Proteome-wide identification of ubiquitin interactions using UbIA-MS

An Interaction Landscape of Ubiquitin Signaling

(2017) Xiaofei Zhang et al.   MOLECULAR CELL

Ubiquitin modifications

(2016) Kirby N Swatek et al.   CELL RESEARCH

The MaxQuant computational platform for mass spectrometry-based shotgun proteomics

(2016) Stefka Tyanova et al.   Nature Protocols

Characterizing Protein–Protein Interactions Using Mass Spectrometry: Challenges and Opportunities

(2016) Arne H. Smits et al.   TRENDS IN BIOTECHNOLOGY

Orchestrating high-throughput genomic analysis with Bioconductor

(2015) Wolfgang Huber et al.   NATURE METHODS

Proteome-wide identification of SUMO modification sites by mass spectrometry

(2015) Triin Tammsalu et al.   Nature Protocols

Click chemistry for targeted protein ubiquitylation and ubiquitin chain formation

(2015) Daniel Rösner et al.   Nature Protocols

The unravelling of the ubiquitin system

(2015) Aaron Ciechanover   NATURE REVIEWS MOLECULAR CELL BIOLOGY

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ

(2014) Jürgen Cox et al.   MOLECULAR & CELLULAR PROTEOMICS

1,2,3-Triazoles as Amide Bond Mimics: Triazole Scan Yields Protease-Resistant Peptidomimetics for Tumor Targeting

(2013) Ibai E. Valverde et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Ubiquitin-Binding Proteins: Decoders of Ubiquitin-Mediated Cellular Functions

(2012) Koraljka Husnjak et al.   Annual Review of Biochemistry

Comparative Proteomic Analysis of Eleven Common Cell Lines Reveals Ubiquitous but Varying Expression of Most Proteins

(2012) Tamar Geiger et al.   MOLECULAR & CELLULAR PROTEOMICS

MSnbase-an R/Bioconductor package for isobaric tagged mass spectrometry data visualization, processing and quantitation

(2011) Laurent Gatto et al.   BIOINFORMATICS

Click synthesis of ubiquitin dimer analogs to interrogate linkage-specific UBA domain binding

(2011) Nadine D. Weikart et al.   CHEMICAL COMMUNICATIONS

Total Chemical Synthesis of Di-ubiquitin Chains

(2010) K. S. Ajish Kumar et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Chemical Synthesis of Ubiquitin, Ubiquitin-Based Probes, and Diubiquitin

(2010) Farid El Oualid et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Synthesis of Defined Ubiquitin Dimers

(2010) Silvia Eger et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics

(2009) Jürgen Cox et al.   Nature Protocols

Ubiquitin-binding domains — from structures to functions

(2009) Ivan Dikic et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Iodoacetamide-induced artifact mimics ubiquitination in mass spectrometry

(2008) Michael L Nielsen et al.   NATURE METHODS