The transcriptomic landscape and directed chemical interrogation of MLL-rearranged acute myeloid leukemias.

Abstract:

:Using next-generation sequencing of primary acute myeloid leukemia (AML) specimens, we identified to our knowledge the first unifying genetic network common to the two subgroups of KMT2A (MLL)-rearranged leukemia, namely having MLL fusions or partial tandem duplications. Within this network, we experimentally confirmed upregulation of the gene with the most subtype-specific increase in expression, LOC100289656, and identified cryptic MLL fusions, including a new MLL-ENAH fusion. We also identified a subset of MLL fusion specimens carrying mutations in SPI1 accompanied by inactivation of its transcriptional network, as well as frequent RAS pathway mutations, which sensitized the leukemias to synthetic lethal interactions between MEK and receptor tyrosine kinase inhibitors. This transcriptomics-based characterization and chemical interrogation of human MLL-rearranged AML was a valuable approach for identifying complementary features that define this disease.

journal_name

Nat Genet

journal_title

Nature genetics

authors

Lavallée VP,Baccelli I,Krosl J,Wilhelm B,Barabé F,Gendron P,Boucher G,Lemieux S,Marinier A,Meloche S,Hébert J,Sauvageau G

doi

10.1038/ng.3371

subject

Has Abstract

pub_date

2015-09-01 00:00:00

pages

1030-7

issue

9

eissn

1061-4036

issn

1546-1718

pii

ng.3371

journal_volume

47

pub_type

杂志文章
  • Mutation of NLRC4 causes a syndrome of enterocolitis and autoinflammation.

    abstract::Upon detection of pathogen-associated molecular patterns, innate immune receptors initiate inflammatory responses. These receptors include cytoplasmic NOD-like receptors (NLRs) whose stimulation recruits and proteolytically activates caspase-1 within the inflammasome, a multiprotein complex. Caspase-1 mediates the pro...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3066

    authors: Romberg N,Al Moussawi K,Nelson-Williams C,Stiegler AL,Loring E,Choi M,Overton J,Meffre E,Khokha MK,Huttner AJ,West B,Podoltsev NA,Boggon TJ,Kazmierczak BI,Lifton RP

    更新日期:2014-10-01 00:00:00

  • New HLA-DPB1 alleles generated by interallelic gene conversion detected by analysis of sperm.

    abstract::The rate at which allelic diversity at the HLA loci evolves has been the subject of considerable controversy. The patchwork pattern of sequence polymorphism within the second exon of the HLA class II loci, particularly in the DPB1 locus, may have been generated by segmental exchange (gene conversion). We have analysed...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0895-407

    authors: Zangenberg G,Huang MM,Arnheim N,Erlich H

    更新日期:1995-08-01 00:00:00

  • Genome-wide association study of restless legs syndrome identifies common variants in three genomic regions.

    abstract::Restless legs syndrome (RLS) is a frequent neurological disorder characterized by an imperative urge to move the legs during night, unpleasant sensation in the lower limbs, disturbed sleep and increased cardiovascular morbidity. In a genome-wide association study we found highly significant associations between RLS an...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng2099

    authors: Winkelmann J,Schormair B,Lichtner P,Ripke S,Xiong L,Jalilzadeh S,Fulda S,Pütz B,Eckstein G,Hauk S,Trenkwalder C,Zimprich A,Stiasny-Kolster K,Oertel W,Bachmann CG,Paulus W,Peglau I,Eisensehr I,Montplaisir J,Turecki G

    更新日期:2007-08-01 00:00:00

  • Mutations associated with familial melanoma impair p16INK4 function.

    abstract::Cell division is controlled by a series of positive and negative regulators which act at sequential points throughout the cell cycle. Disturbance of these checks could contribute to cancer by allowing excessive cell proliferation. The point in G1 at which cells irrevocably commit to DNA synthesis is controlled by prot...

    journal_title:Nature genetics

    pub_type: 信件

    doi:10.1038/ng0595-114

    authors: Ranade K,Hussussian CJ,Sikorski RS,Varmus HE,Goldstein AM,Tucker MA,Serrano M,Hannon GJ,Beach D,Dracopoli NC

    更新日期:1995-05-01 00:00:00

  • Mapping autism risk loci using genetic linkage and chromosomal rearrangements.

