N-terminomics and proteogenomics, getting off to a good start

Automated alignment-based curation of gene models in filamentous fungi

(2014) Ate van der Burgt et al.   BMC BIOINFORMATICS

RNA Sequencing and Proteogenomics Reveal the Importance of Leaderless mRNAs in the Radiation-Tolerant Bacterium Deinococcus deserti

(2014) Arjan de Groot et al.   Genome Biology and Evolution

N-Terminal-oriented Proteogenomics of the Marine BacteriumRoseobacter DenitrificansOch114 using N-Succinimidyloxycarbonylmethyl)tris(2,4,6-trimethoxyphenyl)phosphonium bromide (TMPP) Labeling and Diagonal Chromatography

(2014) Céline Bland et al.   MOLECULAR & CELLULAR PROTEOMICS

N-terminal Proteomics and Ribosome Profiling Provide a Comprehensive View of the Alternative Translation Initiation Landscape in Mice and Men

(2014) Petra Van Damme et al.   MOLECULAR & CELLULAR PROTEOMICS

Neglected Tropical Diseases and Omics Science: Proteogenomics Analysis of the Promastigote Stage of Leishmania major Parasite

(2014) Harsh Pawar et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Resin-Assisted Enrichment of N-Terminal Peptides for Characterizing Proteolytic Processing

(2013) Jong-Seo Kim et al.   ANALYTICAL CHEMISTRY

Gene prediction in metagenomic fragments based on the SVM algorithm

(2013) Yongchu Liu et al.   BMC BIOINFORMATICS

The N-Terminal Methionine of Cellular Proteins as a Degradation Signal

(2013) Heon-Ki Kim et al.   CELL

How many signal peptides are there in bacteria?

(2013) Dmitry N. Ivankov et al.   ENVIRONMENTAL MICROBIOLOGY

Repeat-associated non-ATG (RAN) translation in neurological disease

(2013) J. D. Cleary et al.   HUMAN MOLECULAR GENETICS

Identifying Natural Substrates for Dipeptidyl Peptidases 8 and 9 Using Terminal Amine Isotopic Labeling of Substrates (TAILS) Revealsin VivoRoles in Cellular Homeostasis and Energy Metabolism

(2013) Claire H. Wilson et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Unique N-terminal Arm ofMycobacterium tuberculosisPhoP Protein Plays an Unusual Role in Its Regulatory Function

(2013) Arijit Kumar Das et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Protein Invasion: A Broad Review on the Origin of the Translational System

(2013) David W. Morgens   JOURNAL OF MOLECULAR EVOLUTION

Magnetic Immunoaffinity Enrichment for Selective Capture and MS/MS Analysis of N-Terminal-TMPP-Labeled Peptides

(2013) Céline Bland et al.   JOURNAL OF PROTEOME RESEARCH

Improved Nα-Acetylated Peptide Enrichment Following Dimethyl Labeling and SCX

(2013) Sin-Hong Chen et al.   JOURNAL OF PROTEOME RESEARCH

Resolving Chromosome-Centric Human Proteome with Translating mRNA Analysis: A Strategic Demonstration

(2013) Jiayong Zhong et al.   JOURNAL OF PROTEOME RESEARCH

An Improved Stable Isotope N-Terminal Labeling Approach with Light/Heavy TMPP To Automate Proteogenomics Data Validation: dN-TOP

(2013) Diego Bertaccini et al.   JOURNAL OF PROTEOME RESEARCH

Novel Highly Sensitive, Specific, and Straightforward Strategy for Comprehensive N-Terminal Proteomics Reveals Unknown Substrates of the Mitochondrial Peptidase Icp55

(2013) A. Saskia Venne et al.   JOURNAL OF PROTEOME RESEARCH

Import Determinants of Organelle-Specific and Dual Targeting Peptides of Mitochondria and Chloroplasts in Arabidopsis thaliana

(2013) Changrong Ge et al.   Molecular Plant

High-throughput proteogenomics of Ruegeria pomeroyi: seeding a better genomic annotation for the whole marine Roseobacter clade

(2012) Joseph A Christie-Oleza et al.   BMC GENOMICS

Exoproteomics: exploring the world around biological systems

(2012) Jean Armengaud et al.   Expert Review of Proteomics

Unbiased Selective Isolation of Protein N-terminal Peptides from Complex Proteome Samples Using Phospho Tagging (PTAG) and TiO2-based Depletion

(2012) Geert P. M. Mommen et al.   MOLECULAR & CELLULAR PROTEOMICS

N-terminal Protein Processing: A Comparative Proteogenomic Analysis

(2012) Stefano Bonissone et al.   MOLECULAR & CELLULAR PROTEOMICS

Qualitative improvement and quantitative assessment of N-terminomics

(2012) Vilém Guryča et al.   PROTEOMICS

Influence of various endogenous and artefact modifications on large-scale proteomics analysis

(2012) Willy V. Bienvenut et al.   RAPID COMMUNICATIONS IN MASS SPECTROMETRY

De novo analysis of protein N-terminal sequence utilizing MALDI signal enhancing derivatization with Br signature

(2011) Jong-Seo Kim et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Identifying and quantifying proteolytic events and the natural N terminome by terminal amine isotopic labeling of substrates

(2011) Oded Kleifeld et al.   Nature Protocols

Selecting protein N-terminal peptides by combined fractional diagonal chromatography

(2011) An Staes et al.   Nature Protocols

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Translation initiation: variations in the mechanism can be anticipated

(2010) Naglis Malys et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Strong cation exchange (SCX) based analytical methods for the targeted analysis of protein post-translational modifications

(2010) Shabaz Mohammed et al.   CURRENT OPINION IN BIOTECHNOLOGY

Regulation of Translation Initiation in Eukaryotes: Mechanisms and Biological Targets

(2009) Nahum Sonenberg et al.   CELL

Top-down proteomics reveals novel protein forms expressed in methanosarcina acetivorans

(2009) Jonathan T. Ferguson et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Proteomics-based Refinement ofDeinococcus desertiGenome Annotation Reveals an Unwonted Use of Non-canonical Translation Initiation Codons

(2009) Mathieu Baudet et al.   MOLECULAR & CELLULAR PROTEOMICS

Alliance of Proteomics and Genomics to Unravel the Specificities of Sahara Bacterium Deinococcus deserti

(2009) Arjan de Groot et al.   PLoS Genetics

Computational evaluation of TIS annotation for prokaryotic genomes

(2008) Gang-Qing Hu et al.   BMC BIOINFORMATICS

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

(2008) Boris Zybailov et al.   PLoS One

Extent of N-terminal modifications in cytosolic proteins from eukaryotes

(2008) Aude Martinez et al.   PROTEOMICS