Literature DB >> 29726898

Enhancers: bridging the gap between gene control and human disease.

Jaret M Karnuta1,2, Peter C Scacheri1.   

Abstract

Enhancers are a class of regulatory elements essential for precise spatio-temporal control of gene expression during development and in terminally differentiated cells. This review highlights signature features of enhancer elements as well as new advances that provide mechanistic insights into enhancer-mediated gene control in the context of three-dimensional chromatin. We detail the various ways in which non-coding mutations can instigate aberrant gene control and cause a variety of Mendelian disorders, common diseases and cancer.

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Mesh:

Year:  2018        PMID: 29726898      PMCID: PMC6061867          DOI: 10.1093/hmg/ddy167

Source DB:  PubMed          Journal:  Hum Mol Genet        ISSN: 0964-6906            Impact factor:   6.150


  97 in total

1.  Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome.

Authors:  Nathaniel D Heintzman; Rhona K Stuart; Gary Hon; Yutao Fu; Christina W Ching; R David Hawkins; Leah O Barrera; Sara Van Calcar; Chunxu Qu; Keith A Ching; Wei Wang; Zhiping Weng; Roland D Green; Gregory E Crawford; Bing Ren
Journal:  Nat Genet       Date:  2007-02-04       Impact factor: 38.330

2.  Super-enhancers in the control of cell identity and disease.

Authors:  Denes Hnisz; Brian J Abraham; Tong Ihn Lee; Ashley Lau; Violaine Saint-André; Alla A Sigova; Heather A Hoke; Richard A Young
Journal:  Cell       Date:  2013-10-10       Impact factor: 41.582

3.  STAG1 mutations cause a novel cohesinopathy characterised by unspecific syndromic intellectual disability.

Authors:  Daphné Lehalle; Anne-Laure Mosca-Boidron; Amber Begtrup; Odile Boute-Benejean; Perrine Charles; Megan T Cho; Amanda Clarkson; Orrin Devinsky; Yannis Duffourd; Laurence Duplomb-Jego; Bénédicte Gérard; Aurélia Jacquette; Paul Kuentz; Alice Masurel-Paulet; Carey McDougall; Sébastien Moutton; Hilde Olivié; Soo-Mi Park; Anita Rauch; Nicole Revencu; Jean-Baptiste Rivière; Karol Rubin; Ingrid Simonic; Deborah J Shears; Thomas Smol; Ana Lisa Taylor Tavares; Paulien Terhal; Julien Thevenon; Koen Van Gassen; Catherine Vincent-Delorme; Marjolein H Willemsen; Golder N Wilson; Elaine Zackai; Christiane Zweier; Patrick Callier; Christel Thauvin-Robinet; Laurence Faivre
Journal:  J Med Genet       Date:  2017-01-24       Impact factor: 6.318

4.  Selective inhibition of tumor oncogenes by disruption of super-enhancers.

Authors:  Jakob Lovén; Heather A Hoke; Charles Y Lin; Ashley Lau; David A Orlando; Christopher R Vakoc; James E Bradner; Tong Ihn Lee; Richard A Young
Journal:  Cell       Date:  2013-04-11       Impact factor: 41.582

5.  Proteomic and bioinformatic analysis of mammalian SWI/SNF complexes identifies extensive roles in human malignancy.

Authors:  Cigall Kadoch; Diana C Hargreaves; Courtney Hodges; Laura Elias; Lena Ho; Jeff Ranish; Gerald R Crabtree
Journal:  Nat Genet       Date:  2013-05-05       Impact factor: 38.330

6.  A Chromosome 7 Pericentric Inversion Defined at Single-Nucleotide Resolution Using Diagnostic Whole Genome Sequencing in a Patient with Hand-Foot-Genital Syndrome.

Authors:  Christopher M Watson; Laura A Crinnion; Sally M Harrison; Carolina Lascelles; Agne Antanaviciute; Ian M Carr; David T Bonthron; Eamonn Sheridan
Journal:  PLoS One       Date:  2016-06-07       Impact factor: 3.240

7.  Composition and dosage of a multipartite enhancer cluster control developmental expression of Ihh (Indian hedgehog).

Authors:  Anja J Will; Giulia Cova; Marco Osterwalder; Wing-Lee Chan; Lars Wittler; Norbert Brieske; Verena Heinrich; Jean-Pierre de Villartay; Martin Vingron; Eva Klopocki; Axel Visel; Darío G Lupiáñez; Stefan Mundlos
Journal:  Nat Genet       Date:  2017-08-28       Impact factor: 38.330

8.  Rubinstein-Taybi 2 associated to novel EP300 mutations: deepening the clinical and genetic spectrum.

Authors:  María López; Alberto García-Oguiza; Judith Armstrong; Inmaculada García-Cobaleda; Sixto García-Miñaur; Fernando Santos-Simarro; Verónica Seidel; Elena Domínguez-Garrido
Journal:  BMC Med Genet       Date:  2018-03-05       Impact factor: 2.103

9.  NIPBL, encoding a homolog of fungal Scc2-type sister chromatid cohesion proteins and fly Nipped-B, is mutated in Cornelia de Lange syndrome.

