Literature DB >> 26545075

Perspectives on Unidirectional versus Divergent Transcription.

Sascha H C Duttke1, Scott A Lacadie2, Mahmoud M Ibrahim3, Christopher K Glass4, David L Corcoran5, Christopher Benner6, Sven Heinz7, James T Kadonaga8, Uwe Ohler9.   

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Year:  2015        PMID： 26545075      PMCID： PMC4643650          DOI： 10.1016/j.molcel.2015.10.014

Source DB:  PubMed          Journal:  Mol Cell        ISSN： 1097-2765            Impact factor:   17.970


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  10 in total

1.  A code for transcription initiation in mammalian genomes.

Authors:  Martin C Frith; Eivind Valen; Anders Krogh; Yoshihide Hayashizaki; Piero Carninci; Albin Sandelin
Journal:  Genome Res       Date:  2007-11-21       Impact factor: 9.043

2.  Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality.

Authors:  Evgenia Ntini; Aino I Järvelin; Jette Bornholdt; Yun Chen; Mette Boyd; Mette Jørgensen; Robin Andersson; Ilka Hoof; Aleks Schein; Peter R Andersen; Pia K Andersen; Pascal Preker; Eivind Valen; Xiaobei Zhao; Vicent Pelechano; Lars M Steinmetz; Albin Sandelin; Torben Heick Jensen
Journal:  Nat Struct Mol Biol       Date:  2013-07-14       Impact factor: 15.369

3.  Human promoters are intrinsically directional.

Authors:  Sascha H C Duttke; Scott A Lacadie; Mahmoud M Ibrahim; Christopher K Glass; David L Corcoran; Christopher Benner; Sven Heinz; James T Kadonaga; Uwe Ohler
Journal:  Mol Cell       Date:  2015-01-29       Impact factor: 17.970

4.  Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers.

Authors:  Leighton J Core; André L Martins; Charles G Danko; Colin T Waters; Adam Siepel; John T Lis
Journal:  Nat Genet       Date:  2014-11-10       Impact factor: 38.330

5.  Nuclear stability and transcriptional directionality separate functionally distinct RNA species.

Authors:  Robin Andersson; Peter Refsing Andersen; Eivind Valen; Leighton J Core; Jette Bornholdt; Mette Boyd; Torben Heick Jensen; Albin Sandelin
Journal:  Nat Commun       Date:  2014-11-12       Impact factor: 14.919

6.  Bidirectional Transcription Arises from Two Distinct Hubs of Transcription Factor Binding and Active Chromatin.

Authors:  Benjamin S Scruggs; Daniel A Gilchrist; Sergei Nechaev; Ginger W Muse; Adam Burkholder; David C Fargo; Karen Adelman
Journal:  Mol Cell       Date:  2015-05-28       Impact factor: 17.970

7.  Native elongating transcript sequencing reveals human transcriptional activity at nucleotide resolution.

Authors:  Andreas Mayer; Julia di Iulio; Seth Maleri; Umut Eser; Jeff Vierstra; Alex Reynolds; Richard Sandstrom; John A Stamatoyannopoulos; L Stirling Churchman
Journal:  Cell       Date:  2015-04-23       Impact factor: 41.582

8.  Human Gene Promoters Are Intrinsically Bidirectional.

Authors:  Robin Andersson; Yun Chen; Leighton Core; John T Lis; Albin Sandelin; Torben Heick Jensen
Journal:  Mol Cell       Date:  2015-11-05       Impact factor: 17.970

9.  Rev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription.

Authors:  Michael T Y Lam; Han Cho; Hanna P Lesch; David Gosselin; Sven Heinz; Yumiko Tanaka-Oishi; Christopher Benner; Minna U Kaikkonen; Aneeza S Kim; Mika Kosaka; Cindy Y Lee; Andy Watt; Tamar R Grossman; Michael G Rosenfeld; Ronald M Evans; Christopher K Glass
Journal:  Nature       Date:  2013-06-02       Impact factor: 49.962

10.  Genomic organization of human transcription initiation complexes.

Authors:  Bryan J Venters; B Franklin Pugh
Journal:  Nature       Date:  2013-09-18       Impact factor: 49.962
  10 in total
  12 in total

Review 1.  R-loop: an emerging regulator of chromatin dynamics.

Authors:  Qais Al-Hadid; Yanzhong Yang
Journal:  Acta Biochim Biophys Sin (Shanghai)       Date:  2016-06-01       Impact factor: 3.848

2.  Pairs of promoter pairs in a web of transcription.

Authors:  Craig D Kaplan
Journal:  Nat Genet       Date:  2016-08-30       Impact factor: 38.330

3.  Developmental Control of NRAMP1 (SLC11A1) Expression in Professional Phagocytes.

Authors:  Mathieu F M Cellier
Journal:  Biology (Basel)       Date:  2017-05-03

4.  Ssl2/TFIIH function in transcription start site scanning by RNA polymerase II in Saccharomyces cerevisiae.

Authors:  Tingting Zhao; Irina O Vvedenskaya; William Km Lai; Shrabani Basu; B Franklin Pugh; Bryce E Nickels; Craig D Kaplan
Journal:  Elife       Date:  2021-10-15       Impact factor: 8.140

5.  Genome-wide assessment of sequence-intrinsic enhancer responsiveness at single-base-pair resolution.

Authors:  Cosmas D Arnold; Muhammad A Zabidi; Michaela Pagani; Martina Rath; Katharina Schernhuber; Tomáš Kazmar; Alexander Stark
Journal:  Nat Biotechnol       Date:  2016-12-26       Impact factor: 54.908

6.  Genome-wide uniformity of human 'open' pre-initiation complexes.

Authors:  William K M Lai; B Franklin Pugh
Journal:  Genome Res       Date:  2016-11-10       Impact factor: 9.043

Review 7.  The punctilious RNA polymerase II core promoter.

Authors:  Long Vo Ngoc; Yuan-Liang Wang; George A Kassavetis; James T Kadonaga
Journal:  Genes Dev       Date:  2017-07-01       Impact factor: 11.361

8.  The orientation of transcription factor binding site motifs in gene promoter regions: does it matter?

Authors:  Monika Lis; Dirk Walther
Journal:  BMC Genomics       Date:  2016-03-03       Impact factor: 3.969

9.  Universal promoter scanning by Pol II during transcription initiation in Saccharomyces cerevisiae.

Authors:  Chenxi Qiu; Huiyan Jin; Irina Vvedenskaya; Jordi Abante Llenas; Tingting Zhao; Indranil Malik; Alex M Visbisky; Scott L Schwartz; Ping Cui; Pavel Čabart; Kang Hoo Han; William K M Lai; Richard P Metz; Charles D Johnson; Sing-Hoi Sze; B Franklin Pugh; Bryce E Nickels; Craig D Kaplan
Journal:  Genome Biol       Date:  2020-06-02       Impact factor: 13.583

10.  Determinants of promoter and enhancer transcription directionality in metazoans.

Authors:  Mahmoud M Ibrahim; Aslihan Karabacak; Alexander Glahs; Ena Kolundzic; Antje Hirsekorn; Alexa Carda; Baris Tursun; Robert P Zinzen; Scott A Lacadie; Uwe Ohler
Journal:  Nat Commun       Date:  2018-10-26       Impact factor: 14.919
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