    abstract::Autism spectrum disorders (ASDs) are common, heritable neurodevelopmental conditions. The genetic architecture of ASDs is complex, requiring large samples to overcome heterogeneity. Here we broaden coverage and sample size relative to other studies of ASDs by using Affymetrix 10K SNP arrays and 1,181 [corrected] famil...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1985

    authors: Autism Genome Project Consortium.,Szatmari P,Paterson AD,Zwaigenbaum L,Roberts W,Brian J,Liu XQ,Vincent JB,Skaug JL,Thompson AP,Senman L,Feuk L,Qian C,Bryson SE,Jones MB,Marshall CR,Scherer SW,Vieland VJ,Bartlett C,

    更新日期:2007-03-01 00:00:00

  • ITPKC functional polymorphism associated with Kawasaki disease susceptibility and formation of coronary artery aneurysms.

    abstract::Kawasaki disease is a pediatric systemic vasculitis of unknown etiology for which a genetic influence is suspected. We identified a functional SNP (itpkc_3) in the inositol 1,4,5-trisphosphate 3-kinase C (ITPKC) gene on chromosome 19q13.2 that is significantly associated with Kawasaki disease susceptibility and also w...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.2007.59

    authors: Onouchi Y,Gunji T,Burns JC,Shimizu C,Newburger JW,Yashiro M,Nakamura Y,Yanagawa H,Wakui K,Fukushima Y,Kishi F,Hamamoto K,Terai M,Sato Y,Ouchi K,Saji T,Nariai A,Kaburagi Y,Yoshikawa T,Suzuki K,Tanaka T,Nagai T,

    更新日期:2008-01-01 00:00:00

  • Nuclear reprogramming of cloned embryos and its implications for therapeutic cloning.

    abstract::Therapeutic cloning, whereby somatic cell nuclear transfer (SCNT) is used to generate patient-specific embryonic stem cells (ESCs) from blastocysts cloned by nuclear transfer (ntESCs), holds great promise for the treatment of many human diseases. ntESCs have been derived in mice and cattle, but thus far there are no c...

    journal_title:Nature genetics

    pub_type: 杂志文章,评审

    doi:10.1038/ng1973

    authors: Yang X,Smith SL,Tian XC,Lewin HA,Renard JP,Wakayama T

    更新日期:2007-03-01 00:00:00

  • Apolipoprotein E allele-specific antioxidant activity and effects on cytotoxicity by oxidative insults and beta-amyloid peptides.

    abstract::The apolipoprotein E (APOE) E4 allele is associated with Alzheimer's disease, cardiovascular disease, and decreased longevity. To probe the mechanism of these associations, cell lines were created which secrete each apoE isoform. ApoE conditioned media, purified apoE, and commercially obtained apoE protected B12 cells...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0996-55

    authors: Miyata M,Smith JD

    更新日期:1996-09-01 00:00:00

  • A novel metalloprotease/disintegrin-like gene at 17q21.3 is somatically rearranged in two primary breast cancers.

    abstract::From chromosomal region 17q21.3, where a tumour suppressor gene(s) for breast and ovarian cancers is thought to be present, we have isolated a novel gene from a cosmid clone that revealed somatic rearrangements in two breast cancers. The gene (MDC) encodes a 524-amino acid metalloprotease-like, disintegrin-like and cy...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1093-151

    authors: Emi M,Katagiri T,Harada Y,Saito H,Inazawa J,Ito I,Kasumi F,Nakamura Y

    更新日期:1993-10-01 00:00:00

  • Author Correction: The copy number variation landscape of congenital anomalies of the kidney and urinary tract.

    abstract::In the version of this article initially published, affiliation 38 incorrectly read "ICNU-Nephrology and Urology Department, Barcelona, Spain"; "Renal Division, Hospital Clinic, IDIBAPS, University of Barcelona, Barcelona, Spain" is the correct affiliation. The error has been corrected in the HTML and PDF versions of ...

    journal_title:Nature genetics

    pub_type: 杂志文章,已发布勘误

    doi:10.1038/s41588-019-0376-0

    authors: Verbitsky M,Westland R,Perez A,Kiryluk K,Liu Q,Krithivasan P,Mitrotti A,Fasel DA,Batourina E,Sampson MG,Bodria M,Werth M,Kao C,Martino J,Capone VP,Vivante A,Shril S,Kil BH,Marasa M,Zhang JY,Na YJ,Lim TY,Ahram

    更新日期:2019-04-01 00:00:00

  • Mutation of a histidine-rich calcium-binding-protein gene in wheat confers resistance to Fusarium head blight.

