Literature DB >> 22678387

Dissecting genomic regulatory elements in vivo.

Vanja Haberle, Boris Lenhard.   

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Year:  2012        PMID: 22678387     DOI: 10.1038/nbt.2266

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN: 1087-0156            Impact factor:   54.908


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  13 in total

Review 1.  Metazoan promoters: emerging characteristics and insights into transcriptional regulation.

Authors:  Boris Lenhard; Albin Sandelin; Piero Carninci
Journal:  Nat Rev Genet       Date:  2012-03-06       Impact factor: 53.242

Review 2.  In the loop: long range chromatin interactions and gene regulation.

Authors:  Ann Dean
Journal:  Brief Funct Genomics       Date:  2011-01-22       Impact factor: 4.241

3.  Genome-wide mapping of in vivo protein-DNA interactions.

Authors:  David S Johnson; Ali Mortazavi; Richard M Myers; Barbara Wold
Journal:  Science       Date:  2007-05-31       Impact factor: 47.728

4.  The transcriptional landscape of the mammalian genome.

Authors:  P Carninci; T Kasukawa; S Katayama; J Gough; M C Frith; N Maeda; R Oyama; T Ravasi; B Lenhard; C Wells; R Kodzius; K Shimokawa; V B Bajic; S E Brenner; S Batalov; A R R Forrest; M Zavolan; M J Davis; L G Wilming; V Aidinis; J E Allen; A Ambesi-Impiombato; R Apweiler; R N Aturaliya; T L Bailey; M Bansal; L Baxter; K W Beisel; T Bersano; H Bono; A M Chalk; K P Chiu; V Choudhary; A Christoffels; D R Clutterbuck; M L Crowe; E Dalla; B P Dalrymple; B de Bono; G Della Gatta; D di Bernardo; T Down; P Engstrom; M Fagiolini; G Faulkner; C F Fletcher; T Fukushima; M Furuno; S Futaki; M Gariboldi; P Georgii-Hemming; T R Gingeras; T Gojobori; R E Green; S Gustincich; M Harbers; Y Hayashi; T K Hensch; N Hirokawa; D Hill; L Huminiecki; M Iacono; K Ikeo; A Iwama; T Ishikawa; M Jakt; A Kanapin; M Katoh; Y Kawasawa; J Kelso; H Kitamura; H Kitano; G Kollias; S P T Krishnan; A Kruger; S K Kummerfeld; I V Kurochkin; L F Lareau; D Lazarevic; L Lipovich; J Liu; S Liuni; S McWilliam; M Madan Babu; M Madera; L Marchionni; H Matsuda; S Matsuzawa; H Miki; F Mignone; S Miyake; K Morris; S Mottagui-Tabar; N Mulder; N Nakano; H Nakauchi; P Ng; R Nilsson; S Nishiguchi; S Nishikawa; F Nori; O Ohara; Y Okazaki; V Orlando; K C Pang; W J Pavan; G Pavesi; G Pesole; N Petrovsky; S Piazza; J Reed; J F Reid; B Z Ring; M Ringwald; B Rost; Y Ruan; S L Salzberg; A Sandelin; C Schneider; C Schönbach; K Sekiguchi; C A M Semple; S Seno; L Sessa; Y Sheng; Y Shibata; H Shimada; K Shimada; D Silva; B Sinclair; S Sperling; E Stupka; K Sugiura; R Sultana; Y Takenaka; K Taki; K Tammoja; S L Tan; S Tang; M S Taylor; J Tegner; S A Teichmann; H R Ueda; E van Nimwegen; R Verardo; C L Wei; K Yagi; H Yamanishi; E Zabarovsky; S Zhu; A Zimmer; W Hide; C Bult; S M Grimmond; R D Teasdale; E T Liu; V Brusic; J Quackenbush; C Wahlestedt; J S Mattick; D A Hume; C Kai; D Sasaki; Y Tomaru; S Fukuda; M Kanamori-Katayama; M Suzuki; J Aoki; T Arakawa; J Iida; K Imamura; M Itoh; T Kato; H Kawaji; N Kawagashira; T Kawashima; M Kojima; S Kondo; H Konno; K Nakano; N Ninomiya; T Nishio; M Okada; C Plessy; K Shibata; T Shiraki; S Suzuki; M Tagami; K Waki; A Watahiki; Y Okamura-Oho; H Suzuki; J Kawai; Y Hayashizaki
Journal:  Science       Date:  2005-09-02       Impact factor: 47.728

