Systematic quantitative analysis of ribosome inventory during nutrient stress

Full-featured, real-time database searching platform enables fast and accurate multiplexed quantitative proteomics.

(2020) Devin K. Schweppe et al.   JOURNAL OF PROTEOME RESEARCH

Active instrument engagement combined with a real-time database search for improved performance of sample multiplexing workflows

(2019) Brian K Erickson et al.   JOURNAL OF PROTEOME RESEARCH

Characterization and Optimization of Multiplexed Quantitative Analyses Using High-Field Asymmetric-Waveform Ion Mobility Mass Spectrometry

(2019) Devin K. Schweppe et al.   ANALYTICAL CHEMISTRY

TEX264 Is an Endoplasmic Reticulum-Resident ATG8-Interacting Protein Critical for ER Remodeling during Nutrient Stress

(2019) Heeseon An et al.   MOLECULAR CELL

Intrinsically Disordered Protein TEX264 Mediates ER-phagy

(2019) Haruka Chino et al.   MOLECULAR CELL

Ribosome Abundance Control Via the Ubiquitin–Proteasome System and Autophagy

(2019) Heeseon An et al.   JOURNAL OF MOLECULAR BIOLOGY

The autophagic protein LC3 translocates to the nucleus and localizes in the nucleolus associated to NUFIP1 in response to cyclic mechanical stress

(2019) Myoung Sup Shim et al.   Autophagy

A Diversity of Selective Autophagy Receptors Determines the Specificity of the Autophagy Pathway

(2019) Vladimir Kirkin et al.   MOLECULAR CELL

Translational Control through Differential Ribosome Pausing during Amino Acid Limitation in Mammalian Cells

(2018) Alicia M. Darnell et al.   MOLECULAR CELL

NUFIP1 is a ribosome receptor for starvation-induced ribophagy

(2018) Gregory A. Wyant et al.   SCIENCE

Autophagy maintains tumour growth through circulating arginine

(2018) Laura Poillet-Perez et al.   NATURE

Systematic analysis of ribophagy in human cells reveals bystander flux during selective autophagy

(2017) Heeseon An et al.   NATURE CELL BIOLOGY

SAMTOR is anS-adenosylmethionine sensor for the mTORC1 pathway

(2017) Xin Gu et al.   SCIENCE

UBE2O remodels the proteome during terminal erythroid differentiation

(2017) Anthony T. Nguyen et al.   SCIENCE

UBE2O is a quality control factor for orphans of multiprotein complexes

(2017) Kota Yanagitani et al.   SCIENCE

The mTORC1 Signaling Network Senses Changes in Cellular Purine Nucleotide Levels

(2017) Gerta Hoxhaj et al.   Cell Reports

Kinetic Analysis of Protein Stability Reveals Age-Dependent Degradation

(2016) Erik McShane et al.   CELL

Quantitative mass spectrometry-based multiplexing compares the abundance of 5000 S. cerevisiae proteins across 10 carbon sources

(2016) Joao A. Paulo et al.   Journal of Proteomics

The Perseus computational platform for comprehensive analysis of (prote)omics data

(2016) Stefka Tyanova et al.   NATURE METHODS

Improved Ribosome-Footprint and mRNA Measurements Provide Insights into Dynamics and Regulation of Yeast Translation

(2016) David E. Weinberg et al.   Cell Reports

Global, quantitative and dynamic mapping of protein subcellular localization

(2016) Daniel N Itzhak et al.   eLife

Functions of Ribosomal Proteins in Assembly of Eukaryotic Ribosomes In Vivo

(2015) Jesús de la Cruz et al.   Annual Review of Biochemistry

A Scalable Approach for Protein False Discovery Rate Estimation in Large Proteomic Data Sets

(2015) Mikhail M. Savitski et al.   MOLECULAR & CELLULAR PROTEOMICS

mTOR inhibition activates overall protein degradation by the ubiquitin proteasome system as well as by autophagy

(2015) Jinghui Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mevalonate Pathway Regulates Cell Size Homeostasis and Proteostasis through Autophagy

(2015) Teemu P. Miettinen et al.   Cell Reports

MultiNotch MS3 Enables Accurate, Sensitive, and Multiplexed Detection of Differential Expression across Cancer Cell Line Proteomes

(2014) Graeme C. McAlister et al.   ANALYTICAL CHEMISTRY

A “Proteomic Ruler” for Protein Copy Number and Concentration Estimation without Spike-in Standards

(2014) Jacek R. Wiśniewski et al.   MOLECULAR & CELLULAR PROTEOMICS

Genome engineering using the CRISPR-Cas9 system

(2013) F Ann Ran et al.   Nature Protocols

A unifying model for mTORC1-mediated regulation of mRNA translation

(2012) Carson C. Thoreen et al.   NATURE

Comet: An open-source MS/MS sequence database search tool

(2012) Jimmy K. Eng et al.   PROTEOMICS

The R2TP complex: Discovery and functions

(2011) Yoshito Kakihara et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

TFEB Links Autophagy to Lysosomal Biogenesis

(2011) C. Settembre et al.   SCIENCE

A Tissue-Specific Atlas of Mouse Protein Phosphorylation and Expression

(2010) Edward L. Huttlin et al.   CELL

HaloTag7: A genetically engineered tag that enhances bacterial expression of soluble proteins and improves protein purification

(2009) Rachel Friedman Ohana et al.   PROTEIN EXPRESSION AND PURIFICATION

Mature ribosomes are selectively degraded upon starvation by an autophagy pathway requiring the Ubp3p/Bre5p ubiquitin protease

(2008) Claudine Kraft et al.   NATURE CELL BIOLOGY