Literature DB >> 29871952

Time to build on good design: Resolving the temporal dynamics of gene regulatory networks.

Kathleen Greenham1, C Robertson McClung2.   

Abstract

Mesh：

Year:  2018        PMID： 29871952      PMCID： PMC6016795          DOI： 10.1073/pnas.1807707115

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN： 0027-8424            Impact factor:   11.205


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  13 in total

Review 1.  Dynamic modeling and network approaches for omics time course data: overview of computational approaches and applications.

Authors:  Yulan Liang; Arpad Kelemen
Journal:  Brief Bioinform       Date:  2018-09-28       Impact factor: 11.622

2.  SELEX-Seq: A Method to Determine DNA Binding Specificities of Plant Transcription Factors.

Authors:  Cezary Smaczniak; Gerco C Angenent; Kerstin Kaufmann
Journal:  Methods Mol Biol       Date:  2017

3.  TARGET: a transient transformation system for genome-wide transcription factor target discovery.

Authors:  Bastiaan O R Bargmann; Amy Marshall-Colon; Idan Efroni; Sandrine Ruffel; Kenneth D Birnbaum; Gloria M Coruzzi; Gabriel Krouk
Journal:  Mol Plant       Date:  2013-01-18       Impact factor: 13.164

Review 4.  Understanding nitrate uptake, signaling and remobilisation for improving plant nitrogen use efficiency.

Authors:  Surya Kant
Journal:  Semin Cell Dev Biol       Date:  2017-08-30       Impact factor: 7.727

5.  Towards a rigorous assessment of systems biology models: the DREAM3 challenges.

Authors:  Robert J Prill; Daniel Marbach; Julio Saez-Rodriguez; Peter K Sorger; Leonidas G Alexopoulos; Xiaowei Xue; Neil D Clarke; Gregoire Altan-Bonnet; Gustavo Stolovitzky
Journal:  PLoS One       Date:  2010-02-23       Impact factor: 3.240

6.  Universal protein-binding microarrays for the comprehensive characterization of the DNA-binding specificities of transcription factors.

Authors:  Michael F Berger; Martha L Bulyk
Journal:  Nat Protoc       Date:  2009       Impact factor: 13.491

Review 7.  A matter of time - How transient transcription factor interactions create dynamic gene regulatory networks.

Authors:  Joseph Swift; Gloria M Coruzzi
Journal:  Biochim Biophys Acta Gene Regul Mech       Date:  2016-08-18       Impact factor: 4.490

8.  ATAC-seq: A Method for Assaying Chromatin Accessibility Genome-Wide.

Authors:  Jason D Buenrostro; Beijing Wu; Howard Y Chang; William J Greenleaf
Journal:  Curr Protoc Mol Biol       Date:  2015-01-05

9.  Topological and statistical analyses of gene regulatory networks reveal unifying yet quantitatively different emergent properties.

Authors:  Wilberforce Zachary Ouma; Katja Pogacar; Erich Grotewold
Journal:  PLoS Comput Biol       Date:  2018-04-30       Impact factor: 4.475

10.  Improved DNase-seq protocol facilitates high resolution mapping of DNase I hypersensitive sites in roots in Arabidopsis thaliana.

Authors:  Jason S Cumbie; Sergei A Filichkin; Molly Megraw
Journal:  Plant Methods       Date:  2015-09-04       Impact factor: 4.993
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  2 in total

1.  Dynamics of Gene Co-expression Networks in Time-Series Data: A Case Study in Drosophila melanogaster Embryogenesis.

Authors:  Li Yieng Lau; Antonio Reverter; Nicholas J Hudson; Marina Naval-Sanchez; Marina R S Fortes; Pâmela A Alexandre
Journal:  Front Genet       Date:  2020-05-26       Impact factor: 4.599

2.  RegEnrich gene regulator enrichment analysis reveals a key role of the ETS transcription factor family in interferon signaling.

Authors:  Weiyang Tao; Timothy R D J Radstake; Aridaman Pandit
Journal:  Commun Biol       Date:  2022-01-11
  2 in total

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