    abstract::Head or ear blight, mainly caused by Fusarium species, can devastate almost all staple cereal crops (particularly wheat), resulting in great economic loss and imposing health threats on both human beings and livestock1-3. However, achievement in breeding for highly resistant cultivars is still not satisfactory. Here, ...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/s41588-019-0426-7

    authors: Li G,Zhou J,Jia H,Gao Z,Fan M,Luo Y,Zhao P,Xue S,Li N,Yuan Y,Ma S,Kong Z,Jia L,An X,Jiang G,Liu W,Cao W,Zhang R,Fan J,Xu X,Liu Y,Kong Q,Zheng S,Wang Y,Qin B,Cao S,Ding Y,Shi J,Yan H,Wang X,Ran

    更新日期:2019-07-01 00:00:00

  • Plectin deficiency results in muscular dystrophy with epidermolysis bullosa.

    abstract::We report that mutation in the gene for plectin, a cytoskeleton-membrane anchorage protein, is a cause of autosomal recessive muscular dystrophy associated with skin blistering (epidermolysis bullosa simplex). The evidence comes from absence of plectin by antibody staining in affected individuals from four families, s...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0896-450

    authors: Smith FJ,Eady RA,Leigh IM,McMillan JR,Rugg EL,Kelsell DP,Bryant SP,Spurr NK,Geddes JF,Kirtschig G,Milana G,de Bono AG,Owaribe K,Wiche G,Pulkkinen L,Uitto J,McLean WH,Lane EB

    更新日期:1996-08-01 00:00:00

  • Author Correction: Transcription phenotypes of pancreatic cancer are driven by genomic events during tumor evolution.

    abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title:Nature genetics

    pub_type: 已发布勘误

    doi:10.1038/s41588-020-0588-3

    authors: Chan-Seng-Yue M,Kim JC,Wilson GW,Ng K,Figueroa EF,O'Kane GM,Connor AA,Denroche RE,Grant RC,McLeod J,Wilson JM,Jang GH,Zhang A,Liang SB,Borgida A,Chadwick D,Kalimuthu S,Lungu I,Bartlett JMS,Krzyzanowski PM,Sandhu V

    更新日期:2020-04-01 00:00:00

  • Contribution of the FMR1 gene mutation to human intellectual dysfunction.

    abstract::The degree to which genetic factors influence human intelligence remains a matter of some controversy. However, there is little doubt that single gene mutations can significantly alter brain development and function. For example, mutations affecting the FMR1 gene cause the fragile X syndrome, the most prevalent known ...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1195-331

    authors: Reiss AL,Freund LS,Baumgardner TL,Abrams MT,Denckla MB

    更新日期:1995-11-01 00:00:00

  • Mapping, cloning and genetic characterization of the region containing the Wilson disease gene.

    abstract::Wilson disease (WD) is an autosomal recessive disorder of copper transport which map to chromosome 13q14.3. In pursuit of the WD gene, we developed yeast artificial chromosome and cosmid contigs, and microsatellite markers which span the WD gene region. Linkage disequilibrium and haplotype analysis of 115 WD families ...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1293-338

    authors: Petrukhin K,Fischer SG,Pirastu M,Tanzi RE,Chernov I,Devoto M,Brzustowicz LM,Cayanis E,Vitale E,Russo JJ

    更新日期:1993-12-01 00:00:00

  • Candidate lung tumor susceptibility genes identified through whole-genome association analyses in inbred mice.

    abstract::We performed a whole-genome association analysis of lung tumor susceptibility using dense SNP maps ( approximately 1 SNP per 20 kb) in inbred mice. We reproduced the pulmonary adenoma susceptibility 1 (Pas1) locus identified in previous linkage studies and further narrowed this quantitative trait locus (QTL) to a regi...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1849

    authors: Liu P,Wang Y,Vikis H,Maciag A,Wang D,Lu Y,Liu Y,You M

    更新日期:2006-08-01 00:00:00

  • MASA syndrome is due to mutations in the neural cell adhesion gene L1CAM.

    abstract::MASA syndrome is a recessive X-linked disorder characterized by mental retardation, adducted thumbs, shuffling gait, aphasia and, in some cases, hydrocephalus. Since it has been shown that X-linked hydrocephalus can be caused by mutations in L1CAM, a neuronal cell adhesion molecule, we performed an L1CAM mutation anal...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0794-408

    authors: Vits L,Van Camp G,Coucke P,Fransen E,De Boulle K,Reyniers E,Korn B,Poustka A,Wilson G,Schrander-Stumpel C

    更新日期:1994-07-01 00:00:00

  • Studies of human, mouse and yeast homologues indicate a mitochondrial function for frataxin.

