Enhanced Competition at the Nano–Bio Interface Enables Comprehensive Characterization of Protein Corona Dynamics and Deep Coverage of Proteomes

Engineered nanoparticles enable deep proteomics studies at scale by leveraging tunable nano–bio interactions

(2022) Shadi Ferdosi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Capturing functional two-dimensional nanosheets from sandwich-structure vermiculite for cancer theranostics

(2021) Xiaoyuan Ji et al.   Nature Communications

Multilevel proteomics reveals host perturbations by SARS-CoV-2 and SARS-CoV

(2021) Alexey Stukalov et al.   NATURE

Hard and Soft Protein Corona of Nanomaterials: Analysis and Relevance

(2021) Rafaela García-Álvarez et al.   Nanomaterials

Systematic detection of functional proteoform groups from bottom-up proteomic datasets

(2021) Isabell Bludau et al.   Nature Communications

Loss of full-length hnRNP R isoform impairs DNA damage response in motoneurons by inhibiting Yb1 recruitment to chromatin

(2021) Hanaa Ghanawi et al.   NUCLEIC ACIDS RESEARCH

The Human Proteoform Project: Defining the human proteome

(2021) Lloyd M. Smith et al.   Science Advances

Amyloid-like aggregating proteins cause lysosomal defects in neurons via gain-of-function toxicity

(2021) Irene Riera-Tur et al.   Life Science Alliance

Novel drug targets in 2019

(2020) Sorin Avram et al.   NATURE REVIEWS DRUG DISCOVERY

Marriage of black phosphorus and Cu2+ as effective photothermal agents for PET-guided combination cancer therapy

(2020) Kuan Hu et al.   Nature Communications

Rapid, deep and precise profiling of the plasma proteome with multi-nanoparticle protein corona

(2020) John E. Blume et al.   Nature Communications

Understanding the Nano–Bio Interactions and the Corresponding Biological Responses

(2020) Xin Tian et al.   Frontiers in Chemistry

The GTEx Consortium atlas of genetic regulatory effects across human tissues

(2020)   SCIENCE

MarkerDB: an online database of molecular biomarkers

(2020) David S Wishart et al.   NUCLEIC ACIDS RESEARCH

Plasma proteome profiling discovers novel proteins associated with non‐alcoholic fatty liver disease

(2019) Lili Niu et al.   Molecular Systems Biology

Proteomics reveals NNMT as a master metabolic regulator of cancer-associated fibroblasts

(2019) Mark A. Eckert et al.   NATURE

The Nano–Bio Interactions of Nanomedicines: Understanding the Biochemical Driving Forces and Redox Reactions

(2019) Yaling Wang et al.   ACCOUNTS OF CHEMICAL RESEARCH

DIA-NN: neural networks and interference correction enable deep proteome coverage in high throughput

(2019) Vadim Demichev et al.   NATURE METHODS

How many human proteoforms are there?

(2018) Ruedi Aebersold et al.   Nature Chemical Biology

Molecular and structural architecture of polyQ aggregates in yeast

(2018) Anselm Gruber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TISSUES 2.0: an integrative web resource on mammalian tissue expression

(2018) Oana Palasca et al.   Database-The Journal of Biological Databases and Curation

Two-Dimensional Antimonene-Based Photonic Nanomedicine for Cancer Theranostics

(2018) Wei Tao et al.   ADVANCED MATERIALS

Online Parallel Accumulation–Serial Fragmentation (PASEF) with a Novel Trapped Ion Mobility Mass Spectrometer

(2018) Florian Meier et al.   MOLECULAR & CELLULAR PROTEOMICS

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

The Human Plasma Proteome Draft of 2017: Building on the Human Plasma PeptideAtlas from Mass Spectrometry and Complementary Assays

(2017) Jochen M. Schwenk et al.   JOURNAL OF PROTEOME RESEARCH

Revisiting biomarker discovery by plasma proteomics

(2017) Philipp E Geyer et al.   Molecular Systems Biology

Real-time in situ analysis of biocorona formation and evolution on silica nanoparticles in defined and complex biological environments

(2017) Rickard Frost et al.   Nanoscale

The human protein atlas: A spatial map of the human proteome

(2017) Peter J. Thul et al.   PROTEIN SCIENCE

Julia: A Fresh Approach to Numerical Computing

(2017) Jeff Bezanson et al.   SIAM REVIEW

Mechanistic understanding of in vivo protein corona formation on polymeric nanoparticles and impact on pharmacokinetics

(2017) Nicolas Bertrand et al.   Nature Communications

Understanding the Kinetics of Protein–Nanoparticle Corona Formation

(2016) Oriol Vilanova et al.   ACS Nano

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

(2016) Stefka Tyanova et al.   NATURE METHODS

C9ORF72 interaction with cofilin modulates actin dynamics in motor neurons

(2016) Rajeeve Sivadasan et al.   NATURE NEUROSCIENCE

A comprehensive map of molecular drug targets

(2016) Rita Santos et al.   NATURE REVIEWS DRUG DISCOVERY

Pharos: Collating protein information to shed light on the druggable genome

(2016) Dac-Trung Nguyen et al.   NUCLEIC ACIDS RESEARCH

Plasma Proteome Profiling to Assess Human Health and Disease

(2016) Philipp E. Geyer et al.   Cell Systems

C9orf72 FTLD/ALS-associated Gly-Ala dipeptide repeat proteins cause neuronal toxicity and Unc119 sequestration

(2014) Stephanie May et al.   ACTA NEUROPATHOLOGICA

Plasma Proteome Database as a resource for proteomics research: 2014 update

(2013) Vishalakshi Nanjappa et al.   NUCLEIC ACIDS RESEARCH

A High-Confidence Human Plasma Proteome Reference Set with Estimated Concentrations in PeptideAtlas

(2011) Terry Farrah et al.   MOLECULAR & CELLULAR PROTEOMICS

The Clinical Plasma Proteome: A Survey of Clinical Assays for Proteins in Plasma and Serum

(2009) N. L. Anderson   CLINICAL CHEMISTRY

STRING 8--a global view on proteins and their functional interactions in 630 organisms

(2008) L. J. Jensen et al.   NUCLEIC ACIDS RESEARCH