5.  Transcription initiation patterns indicate divergent strategies for gene regulation at the chromatin level.

Authors:  Elizabeth A Rach; Deborah R Winter; Ashlee M Benjamin; David L Corcoran; Ting Ni; Jun Zhu; Uwe Ohler
Journal:  PLoS Genet       Date:  2011-01-13       Impact factor: 5.917

6.  A user's guide to the encyclopedia of DNA elements (ENCODE).

Authors: 
Journal:  PLoS Biol       Date:  2011-04-19       Impact factor: 8.029

7.  Widespread transcription at neuronal activity-regulated enhancers.

Authors:  Tae-Kyung Kim; Martin Hemberg; Jesse M Gray; Allen M Costa; Daniel M Bear; Jing Wu; David A Harmin; Mike Laptewicz; Kellie Barbara-Haley; Scott Kuersten; Eirene Markenscoff-Papadimitriou; Dietmar Kuhl; Haruhiko Bito; Paul F Worley; Gabriel Kreiman; Michael E Greenberg
Journal:  Nature       Date:  2010-04-14       Impact factor: 49.962

8.  Systematic dissection and optimization of inducible enhancers in human cells using a massively parallel reporter assay.

Authors:  Alexandre Melnikov; Anand Murugan; Xiaolan Zhang; Tiberiu Tesileanu; Li Wang; Peter Rogov; Soheil Feizi; Andreas Gnirke; Curtis G Callan; Justin B Kinney; Manolis Kellis; Eric S Lander; Tarjei S Mikkelsen
Journal:  Nat Biotechnol       Date:  2012-02-26       Impact factor: 54.908

9.  Transcriptional features of genomic regulatory blocks.

Authors:  Altuna Akalin; David Fredman; Erik Arner; Xianjun Dong; Jan Christian Bryne; Harukazu Suzuki; Carsten O Daub; Yoshihide Hayashizaki; Boris Lenhard
Journal:  Genome Biol       Date:  2009-04-19       Impact factor: 13.583

10.  Regulation of even-skipped stripe 2 in the Drosophila embryo.

Authors:  S Small; A Blair; M Levine
Journal:  EMBO J       Date:  1992-11       Impact factor: 11.598

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  7 in total

1.  Functional characterization of SIM1-associated enhancers.

Authors:  Mee J Kim; Nir Oksenberg; Thomas J Hoffmann; Christian Vaisse; Nadav Ahituv
Journal:  Hum Mol Genet       Date:  2013-11-07       Impact factor: 6.150

2.  Fine gene expression regulation by minor sequence variations downstream of the polyadenylation signal.

Authors:  Lidiya V Boldyreva; Lyubov A Yarinich; Elena N Kozhevnikova; Anton V Ivankin; Mikhail O Lebedev; Alexey V Pindyurin
Journal:  Mol Biol Rep       Date:  2021-01-31       Impact factor: 2.316

Review 3.  Genetics of congenital heart disease: the contribution of the noncoding regulatory genome.

Authors:  Alex V Postma; Connie R Bezzina; Vincent M Christoffels
Journal:  J Hum Genet       Date:  2015-07-30       Impact factor: 3.172

Review 4.  Uncovering drug-responsive regulatory elements.

Authors:  Marcelo R Luizon; Nadav Ahituv
Journal:  Pharmacogenomics       Date:  2015-11-10       Impact factor: 2.533

5.  Systematic dissection of coding exons at single nucleotide resolution supports an additional role in cell-specific transcriptional regulation.

Authors:  Ramon Y Birnbaum; Rupali P Patwardhan; Mee J Kim; Gregory M Findlay; Beth Martin; Jingjing Zhao; Robert J A Bell; Robin P Smith; Angel A Ku; Jay Shendure; Nadav Ahituv
Journal:  PLoS Genet       Date:  2014-10-23       Impact factor: 5.917

6.  Functionally conserved enhancers with divergent sequences in distant vertebrates.

Authors:  Song Yang; Nir Oksenberg; Sachiko Takayama; Seok-Jin Heo; Alexander Poliakov; Nadav Ahituv; Inna Dubchak; Dario Boffelli
Journal:  BMC Genomics       Date:  2015-10-30       Impact factor: 3.969

7.  High-resolution mapping, characterization, and optimization of autonomously replicating sequences in yeast.

Authors:  Ivan Liachko; Rachel A Youngblood; Uri Keich; Maitreya J Dunham
Journal:  Genome Res       Date:  2012-12-12       Impact factor: 9.043

  7 in total

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