    abstract::Friedreich's ataxia is due to loss of function mutations in the gene encoding frataxin (FRDA). Frataxin is a protein of unknown function. In situ hybridization analyses revealed that mouse frataxin expression correlates well with the main site of neurodegeneration, but the expression pattern is broader than expected f...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0897-345

    authors: Koutnikova H,Campuzano V,Foury F,Dollé P,Cazzalini O,Koenig M

    更新日期:1997-08-01 00:00:00

  • Mutations in the xeroderma pigmentosum group D DNA repair/transcription gene in patients with trichothiodystrophy.

    abstract::DNA repair defects in the xeroderma pigmentosum (XP) group D complementation group can be associated with the clinical features of two quite different disorders; XP, a sun-sensitive and cancer-prone disorder, or trichothiodystrophy (TTD) which is characterized by sulphur-deficient brittle hair and a variety of other a...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0694-189

    authors: Broughton BC,Steingrimsdottir H,Weber CA,Lehmann AR

    更新日期:1994-06-01 00:00:00

  • Somatic mutations altering EZH2 (Tyr641) in follicular and diffuse large B-cell lymphomas of germinal-center origin.

    abstract::Follicular lymphoma (FL) and the GCB subtype of diffuse large B-cell lymphoma (DLBCL) derive from germinal center B cells. Targeted resequencing studies have revealed mutations in various genes encoding proteins in the NF-kappaB pathway that contribute to the activated B-cell (ABC) DLBCL subtype, but thus far few GCB-...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.518

    authors: Morin RD,Johnson NA,Severson TM,Mungall AJ,An J,Goya R,Paul JE,Boyle M,Woolcock BW,Kuchenbauer F,Yap D,Humphries RK,Griffith OL,Shah S,Zhu H,Kimbara M,Shashkin P,Charlot JF,Tcherpakov M,Corbett R,Tam A,Varhol R

    更新日期:2010-02-01 00:00:00

  • Inactivation of Capicua drives cancer metastasis.

    abstract::Metastasis is the leading cause of death in people with lung cancer, yet the molecular effectors underlying tumor dissemination remain poorly defined. Through the development of an in vivo spontaneous lung cancer metastasis model, we show that the developmentally regulated transcriptional repressor Capicua (CIC) suppr...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3728

    authors: Okimoto RA,Breitenbuecher F,Olivas VR,Wu W,Gini B,Hofree M,Asthana S,Hrustanovic G,Flanagan J,Tulpule A,Blakely CM,Haringsma HJ,Simmons AD,Gowen K,Suh J,Miller VA,Ali S,Schuler M,Bivona TG

    更新日期:2017-01-01 00:00:00

  • Mapping of a gene predisposing to early-onset Alzheimer's disease to chromosome 14q24.3.

    abstract::Genetic linkage studies with chromosome 21 DNA markers and mutation analysis of the beta-amyloid protein precursor gene located in 21q21.3 have indicated that early-onset Alzheimer's disease (EOAD) is a heterogeneous disorder for which at least one other chromosomal locus exists. We examined two extended histopatholog...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1292-335

    authors: Van Broeckhoven C,Backhovens H,Cruts M,De Winter G,Bruyland M,Cras P,Martin JJ

    更新日期:1992-12-01 00:00:00

  • SMAD4-deficient intestinal tumors recruit CCR1+ myeloid cells that promote invasion.

    abstract::Inactivation of TGF-beta family signaling is implicated in colorectal tumor progression. Using cis-Apc(+/Delta716) Smad4(+/-) mutant mice (referred to as cis-Apc/Smad4), a model of invasive colorectal cancer in which TGF-beta family signaling is blocked, we show here that a new type of immature myeloid cell (iMC) is r...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng1997

    authors: Kitamura T,Kometani K,Hashida H,Matsunaga A,Miyoshi H,Hosogi H,Aoki M,Oshima M,Hattori M,Takabayashi A,Minato N,Taketo MM

    更新日期:2007-04-01 00:00:00

  • A Y-encoded subunit of the translation initiation factor Eif2 is essential for mouse spermatogenesis.

    abstract::In mouse and man, deletions of specific regions of the Y chromosome have been linked to early failure of spermatogenesis and consequent sterility; the Y chromosomal gene(s) with this essential early role in spermatogenesis have not been identified. The partial deletion of the mouse Y short arm (the Sxrb deletion) that...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng717

    authors: Mazeyrat S,Saut N,Grigoriev V,Mahadevaiah SK,Ojarikre OA,Rattigan A,Bishop C,Eicher EM,Mitchell MJ,Burgoyne PS

    更新日期:2001-09-01 00:00:00

  • Structural forms of the human amylase locus and their relationships to SNPs, haplotypes and obesity.

