AP-SWATH Reveals Direct Involvement of VCP/p97 in Integrated Stress Response Signaling Through Facilitating CReP/PPP1R15B Degradation

Architecture of the human interactome defines protein communities and disease networks

(2017) Edward L. Huttlin et al.   NATURE

Statistical control of peptide and protein error rates in large-scale targeted data-independent acquisition analyses

(2017) George Rosenberger et al.   NATURE METHODS

Ubiquitin- and ATP-dependent unfoldase activity of P97/VCP•NPLOC4•UFD1L is enhanced by a mutation that causes multisystem proteinopathy

(2017) Emily E. Blythe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

p97/VCP promotes degradation of CRBN substrate glutamine synthetase and neosubstrates

(2017) Thang Van Nguyen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry

(2017) Ben C. Collins et al.   Nature Communications

VCP/p97 cooperates with YOD1, UBXD1 and PLAA to drive clearance of ruptured lysosomes by autophagy

(2016) Chrisovalantis Papadopoulos et al.   EMBO JOURNAL

Structure and function of the AAA+ ATPase p97/Cdc48p

(2016) Di Xia et al.   GENE

Valosin-containing protein (VCP)–Adaptor Interactions are Exceptionally Dynamic and Subject to Differential Modulation by a VCP Inhibitor

(2016) Liang Xue et al.   MOLECULAR & CELLULAR PROTEOMICS

Targeting the AAA ATPase p97 as an Approach to Treat Cancer through Disruption of Protein Homeostasis

(2015) Daniel J. Anderson et al.   CANCER CELL

The BioPlex Network: A Systematic Exploration of the Human Interactome

(2015) Edward L. Huttlin et al.   CELL

Absolute Proteome Composition and Dynamics during Dormancy and Resuscitation of Mycobacterium tuberculosis

(2015) Olga T. Schubert et al.   Cell Host & Microbe

Control of p97 function by cofactor binding

(2015) Alexander Buchberger et al.   FEBS LETTERS

BioID-based Identification of Skp Cullin F-box (SCF)β-TrCP1/2E3 Ligase Substrates

(2015) Etienne Coyaud et al.   MOLECULAR & CELLULAR PROTEOMICS

Systematic proteomics of the VCP–UBXD adaptor network identifies a role for UBXN10 in regulating ciliogenesis

(2015) Malavika Raman et al.   NATURE CELL BIOLOGY

Building high-quality assay libraries for targeted analysis of SWATH MS data

(2015) Olga T Schubert et al.   Nature Protocols

Preventing proteostasis diseases by selective inhibition of a phosphatase regulatory subunit

(2015) I. Das et al.   SCIENCE

DNA Damage Regulates Translation through β-TRCP Targeting of CReP

(2015) Theresa B. Loveless et al.   PLoS Genetics

Ventromedial hypothalamic neurons control a defensive emotion state

(2015) Prabhat S Kunwar et al.   eLife

aLFQ: an R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data

(2014) George Rosenberger et al.   BIOINFORMATICS

Proteotoxic crisis, the ubiquitin-proteasome system, and cancer therapy

(2014) Raymond J Deshaies   BMC BIOLOGY

The p97-Ufd1-Npl4 ATPase complex ensures robustness of the G2/M checkpoint by facilitating CDC25A degradation

(2014) Anne Riemer et al.   CELL CYCLE

The VCP/p97 system at a glance: connecting cellular function to disease pathogenesis

(2014) H. Meyer et al.   JOURNAL OF CELL SCIENCE

Substrate Trapping Proteomics Reveals Targets of the βTrCP2/FBXW11 Ubiquitin Ligase

(2014) Tai Young Kim et al.   MOLECULAR AND CELLULAR BIOLOGY

OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data

(2014) Hannes L Röst et al.   NATURE BIOTECHNOLOGY

A systems-wide screen identifies substrates of the SCF TrCP ubiquitin ligase

(2014) T. Y. Low et al.   Science Signaling

MUL1 acts in parallel to the PINK1/parkin pathway in regulating mitofusin and compensates for loss of PINK1/parkin

(2014) Jina Yun et al.   eLife

RNF185 Is a Novel E3 Ligase of Endoplasmic Reticulum-associated Degradation (ERAD) That Targets Cystic Fibrosis Transmembrane Conductance Regulator (CFTR)

(2013) Elma El Khouri et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The UBXN-2/p37/p47 adaptors of CDC-48/p97 regulate mitosis by limiting the centrosomal recruitment of Aurora A

(2013) Elsa Kress et al.   JOURNAL OF CELL BIOLOGY

The p97-UFD1L-NPL4 Protein Complex Mediates Cytokine-Induced I B  Proteolysis

(2013) J.-M. Li et al.   MOLECULAR AND CELLULAR BIOLOGY

Covalent and allosteric inhibitors of the ATPase VCP/p97 induce cancer cell death

(2013) Paola Magnaghi et al.   Nature Chemical Biology

Interlaboratory reproducibility of large-scale human protein-complex analysis by standardized AP-MS

(2013) Markku Varjosalo et al.   NATURE METHODS

Quantifying protein interaction dynamics by SWATH mass spectrometry: application to the 14-3-3 system

(2013) Ben C Collins et al.   NATURE METHODS

The State of the Human Proteome in 2012 as Viewed through PeptideAtlas

(2012) Terry Farrah et al.   JOURNAL OF PROTEOME RESEARCH

Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis

(2012) Ludovic C. Gillet et al.   MOLECULAR & CELLULAR PROTEOMICS

Emerging functions of the VCP/p97 AAA-ATPase in the ubiquitin system

(2012) Hemmo Meyer et al.   NATURE CELL BIOLOGY

The Proteomics Identifications (PRIDE) database and associated tools: status in 2013

(2012) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

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

(2012) Jimmy K. Eng et al.   PROTEOMICS

The Structure and Function of the Eukaryotic Ribosome

(2012) D. N. Wilson et al.   Cold Spring Harbor Perspectives in Biology

Cdc48/p97-Ufd1-Npl4 antagonizes Aurora B during chromosome segregation in HeLa cells

(2011) G. Dobrynin et al.   JOURNAL OF CELL SCIENCE

Endolysosomal sorting of ubiquitylated caveolin-1 is regulated by VCP and UBXD1 and impaired by VCP disease mutations

(2011) Danilo Ritz et al.   NATURE CELL BIOLOGY

Defining human ERAD networks through an integrative mapping strategy

(2011) John C. Christianson et al.   NATURE CELL BIOLOGY

RNF185, a Novel Mitochondrial Ubiquitin E3 Ligase, Regulates Autophagy through Interaction with BNIP1

(2011) Fei Tang et al.   PLoS One

Cdc48: a power machine in protein degradation

(2011) Alexandra Stolz et al.   TRENDS IN BIOCHEMICAL SCIENCES

VCP disease associated with myopathy, Paget disease of bone and frontotemporal dementia: Review of a unique disorder

(2008) Virginia E. Kimonis et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE

UBXD7 Binds Multiple Ubiquitin Ligases and Implicates p97 in HIF1α Turnover

(2008) Gabriela Alexandru et al.   CELL

One step at a time: endoplasmic reticulum-associated degradation

(2008) Shruthi S. Vembar et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY