Data management of sensitive human proteomics data: current practices, recommendations and perspectives for the future

Ethical Principles, Constraints and Opportunities in Clinical Proteomics

(2021) Sebastian Porsdam Mann et al.   MOLECULAR & CELLULAR PROTEOMICS

Large-scale proteomic analysis of Alzheimer’s disease brain and cerebrospinal fluid reveals early changes in energy metabolism associated with microglia and astrocyte activation

(2020) Erik C. B. Johnson et al.   NATURE MEDICINE

Impact of the General Data Protection Regulation on Clinical Proteomics Research

(2019) Elena Critselis   Proteomics Clinical Applications

Federated discovery and sharing of genomic data using Beacons

(2019) Marc Fiume et al.   NATURE BIOTECHNOLOGY

Are Requirements to Deposit Data in Research Repositories Compatible With the European Union's General Data Protection Regulation?

(2019) Deborah Mascalzoni et al.   ANNALS OF INTERNAL MEDICINE

Proteomics Standards Initiative Extended FASTA Format

(2019) Pierre-Alain Binz et al.   JOURNAL OF PROTEOME RESEARCH

Integration and analysis of CPTAC proteomics data in the context of cancer genomics in the cBioPortal

(2019) Pamela Wu et al.   MOLECULAR & CELLULAR PROTEOMICS

Hair Proteome Variation at Different Body Locations on Genetically Variant Peptide Detection for Protein-Based Human Identification

(2019) Fanny Chu et al.   Scientific Reports

Beyond Genes: Re-Identifiability of Proteomic Data and Its Implications for Personalized Medicine

(2019) Kurt Boonen et al.   Genes

Sensitive Method for the Confident Identification of Genetically Variant Peptides in Human Hair Keratin

(2019) Zheng Zhang et al.   JOURNAL OF FORENSIC SCIENCES

Pan-cancer whole-genome analyses of metastatic solid tumours

(2019) Peter Priestley et al.   NATURE

Panorama Public: A Public Repository for Quantitative Data Sets Processed in Skyline

(2018) Vagisha Sharma et al.   MOLECULAR & CELLULAR PROTEOMICS

UniProt: the universal protein knowledgebase

(2018) The UniProt Consortium   NUCLEIC ACIDS RESEARCH

Genomic atlas of the human plasma proteome

(2018) Benjamin B. Sun et al.   NATURE

OUP accepted manuscript

(2018)   NUCLEIC ACIDS RESEARCH

OUP accepted manuscript

(2018)   NUCLEIC ACIDS RESEARCH

Assembling the Community-Scale Discoverable Human Proteome

(2018) Mingxun Wang et al.   Cell Systems

ArrayExpress update – from bulk to single-cell expression data

(2018) Awais Athar et al.   NUCLEIC ACIDS RESEARCH

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

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

DDBJ update: the Genomic Expression Archive (GEA) for functional genomics data

(2018) Yuichi Kodama et al.   NUCLEIC ACIDS RESEARCH

Addressing Beacon re-identification attacks: quantification and mitigation of privacy risks

(2017) Jean Louis Raisaro et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

New Guidelines for Publication of Manuscripts Describing Development and Application of Targeted Mass Spectrometry Measurements of Peptides and Proteins

(2017) Susan Abbatiello et al.   MOLECULAR & CELLULAR PROTEOMICS

Proteogenomics connects somatic mutations to signalling in breast cancer

(2016) Philipp Mertins et al.   NATURE

Demonstration of Protein-Based Human Identification Using the Hair Shaft Proteome

(2016) Glendon J. Parker et al.   PLoS One

Exploring the potential of public proteomics data

(2015) Marc Vaudel et al.   PROTEOMICS

ProteomeXchange provides globally coordinated proteomics data submission and dissemination

(2014) Juan A Vizcaíno et al.   NATURE BIOTECHNOLOGY

The DDBJ Japanese Genotype-phenotype Archive for genetic and phenotypic human data

(2014) Yuichi Kodama et al.   NUCLEIC ACIDS RESEARCH

NCBI’s Database of Genotypes and Phenotypes: dbGaP

(2013) Kimberly A. Tryka et al.   NUCLEIC ACIDS RESEARCH

Identifying Personal Genomes by Surname Inference

(2013) M. Gymrek et al.   SCIENCE

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

PASSEL: The PeptideAtlas SRMexperiment library

(2012) Terry Farrah et al.   PROTEOMICS

Resolving Individuals Contributing Trace Amounts of DNA to Highly Complex Mixtures Using High-Density SNP Genotyping Microarrays

(2008) Nils Homer et al.   PLoS Genetics