Literature DB >> 29489745

RNA dynamics revealed by metabolic RNA labeling and biochemical nucleoside conversions.

Marisa A P Baptista1, Lars Dölken1.   

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Year:  2018        PMID： 29489745     DOI： 10.1038/nmeth.4608

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


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  9 in total

1.  High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay.

Authors:  Lars Dölken; Zsolt Ruzsics; Bernd Rädle; Caroline C Friedel; Ralf Zimmer; Jörg Mages; Reinhard Hoffmann; Paul Dickinson; Thorsten Forster; Peter Ghazal; Ulrich H Koszinowski
Journal:  RNA       Date:  2008-07-24       Impact factor: 4.942

2.  TT-seq maps the human transient transcriptome.

Authors:  Björn Schwalb; Margaux Michel; Benedikt Zacher; Katja Frühauf; Carina Demel; Achim Tresch; Julien Gagneur; Patrick Cramer
Journal:  Science       Date:  2016-06-03       Impact factor: 47.728

3.  Osmium-Mediated Transformation of 4-Thiouridine to Cytidine as Key To Study RNA Dynamics by Sequencing.

Authors:  Christian Riml; Thomas Amort; Dietmar Rieder; Catherina Gasser; Alexandra Lusser; Ronald Micura
Journal:  Angew Chem Int Ed Engl       Date:  2017-09-18       Impact factor: 15.336

4.  Mouse TU tagging: a chemical/genetic intersectional method for purifying cell type-specific nascent RNA.

Authors:  Leslie Gay; Michael R Miller; P Britten Ventura; Vidusha Devasthali; Zer Vue; Heather L Thompson; Sally Temple; Hui Zong; Michael D Cleary; Kryn Stankunas; Chris Q Doe
Journal:  Genes Dev       Date:  2013-01-01       Impact factor: 11.361

5.  Ultrashort and progressive 4sU-tagging reveals key characteristics of RNA processing at nucleotide resolution.

Authors:  Lukas Windhager; Thomas Bonfert; Kaspar Burger; Zsolt Ruzsics; Stefan Krebs; Stefanie Kaufmann; Georg Malterer; Anne L'Hernault; Markus Schilhabel; Stefan Schreiber; Philip Rosenstiel; Ralf Zimmer; Dirk Eick; Caroline C Friedel; Lars Dölken
Journal:  Genome Res       Date:  2012-04-26       Impact factor: 9.043

6.  Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast.

Authors:  Christian Miller; Björn Schwalb; Kerstin Maier; Daniel Schulz; Sebastian Dümcke; Benedikt Zacher; Andreas Mayer; Jasmin Sydow; Lisa Marcinowski; Lars Dölken; Dietmar E Martin; Achim Tresch; Patrick Cramer
Journal:  Mol Syst Biol       Date:  2011-01-04       Impact factor: 13.068

7.  Thiol-linked alkylation of RNA to assess expression dynamics.

Authors:  Veronika A Herzog; Brian Reichholf; Tobias Neumann; Philipp Rescheneder; Pooja Bhat; Thomas R Burkard; Wiebke Wlotzka; Arndt von Haeseler; Johannes Zuber; Stefan L Ameres
Journal:  Nat Methods       Date:  2017-09-25       Impact factor: 28.547

8.  TimeLapse-seq: adding a temporal dimension to RNA sequencing through nucleoside recoding.

Authors:  Jeremy A Schofield; Erin E Duffy; Lea Kiefer; Meaghan C Sullivan; Matthew D Simon
Journal:  Nat Methods       Date:  2018-01-22       Impact factor: 28.547

9.  TU-tagging: cell type-specific RNA isolation from intact complex tissues.

Authors:  Michael R Miller; Kristin J Robinson; Michael D Cleary; Chris Q Doe
Journal:  Nat Methods       Date:  2009-05-10       Impact factor: 28.547
  9 in total
  13 in total

Review 1.  Cross-species RNA-seq for deciphering host-microbe interactions.

Authors:  Alexander J Westermann; Jörg Vogel
Journal:  Nat Rev Genet       Date:  2021-02-17       Impact factor: 53.242

2.  Dynamics of transcriptional and post-transcriptional regulation.

Authors:  Mattia Furlan; Stefano de Pretis; Mattia Pelizzola
Journal:  Brief Bioinform       Date:  2021-07-20       Impact factor: 11.622

3.  Sequencing cell-type-specific transcriptomes with SLAM-ITseq.

Authors:  Wayo Matsushima; Veronika A Herzog; Tobias Neumann; Katharina Gapp; Johannes Zuber; Stefan L Ameres; Eric A Miska
Journal:  Nat Protoc       Date:  2019-06-26       Impact factor: 13.491

4.  Deciphering Metabolic Heterogeneity by Single-Cell Analysis.

Authors:  Tom M J Evers; Mazène Hochane; Sander J Tans; Ron M A Heeren; Stefan Semrau; Peter Nemes; Alireza Mashaghi
Journal:  Anal Chem       Date:  2019-10-08       Impact factor: 6.986

5.  Global SLAM-seq for accurate mRNA decay determination and identification of NMD targets.

Authors:  Hanna Alalam; Jorge A Zepeda-Martínez; Per Sunnerhagen
Journal:  RNA       Date:  2022-03-16       Impact factor: 5.636

6.  On the optimal design of metabolic RNA labeling experiments.

Authors:  Alexey Uvarovskii; Isabel S Naarmann-de Vries; Christoph Dieterich
Journal:  PLoS Comput Biol       Date:  2019-08-07       Impact factor: 4.475

7.  Acrylonitrile-Mediated Nascent RNA Sequencing for Transcriptome-Wide Profiling of Cellular RNA Dynamics.

Authors:  Yuqi Chen; Fan Wu; Zonggui Chen; Zhiyong He; Qi Wei; Weiwu Zeng; Kun Chen; Feng Xiao; Yushu Yuan; Xiaocheng Weng; Yu Zhou; Xiang Zhou
Journal:  Adv Sci (Weinh)       Date:  2020-03-05       Impact factor: 16.806

8.  Thioguanosine Conversion Enables mRNA-Lifetime Evaluation by RNA Sequencing Using Double Metabolic Labeling (TUC-seq DUAL).

Authors:  Catherina Gasser; Isabel Delazer; Eva Neuner; Katharina Pascher; Karl Brillet; Sarah Klotz; Lukas Trixl; Maximilian Himmelstoß; Eric Ennifar; Dietmar Rieder; Alexandra Lusser; Ronald Micura
Journal:  Angew Chem Int Ed Engl       Date:  2020-02-28       Impact factor: 15.336

9.  Direct RNA Sequencing for the Study of Synthesis, Processing, and Degradation of Modified Transcripts.

Authors:  Mattia Furlan; Iris Tanaka; Tommaso Leonardi; Stefano de Pretis; Mattia Pelizzola
Journal:  Front Genet       Date:  2020-04-28       Impact factor: 4.599

10.  Metabolic labeling of RNA using multiple ribonucleoside analogs enables the simultaneous evaluation of RNA synthesis and degradation rates.

Authors:  Kentaro Kawata; Hiroyasu Wakida; Toshimichi Yamada; Kenzui Taniue; Han Han; Masahide Seki; Yutaka Suzuki; Nobuyoshi Akimitsu
Journal:  Genome Res       Date:  2020-08-25       Impact factor: 9.043
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