4.8 Article

Autotetraploid rice methylome analysis reveals methylation variation of transposable elements and their effects on gene expression

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Review Plant Sciences

Classification and Comparison of Small RNAs from Plants

Michael J. Axtell

ANNUAL REVIEW OF PLANT BIOLOGY, VOL 64 (2013)

Article Biochemical Research Methods

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

Helga Thorvaldsdottir et al.

BRIEFINGS IN BIOINFORMATICS (2013)

Article Cell Biology

Genetic and Epigenetic Aspects of Polyploid Evolution in Plants

A. Madlung et al.

CYTOGENETIC AND GENOME RESEARCH (2013)

Article Biochemistry & Molecular Biology

Epigenome-wide inheritance of cytosine methylation variants in a recombinant inbred population

Robert J. Schmitz et al.

GENOME RESEARCH (2013)

Review Ecology

Hybridization and speciation

R. Abbott et al.

JOURNAL OF EVOLUTIONARY BIOLOGY (2013)

Article Plant Sciences

Stochastic changes affect Solanum wild species following autopolyploidization

Riccardo Aversano et al.

JOURNAL OF EXPERIMENTAL BOTANY (2013)

Article Biochemistry & Molecular Biology

Rfam 11.0: 10 years of RNA families

Sarah W. Burge et al.

NUCLEIC ACIDS RESEARCH (2013)

Article Multidisciplinary Sciences

Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm

Jessica A. Rodrigues et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)

Article Genetics & Heredity

Transposon Variants and Their Effects on Gene Expression in Arabidopsis

Xi Wang et al.

PLOS GENETICS (2013)

Article Biochemistry & Molecular Biology

Reprogramming of DNA Methylation in Pollen Guides Epigenetic Inheritance via Small RNA

Joseph P. Calarco et al.

Review Biochemical Research Methods

DNA methylome analysis using short bisulfite sequencing data

Felix Krueger et al.

NATURE METHODS (2012)

Article Biochemical Research Methods

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

Cole Trapnell et al.

NATURE PROTOCOLS (2012)

Article Multidisciplinary Sciences

Trans Chromosomal Methylation in Arabidopsis hybrids

Ian K. Greaves et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)

Article Multidisciplinary Sciences

Repeat associated small RNAs vary among parents and following hybridization in maize

Wesley T. Barber et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)

Article Genetics & Heredity

Genetic Adaptation Associated with Genome-Doubling in Autotetraploid Arabidopsis arenosa

Jesse D. Hollister et al.

PLOS GENETICS (2012)

Article Biochemical Research Methods

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

Felix Krueger et al.

BIOINFORMATICS (2011)

Review Plant Sciences

Small RNA-mediated epigenetic modifications in plants

Stacey A. Simon et al.

CURRENT OPINION IN PLANT BIOLOGY (2011)

Article Genetics & Heredity

Wheat Hybridization and Polyploidization Results in Deregulation of Small RNAs

Michal Kenan-Eichler et al.

GENETICS (2011)

Article Plant Sciences

Differential expression of the microRNAs in superior and inferior spikelets in rice (Oryza sativa)

Ting Peng et al.

JOURNAL OF EXPERIMENTAL BOTANY (2011)

Book Review Social Sciences, Mathematical Methods

ggplot2: Elegant Graphics for Data Analysis

Cedric Ginestet

JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES A-STATISTICS IN SOCIETY (2011)

Article Multidisciplinary Sciences

Spontaneous epigenetic variation in the Arabidopsis thaliana methylome

Claude Becker et al.

NATURE (2011)

Article Multidisciplinary Sciences

Ancestral polyploidy in seed plants and angiosperms

Yuannian Jiao et al.

NATURE (2011)

Article Biochemistry & Molecular Biology

miRBase: integrating microRNA annotation and deep-sequencing data

Ana Kozomara et al.

NUCLEIC ACIDS RESEARCH (2011)

Article Multidisciplinary Sciences

Transgenerational Epigenetic Instability Is a Source of Novel Methylation Variants

Robert J. Schmitz et al.

SCIENCE (2011)

Review Genetics & Heredity

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

Julie A. Law et al.

