue CA

    更新日期:2013-03-28 00:00:00

  • Genome-wide association studies are coming for human infectious diseases.

    abstract::A genetic contribution to infectious disease in human populations has long been suspected and is now supported by more than 50 years of epidemiological evidence showing, for example, infection rates to be much higher than disease rates. In successful family studies of high-penetrance effects, single gene mutations hav...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm19

    authors: Davila S,Hibberd ML

    更新日期:2009-02-10 00:00:00

  • Identification of Jun loss promotes resistance to histone deacetylase inhibitor entinostat through Myc signaling in luminal breast cancer.

    abstract:BACKGROUND:Based on promising phase II data, the histone deacetylase inhibitor entinostat is in phase III trials for patients with metastatic estrogen receptor-positive breast cancer. Predictors of sensitivity and resistance, however, remain unknown. METHODS:A total of eight cell lines and nine mouse models of breast ...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-018-0597-3

    authors: Tanioka M,Mott KR,Hollern DP,Fan C,Darr DB,Perou CM

    更新日期:2018-11-30 00:00:00

  • Genomic variants associated with primary biliary cirrhosis.

    abstract::Primary biliary cirrhosis (PBC) is an autoimmune hepatobiliary disease characterized by immune-mediated injury of small and medium-sized bile ducts, eventually leading to liver cirrhosis. Several studies have addressed PBC immunopathology, and the data support an immune activation leading to autoantibodies and autorea...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/gm126

    authors: Selmi C,Torok NJ,Affronti A,Gershwin ME

    更新日期:2010-01-26 00:00:00

  • Genomic insights into the overlap between psychiatric disorders: implications for research and clinical practice.

    abstract::Psychiatric disorders such as schizophrenia, bipolar disorder, major depressive disorder, attention-deficit/hyperactivity disorder and autism spectrum disorder are common and result in significant morbidity and mortality. Although currently classified into distinct disorder categories, they show clinical overlap and f...

    journal_title:Genome medicine

    pub_type: 杂志文章,评审

    doi:10.1186/gm546

    authors: Doherty JL,Owen MJ

    更新日期:2014-04-28 00:00:00

  • Ultradeep analysis of tumor heterogeneity in regions of somatic hypermutation.

    abstract::Tumor heterogeneity is of growing importance in the treatment of cancers. Mutational hot spots are prime locations for determining number and proportions of low variant allele frequency (VAF) tumor subclones by next generation sequencing. Low VAF detection is complicated by poor mapping efficiency in regions with high...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-015-0147-1

    authors: Spence JM,Spence JP,Abumoussa A,Burack WR

    更新日期:2015-03-12 00:00:00

  • Defining functional signatures of dysbiosis in periodontitis progression.

    abstract::Periodontitis is a common inflammatory disease that leads to tooth loss and has been linked to cardiovascular disease and diabetes mellitus. The periodontal microbiome is highly diverse, and metatranscriptomic studies have indicated that the genes that are expressed by the microbiota are more relevant than the microbi...

    journal_title:Genome medicine

    pub_type: 杂志文章

    doi:10.1186/s13073-015-0165-z

    authors: Wang GP

    更新日期:2015-04-27 00:00:00