4.8 Article

Accurate annotation of human protein-coding small open reading frames

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 Biochemistry & Molecular Biology

An update on sORFs.org: a repository of small ORFs identified by ribosome profiling

Volodimir Olexiouk et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Biochemical Research Methods

Improved Ribo-seq enables identification of cryptic translation events

Florian Erhard et al.

NATURE METHODS (2018)

Article Biochemistry & Molecular Biology

MIEF1 Microprotein Regulates Mitochondrial Translation

Annie Rathore et al.

BIOCHEMISTRY (2018)

Article Biotechnology & Applied Microbiology

Comprehensive identification of peptides in tandem mass spectra using an efficient open search engine

Hao Chi et al.

NATURE BIOTECHNOLOGY (2018)

Article Biochemistry & Molecular Biology

A human microprotein that interacts with the mRNA decapping complex

Nadia G. D'Lima et al.

NATURE CHEMICAL BIOLOGY (2017)

Article Biochemistry & Molecular Biology

Ribonuclease selection for ribosome profiling

Maxim V. Gerashchenko et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Biochemistry & Molecular Biology

CDD/SPARCLE: functional classification of proteins via subfamily domain architectures

Aron Marchler-Bauer et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Multidisciplinary Sciences

Regulation of DNA repair pathway choice in S and G2 phases by the NHEJ inhibitor CYREN

Nausica Arnoult et al.

NATURE (2017)

Review Cell Biology

Classification and function of small open reading frames

Juan-Pablo Couso et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2017)

Review Genetics & Heredity

Beyond Read-Counts: Ribo-seq Data Analysis to Understand the Functions of the Transcriptome

Lorenzo Calviello et al.

TRENDS IN GENETICS (2017)

Article Multidisciplinary Sciences

The microprotein Minion controls cell fusion and muscle formation

Qiao Zhang et al.

NATURE COMMUNICATIONS (2017)

Article Biochemistry & Molecular Biology

Are Human Translated Pseudogenes Functional?

Jinrui Xu et al.

MOLECULAR BIOLOGY AND EVOLUTION (2016)

Article Biochemical Research Methods

Detecting actively translated open reading frames in ribosome profiling data

Lorenzo Calviello et al.

NATURE METHODS (2016)

Article Chemistry, Analytical

Improved Identification and Analysis of Small Open Reading Frame Encoded Polypeptides

Jiao Ma et al.

ANALYTICAL CHEMISTRY (2016)

Article Biochemical Research Methods

Isoform-level ribosome occupancy estimation guided by transcript abundance with Ribomap

Hao Wang et al.

BIOINFORMATICS (2016)

Article Multidisciplinary Sciences

Super-resolution ribosome profiling reveals unannotated translation events in Arabidopsis

Polly Yingshan Hsu et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)

Article Multidisciplinary Sciences

Conservation of uORF repressiveness and sequence features in mouse, human and zebrafish

Guo-Liang Chew et al.

NATURE COMMUNICATIONS (2016)

Article Multidisciplinary Sciences

Genome-wide assessment of differential translations with ribosome profiling data

Zhengtao Xiao et al.

NATURE COMMUNICATIONS (2016)

Article Biochemical Research Methods

ProLuCID: An improved SEQUEST-like algorithm with enhanced sensitivity and specificity

T. Xu et al.

JOURNAL OF PROTEOMICS (2015)

Article Biochemistry & Molecular Biology

Discovery and characterization of smORF-encoded bioactive polypeptides

Alan Saghatelianr et al.

NATURE CHEMICAL BIOLOGY (2015)

Article Biochemical Research Methods

HTSeq-a Python framework to work with high-throughput sequencing data

Simon Anders et al.

BIOINFORMATICS (2015)

Article Biochemistry & Molecular Biology

Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation

Ariel A. Bazzini et al.

EMBO JOURNAL (2014)

Article Biochemistry & Molecular Biology

Translational Control during Endoplasmic Reticulum Stress beyond Phosphorylation of the Translation Initiation Factor eIF2α

Bo-Jhih Guan et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2014)

Review Genetics & Heredity

The role of replicates for error mitigation in next-generation sequencing

Kimberly Robasky et al.

NATURE REVIEWS GENETICS (2014)

Article Biotechnology & Applied Microbiology

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love et al.

GENOME BIOLOGY (2014)

Article Biochemical Research Methods

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin et al.

BIOINFORMATICS (2013)

Article Biochemistry & Molecular Biology

Peptidomic discovery of short open reading frame-encoded peptides in human cells

Sarah A. Slavoff et al.

NATURE CHEMICAL BIOLOGY (2013)

Article Multidisciplinary Sciences

An integrated encyclopedia of DNA elements in the human genome

Ian Dunham et al.

NATURE (2012)

Article Biochemical Research Methods

PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions

Michael F. Lin et al.

BIOINFORMATICS (2011)

Article Biochemistry & Molecular Biology

Stress-sensitive Regulation of IFRD1 mRNA Decay Is Mediated by an Upstream Open Reading Frame

Chenyang Zhao et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2010)

Review Developmental Biology

The Rhox genes

James A. MacLean et al.

REPRODUCTION (2010)

Article Multidisciplinary Sciences

Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

Nicholas T. Ingolia et al.

SCIENCE (2009)

Article Biochemistry & Molecular Biology

Peptides encoded by short ORFs control development and define a new eukaryotic gene family

Maximo Ibo Galindo et al.

PLOS BIOLOGY (2007)

Article Biochemistry & Molecular Biology

Protein length in eukaryotic and prokaryotic proteomes

L Brocchieri et al.

NUCLEIC ACIDS RESEARCH (2005)

Letter Genetics & Heredity

When ELFs are ORFs, but don't act like them

J Lawrence

TRENDS IN GENETICS (2003)

Article Biochemistry & Molecular Biology

Predicting transmembrane protein topology with a hidden Markov model: Application to complete genomes

A Krogh et al.

JOURNAL OF MOLECULAR BIOLOGY (2001)