NATURE REVIEWS GENETICS (2010)

Review Plant Sciences

Evolutionary consequences of autopolyploidy

Christian Parisod et al.

NEW PHYTOLOGIST (2010)

Article Biochemistry & Molecular Biology

agriGO: a GO analysis toolkit for the agricultural community

Zhou Du et al.

NUCLEIC ACIDS RESEARCH (2010)

Article Multidisciplinary Sciences

Impact of natural genetic variation on the transcriptome of autotetraploid Arabidopsis thaliana

Zheng Yu et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Article Multidisciplinary Sciences

Conservation and divergence of methylation patterning in plants and animals

Suhua Feng et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Article Multidisciplinary Sciences

Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation

Assaf Zemach et al.

SCIENCE (2010)

Article Genetics & Heredity

Maintenance of duplicate genes and their functional redundancy by reduced expression

Wenfeng Qian et al.

TRENDS IN GENETICS (2010)

Review Plant Sciences

POLYPLOIDY AND ANGIOSPERM DIVERSIFICATION

Douglas E. Soltis et al.

AMERICAN JOURNAL OF BOTANY (2009)

Review Plant Sciences

The Role of Hybridization in Plant Speciation

Pamela S. Soltis et al.

ANNUAL REVIEW OF PLANT BIOLOGY (2009)

Article Biochemical Research Methods

TopHat: discovering splice junctions with RNA-Seq

Cole Trapnell et al.

BIOINFORMATICS (2009)

Article Multidisciplinary Sciences

Bursts of retrotransposition reproduced in Arabidopsis

Sayuri Tsukahara et al.

NATURE (2009)

Article Biochemistry & Molecular Biology

Variation in cytosine methylation patterns during ploidy level conversions in Eragrostis curvula

Ana C. Ochogavia et al.

PLANT MOLECULAR BIOLOGY (2009)

Article Biotechnology & Applied Microbiology

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

Ben Langmead et al.

GENOME BIOLOGY (2009)

Review Genetics & Heredity

Evolutionary Genetics of Genome Merger and Doubling in Plants

Jeff J. Doyle et al.

ANNUAL REVIEW OF GENETICS (2008)

Article Biochemistry & Molecular Biology

Highly integrated single-base resolution maps of the epigenome in Arabidopsis

Ryan Lister et al.

Article Biochemistry & Molecular Biology

Mistranslation-induced protein misfolding as a dominant constraint on coding-sequence evolution

D. Allan Drummond et al.

Review Biochemistry & Molecular Biology

The evolutionary consequences of polyploidy

Sarah P. Otto

Article Genetics & Heredity

Phenotypic and transcriptomic changes associated with potato autopolyploidization

Robert M. Stupar et al.

GENETICS (2007)

Article Biochemistry & Molecular Biology

Genome rearrangements derived from autopolyploidization in Paspalum sp.

Luciano G. Martelotto et al.

PLANT SCIENCE (2007)

Article Agronomy

No DNA loss in autotetraploids of Arabidopsis thaliana

H. Ozkan et al.

PLANT BREEDING (2006)

Review Genetics & Heredity

The advantages and disadvantages of being polyploid

L Comai

NATURE REVIEWS GENETICS (2005)

Article Multidisciplinary Sciences

Elucidation of the small RNA component of the transcriptome

C Lu et al.

SCIENCE (2005)

Article Biochemistry & Molecular Biology

Energy constraints on the evolution of gene expression

A Wagner

MOLECULAR BIOLOGY AND EVOLUTION (2005)

Article Biochemistry & Molecular Biology

Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae)

A Salmon et al.

MOLECULAR ECOLOGY (2005)

Review Cell Biology

DNA methylation patterns and epigenetic memory

A Bird

GENES & DEVELOPMENT (2002)

Article Biochemistry & Molecular Biology

Toward a cytological characterization of the rice genome

ZK Cheng et al.

GENOME RESEARCH (2001)

Review Biochemistry & Molecular Biology

Genome evolution in polyploids

JF Wendel

PLANT MOLECULAR BIOLOGY (2000)