4.7 Article

Genome-Scale Characterization of Predicted Plastid-Targeted Proteomes in Higher Plants

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。
Article Evolutionary Biology

Evolutionary Interplay between Symbiotic Relationships and Patterns of Signal Peptide Gain and Loss

Peter Hoenigschmid et al.

GENOME BIOLOGY AND EVOLUTION (2018)

Review Plant Sciences

New Perspectives on Chloroplast Protein Import

Masato Nakai

PLANT AND CELL PHYSIOLOGY (2018)

Article Biochemistry & Molecular Biology

SUBA4: the interactive data analysis centre for Arabidopsis subcellular protein locations

Cornelia M. Hooper et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Plant Sciences

The pangenome of hexaploid bread wheat

Juan D. Montenegro et al.

PLANT JOURNAL (2017)

Article Multidisciplinary Sciences

Ror2 signaling regulates Golgi structure and transport through IFT20 for tumor invasiveness

Michiru Nishita et al.

SCIENTIFIC REPORTS (2017)

Article Multidisciplinary Sciences

LOCALIZER: subcellular localization prediction of both plant and effector proteins in the plant cell

Jana Sperschneider et al.

SCIENTIFIC REPORTS (2017)

Article Biochemical Research Methods

Protein Subcellular Location: The Gap Between Prediction and Experimentation

Erhui Xiong et al.

PLANT MOLECULAR BIOLOGY REPORTER (2016)

Article Biochemistry & Molecular Biology

1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana

Carlos Alonso-Blanco et al.

Article Multidisciplinary Sciences

The pangenome of an agronomically important crop plant Brassica oleracea

Agnieszka A. Golicz et al.

NATURE COMMUNICATIONS (2016)

Article Biochemistry & Molecular Biology

YCF1: A Green TIC: Response to the de Vries et al. Commentary

Masato Nakai

PLANT CELL (2015)

Article Biochemistry & Molecular Biology

YCF1: A Green TIC?

Jan de Vries et al.

PLANT CELL (2015)

Article Multidisciplinary Sciences

Functional analysis of (4S)-limonene synthase mutants reveals determinants of catalytic outcome in a model monoterpene synthase

Narayanan Srividya et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)

Article Biotechnology & Applied Microbiology

Exploring the rice dispensable genome using a metagenome-like assembly strategy

Wen Yao et al.

GENOME BIOLOGY (2015)

Review Plant Sciences

The Contributions of Transposable Elements to the Structure, Function, and Evolution of Plant Genomes

Jeffrey L. Bennetzen et al.

ANNUAL REVIEW OF PLANT BIOLOGY, VOL 65 (2014)

Article Biochemical Research Methods

SUBAcon: a consensus algorithm for unifying the subcellular localization data of the Arabidopsis proteome

Cornelia M. Hooper et al.

BIOINFORMATICS (2014)

Article Biochemistry & Molecular Biology

Towards an improved apple reference transcriptome using RNA-seq

Yang Bai et al.

MOLECULAR GENETICS AND GENOMICS (2014)

Article Genetics & Heredity

Genomic analyses provide insights into the history of tomato breeding

Tao Lin et al.

NATURE GENETICS (2014)

Article Plant Sciences

Phosphoproteomic analysis of chromoplasts from sweet orange during fruit ripening

Yunliu Zeng et al.

PHYSIOLOGIA PLANTARUM (2014)

Article Biochemistry & Molecular Biology

Insights into the Maize Pan-Genome and Pan-Transcriptome

Candice N. Hirsch et al.

PLANT CELL (2014)

Review Biochemistry & Molecular Biology

Chromoplast biogenesis and carotenoid accumulation

Li Li et al.

ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS (2013)

Review Biochemistry & Molecular Biology

A reevaluation of dual-targeting of proteins to mitochondria and chloroplasts

Christopher Carrie et al.

BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH (2013)

Article Evolutionary Biology

Protein Subcellular Relocalization Increases the Retention of Eukaryotic Duplicate Genes

S. Ashley Byun et al.

GENOME BIOLOGY AND EVOLUTION (2013)

Article Multidisciplinary Sciences

The Amborella Genome and the Evolution of Flowering Plants

Victor A. Albert et al.

SCIENCE (2013)

Review Plant Sciences

Transit peptide design and plastid import regulation

Hsou-min Li et al.