    abstract::Hundreds of genes reside in structurally complex, poorly understood regions of the human genome. One such region contains the three amylase genes (AMY2B, AMY2A and AMY1) responsible for digesting starch into sugar. Copy number of AMY1 is reported to be the largest genomic influence on obesity, although genome-wide ass...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3340

    authors: Usher CL,Handsaker RE,Esko T,Tuke MA,Weedon MN,Hastie AR,Cao H,Moon JE,Kashin S,Fuchsberger C,Metspalu A,Pato CN,Pato MT,McCarthy MI,Boehnke M,Altshuler DM,Frayling TM,Hirschhorn JN,McCarroll SA

    更新日期:2015-08-01 00:00:00

  • Emergence of scarlet fever Streptococcus pyogenes emm12 clones in Hong Kong is associated with toxin acquisition and multidrug resistance.

    abstract::A scarlet fever outbreak began in mainland China and Hong Kong in 2011 (refs. 1-6). Macrolide- and tetracycline-resistant Streptococcus pyogenes emm12 isolates represent the majority of clinical cases. Recently, we identified two mobile genetic elements that were closely associated with emm12 outbreak isolates: the in...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3147

    authors: Davies MR,Holden MT,Coupland P,Chen JH,Venturini C,Barnett TC,Zakour NL,Tse H,Dougan G,Yuen KY,Walker MJ

    更新日期:2015-01-01 00:00:00

  • The apolipoprotein(a) gene is regulated by sex hormones and acute-phase inducers in YAC transgenic mice.

    abstract::High plasma concentrations of apolipoprotein (a) (apo(a)) have been implicated as a major independent risk factor for atherosclerosis in humans. Apo(a) is a large, evolutionarily new gene (present primarily in primates) for which considerable controversy exists concerning the factors that regulate its expression. To i...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng0495-424

    authors: Frazer KA,Narla G,Zhang JL,Rubin EM

    更新日期:1995-04-01 00:00:00

  • DNA methylation dynamics during B cell maturation underlie a continuum of disease phenotypes in chronic lymphocytic leukemia.

    abstract::Charting differences between tumors and normal tissue is a mainstay of cancer research. However, clonal tumor expansion from complex normal tissue architectures potentially obscures cancer-specific events, including divergent epigenetic patterns. Using whole-genome bisulfite sequencing of normal B cell subsets, we obs...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.3488

    authors: Oakes CC,Seifert M,Assenov Y,Gu L,Przekopowitz M,Ruppert AS,Wang Q,Imbusch CD,Serva A,Koser SD,Brocks D,Lipka DB,Bogatyrova O,Weichenhan D,Brors B,Rassenti L,Kipps TJ,Mertens D,Zapatka M,Lichter P,Döhner H,Küppe

    更新日期:2016-03-01 00:00:00

  • Activating ESR1 mutations in hormone-resistant metastatic breast cancer.

    abstract::Breast cancer is the most prevalent cancer in women, and over two-thirds of cases express estrogen receptor-α (ER-α, encoded by ESR1). Through a prospective clinical sequencing program for advanced cancers, we enrolled 11 patients with ER-positive metastatic breast cancer. Whole-exome and transcriptome analysis showed...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.2823

    authors: Robinson DR,Wu YM,Vats P,Su F,Lonigro RJ,Cao X,Kalyana-Sundaram S,Wang R,Ning Y,Hodges L,Gursky A,Siddiqui J,Tomlins SA,Roychowdhury S,Pienta KJ,Kim SY,Roberts JS,Rae JM,Van Poznak CH,Hayes DF,Chugh R,Kunju LP,

    更新日期:2013-12-01 00:00:00

  • Recurrent reciprocal 1q21.1 deletions and duplications associated with microcephaly or macrocephaly and developmental and behavioral abnormalities.

    abstract::Chromosome region 1q21.1 contains extensive and complex low-copy repeats, and copy number variants (CNVs) in this region have recently been reported in association with congenital heart defects, developmental delay, schizophrenia and related psychoses. We describe 21 probands with the 1q21.1 microdeletion and 15 proba...

    journal_title:Nature genetics

    pub_type: 杂志文章

    doi:10.1038/ng.279

    authors: Brunetti-Pierri N,Berg JS,Scaglia F,Belmont J,Bacino CA,Sahoo T,Lalani SR,Graham B,Lee B,Shinawi M,Shen J,Kang SH,Pursley A,Lotze T,Kennedy G,Lansky-Shafer S,Weaver C,Roeder ER,Grebe TA,Arnold GL,Hutchison T,Rei

    更新日期:2008-12-01 00:00:00