Authors:  Emma T Tonkin; Tzu-Jou Wang; Steven Lisgo; Michael J Bamshad; Tom Strachan
Journal:  Nat Genet       Date:  2004-05-16       Impact factor: 38.330

10.  Integrative analysis of 111 reference human epigenomes.

Authors:  Anshul Kundaje; Wouter Meuleman; Jason Ernst; Misha Bilenky; Angela Yen; Alireza Heravi-Moussavi; Pouya Kheradpour; Zhizhuo Zhang; Jianrong Wang; Michael J Ziller; Viren Amin; John W Whitaker; Matthew D Schultz; Lucas D Ward; Abhishek Sarkar; Gerald Quon; Richard S Sandstrom; Matthew L Eaton; Yi-Chieh Wu; Andreas R Pfenning; Xinchen Wang; Melina Claussnitzer; Yaping Liu; Cristian Coarfa; R Alan Harris; Noam Shoresh; Charles B Epstein; Elizabeta Gjoneska; Danny Leung; Wei Xie; R David Hawkins; Ryan Lister; Chibo Hong; Philippe Gascard; Andrew J Mungall; Richard Moore; Eric Chuah; Angela Tam; Theresa K Canfield; R Scott Hansen; Rajinder Kaul; Peter J Sabo; Mukul S Bansal; Annaick Carles; Jesse R Dixon; Kai-How Farh; Soheil Feizi; Rosa Karlic; Ah-Ram Kim; Ashwinikumar Kulkarni; Daofeng Li; Rebecca Lowdon; GiNell Elliott; Tim R Mercer; Shane J Neph; Vitor Onuchic; Paz Polak; Nisha Rajagopal; Pradipta Ray; Richard C Sallari; Kyle T Siebenthall; Nicholas A Sinnott-Armstrong; Michael Stevens; Robert E Thurman; Jie Wu; Bo Zhang; Xin Zhou; Arthur E Beaudet; Laurie A Boyer; Philip L De Jager; Peggy J Farnham; Susan J Fisher; David Haussler; Steven J M Jones; Wei Li; Marco A Marra; Michael T McManus; Shamil Sunyaev; James A Thomson; Thea D Tlsty; Li-Huei Tsai; Wei Wang; Robert A Waterland; Michael Q Zhang; Lisa H Chadwick; Bradley E Bernstein; Joseph F Costello; Joseph R Ecker; Martin Hirst; Alexander Meissner; Aleksandar Milosavljevic; Bing Ren; John A Stamatoyannopoulos; Ting Wang; Manolis Kellis
Journal:  Nature       Date:  2015-02-19       Impact factor: 69.504

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  16 in total

1.  TICA: Transcriptional Interaction and Coregulation Analyzer.

Authors:  Stefano Perna; Pietro Pinoli; Stefano Ceri; Limsoon Wong
Journal:  Genomics Proteomics Bioinformatics       Date:  2018-12-19       Impact factor: 7.691

2.  Live-cell protein engineering with an ultra-short split intein.

Authors:  Antony J Burton; Michael Haugbro; Eva Parisi; Tom W Muir
Journal:  Proc Natl Acad Sci U S A       Date:  2020-05-18       Impact factor: 11.205

Review 3.  Transcriptional enhancers at 40: evolution of a viral DNA element to nuclear architectural structures.

Authors:  Sreejith J Nair; Tom Suter; Susan Wang; Lu Yang; Feng Yang; Michael G Rosenfeld
Journal:  Trends Genet       Date:  2022-07-07       Impact factor: 11.821

Review 4.  Regulation of gene expression by growth hormone.

Authors:  Peter Rotwein
Journal:  Mol Cell Endocrinol       Date:  2020-03-06       Impact factor: 4.102

Review 5.  Stem Cells, Genome Editing, and the Path to Translational Medicine.

Authors:  Frank Soldner; Rudolf Jaenisch
Journal:  Cell       Date:  2018-10-18       Impact factor: 41.582

6.  A network-based method for predicting disease-associated enhancers.

Authors:  Duc-Hau Le
Journal:  PLoS One       Date:  2021-12-08       Impact factor: 3.240

7.  Genome-Wide Association Study of Campylobacter-Positive Diarrhea Identifies Genes Involved in Toxin Processing and Inflammatory Response.

Authors:  Rebecca M Munday; Rashidul Haque; Ning-Jiun Jan; Genevieve L Wojcik; Chelsea Marie; Dylan Duchen; Alexander J Mentzer; Uma Nayak; Poonum Korpe; Beth D Kirkpatrick; William A Petri; Priya Duggal
Journal:  mBio       Date:  2022-04-14       Impact factor: 7.786

8.  Signatures of Recent Positive Selection in Enhancers Across 41 Human Tissues.

Authors:  Jiyun M Moon; John A Capra; Patrick Abbot; Antonis Rokas
Journal:  G3 (Bethesda)       Date:  2019-08-08       Impact factor: 3.154

9.  Altered chromatin landscape and enhancer engagement underlie transcriptional dysregulation in MED12 mutant uterine leiomyomas.

Authors:  Mthabisi B Moyo; J Brandon Parker; Debabrata Chakravarti
Journal:  Nat Commun       Date:  2020-02-24       Impact factor: 14.919

Review 10.  Missing heritability in Parkinson's disease: the emerging role of non-coding genetic variation.

Authors:  Jochen Ohnmacht; Patrick May; Lasse Sinkkonen; Rejko Krüger
Journal:  J Neural Transm (Vienna)       Date:  2020-04-04       Impact factor: 3.575

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