TRENDS IN PLANT SCIENCE (2013)

Article Biochemical Research Methods

False discovery rates in spectral identification

Kyowon Jeong et al.

BMC BIOINFORMATICS (2012)

Article Multidisciplinary Sciences

The tomato genome sequence provides insights into fleshy fruit evolution

Shusei Sato et al.

NATURE (2012)

Article Biotechnology & Applied Microbiology

Reference genome sequence of the model plant Setaria

Jeffrey L. Bennetzen et al.

NATURE BIOTECHNOLOGY (2012)

Article Biochemistry & Molecular Biology

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

Philippe Lamesch et al.

NUCLEIC ACIDS RESEARCH (2012)

Article Plant Sciences

Dissecting Plant Genomes with the PLAZA Comparative Genomics Platform

Michiel Van Bel et al.

PLANT PHYSIOLOGY (2012)

Article Biochemistry & Molecular Biology

Orthology prediction methods: A quality assessment using curated protein families

Kalliopi Trachana et al.

BIOESSAYS (2011)

Review Biochemistry & Molecular Biology

Update on Chloroplast Research: New Tools, New Topics, and New Trends

Ute Armbruster et al.

MOLECULAR PLANT (2011)

Article Multidisciplinary Sciences

Multiple reference genomes and transcriptomes for Arabidopsis thaliana

Xiangchao Gan et al.

NATURE (2011)

Article Genetics & Heredity

The genome of woodland strawberry (Fragaria vesca)

Vladimir Shulaev et al.

NATURE GENETICS (2011)

Article Plant Sciences

Plastid Proteomics in Higher Plants: Current State and Future Goals

Klaas J. van Wijk et al.

PLANT PHYSIOLOGY (2011)

Review Plant Sciences

Protein Transport into Chloroplasts

Hsou-min Li et al.

ANNUAL REVIEW OF PLANT BIOLOGY, VOL 61 (2010)

Article Biochemical Research Methods

Search and clustering orders of magnitude faster than BLAST

Robert C. Edgar

BIOINFORMATICS (2010)

Article Plant Sciences

Characteristics of the tomato chromoplast revealed by proteomic analysis

Cristina Barsan et al.

JOURNAL OF EXPERIMENTAL BOTANY (2010)

Article Multidisciplinary Sciences

Genome sequencing and analysis of the model grass Brachypodium distachyon

John P. Vogel et al.

NATURE (2010)

Article Multidisciplinary Sciences

Genome sequence of the palaeopolyploid soybean

Jeremy Schmutz et al.

NATURE (2010)

Article Genetics & Heredity

The genome of the domesticated apple (Malus x domestica Borkh.)

Riccardo Velasco et al.

NATURE GENETICS (2010)

Article Biochemistry & Molecular Biology

YLoc-an interpretable web server for predicting subcellular localization

Sebastian Briesemeister et al.

NUCLEIC ACIDS RESEARCH (2010)

Review Plant Sciences

Chromoplast Differentiation: Current Status and Perspectives

Isabel Egea et al.

PLANT AND CELL PHYSIOLOGY (2010)

Review Plant Sciences

DNA Transfer from Organelles to the Nucleus: The Idiosyncratic Genetics of Endosymbiosis

Tatjana Kleine et al.

ANNUAL REVIEW OF PLANT BIOLOGY (2009)

Review Biochemistry & Molecular Biology

Protein transport in organelles: Dual targeting of proteins to mitochondria and chloroplasts

Chris Carrie et al.

FEBS JOURNAL (2009)

Article Biochemical Research Methods

SherLoc2: A High-Accuracy Hybrid Method for Predicting Subcellular Localization of Proteins

Sebastian Briesemeister et al.

JOURNAL OF PROTEOME RESEARCH (2009)

Article Plant Sciences

Prediction of dual protein targeting to plant organelles

Jan Mitschke et al.

NEW PHYTOLOGIST (2009)

Article Biochemistry & Molecular Biology

PPDB, the Plant Proteomics Database at Cornell

Qi Sun et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemical Research Methods

Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods

Adrian M. Altenhoff et al.

PLOS COMPUTATIONAL BIOLOGY (2009)

Article Biochemical Research Methods

Improving subcellular localization prediction using text classification and the gene ontology

Alona Fyshe et al.

BIOINFORMATICS (2008)

Review Biochemical Research Methods

Consequences of C4 differentiation for chloroplast membrane Proteomes in maize mesophyll and bundle sheath cells

Wojciech Majeran et al.

MOLECULAR & CELLULAR PROTEOMICS (2008)

Article Multidisciplinary Sciences

Sorting Signals, N-Terminal Modifications and Abundance of the Chloroplast Proteome

Boris Zybailov et al.

PLOS ONE (2008)

Article Biochemistry & Molecular Biology

How do endosymbionts become organelles? Understanding early events in plastid evolution

Debashish Bhattacharya et al.

BIOESSAYS (2007)

Article Biochemistry & Molecular Biology

WoLF PSORT: protein localization predictor

Paul Horton et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Evolutionary Biology

Inferring angiosperm phylogeny from EST data with widespread gene duplication

Michael J. Sanderson et al.

BMC EVOLUTIONARY BIOLOGY (2007)

Review Biochemical Research Methods

Locating proteins in the cell using TargetP, SignalP and related tools

Olof Emanuelsson et al.

NATURE PROTOCOLS (2007)

Article Biochemistry & Molecular Biology

The TIGR Rice Genome Annotation Resource: Improvements and new features

Shu Ouyang et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Biochemistry & Molecular Biology

eSLDB: eukaryotic subcellular localization database

Andea Pierleoni et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Biochemistry & Molecular Biology

SUBA: The Arabidopsis subcellular database

Joshua L. Heazlewood et al.

NUCLEIC ACIDS RESEARCH (2007)

Review Plant Sciences

Recent surprises in protein targeting to mitochondria and plastids

A. Harvey Millar et al.

CURRENT OPINION IN PLANT BIOLOGY (2006)

Article Multidisciplinary Sciences

The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)

G. A. Tuskan et al.

SCIENCE (2006)

Article Biochemical Research Methods

OrthologID: automation of genome-scale ortholog identification within a parsimony framework

JC Chiu et al.

BIOINFORMATICS (2006)

Article Biochemical Research Methods

Proteome analysis of the rice etioplast -: Metabolic and regulatory networks and novel protein functions

A von Zychlinski et al.

MOLECULAR & CELLULAR PROTEOMICS (2005)

Article Biochemistry & Molecular Biology

Inparanoid: a comprehensive database of eukaryotic orthologs

KP O'Brien et al.

NUCLEIC ACIDS RESEARCH (2005)

Article Biochemistry & Molecular Biology

The Arabidopsis thaliana chloroplast proteome reveals pathway abundance and novel protein functions

T Kleffmann et al.

CURRENT BIOLOGY (2004)

Review Plant Sciences

Plastid proteomics

KJ van Wijk

PLANT PHYSIOLOGY AND BIOCHEMISTRY (2004)

Article Biochemical Research Methods

Predotar:: A tool for rapidly screening proteomes for N-terminal targeting sequences

I Small et al.

PROTEOMICS (2004)

Article Biochemistry & Molecular Biology

OrthoMCL: Identification of ortholog groups for eukaryotic genomes

L Li et al.

GENOME RESEARCH (2003)

Review Biochemistry & Molecular Biology

Missing genes in metabolic pathways: a comparative genomics approach

A Osterman et al.

CURRENT OPINION IN CHEMICAL BIOLOGY (2003)

Article Biochemistry & Molecular Biology

Using functional domain composition and support vector machines for prediction of protein subcellular location

KC Chou et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2002)

Article Multidisciplinary Sciences

Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus

W Martin et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)

Article Biochemical Research Methods

Extensive feature detection of N-terminal protein sorting signals

H Bannai et al.

BIOINFORMATICS (2002)

Article Biochemistry & Molecular Biology

Chloroplast transit peptide prediction: a peek inside the black box

AI Schein et al.

NUCLEIC ACIDS RESEARCH (2001)

Article Biochemistry & Molecular Biology

Predicting subcellular localization of proteins based on their N-terminal amino acid sequence

O Emanuelsson et al.

JOURNAL OF MOLECULAR BIOLOGY (2000)

Review Biochemistry & Molecular Biology

The impact of comparative genomics on our understanding of evolution

EV Koonin et al.

Article Biochemistry & Molecular Biology

The COG database: a tool for genome-scale analysis of protein functions and evolution

RL Tatusov et al.

NUCLEIC ACIDS RESEARCH (2000)