Learning from Heterogeneous Data Sources: An Application in Spatial Proteomics

A draft map of the mouse pluripotent stem cell spatial proteome

(2016) Andy Christoforou et al.   Nature Communications

Machine learning applications in genetics and genomics

(2015) Maxwell W. Libbrecht et al.   NATURE REVIEWS GENETICS

Training the 21st Century Immunologist

(2015) Roberto Spreafico et al.   TRENDS IN IMMUNOLOGY

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

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

Mass-spectrometry-based spatial proteomics data analysis using pRoloc and pRolocdata

(2014) L. Gatto et al.   BIOINFORMATICS

Deciphering Thylakoid Sub-compartments using a Mass Spectrometry-based Approach

(2014) Martino Tomizioli et al.   MOLECULAR & CELLULAR PROTEOMICS

A Foundation for Reliable Spatial Proteomics Data Analysis

(2014) Laurent Gatto et al.   MOLECULAR & CELLULAR PROTEOMICS

STRING v10: protein–protein interaction networks, integrated over the tree of life

(2014) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Predicting Human Protein Subcellular Locations by the Ensemble of Multiple Predictors via Protein-Protein Interaction Network with Edge Clustering Coefficients

(2014) Pufeng Du et al.   PLoS One

A novel approach for protein subcellular location prediction using amino acid exposure

(2013) Arvind Mer et al.   BMC BIOINFORMATICS

Recent Advances in Predicting Protein Classification and Their Applications to Drug Development

(2013) Xuan Xiao et al.   CURRENT TOPICS IN MEDICINAL CHEMISTRY

Identification of Trans-Golgi Network Proteins in Arabidopsis thaliana Root Tissue

(2013) Arnoud J. Groen et al.   JOURNAL OF PROTEOME RESEARCH

The effect of organelle discovery upon sub-cellular protein localisation

(2013) L.M. Breckels et al.   Journal of Proteomics

Predicting multiplex subcellular localization of proteins using protein-protein interaction network: a comparative study

(2012) Jonathan Q Jiang et al.   BMC BIOINFORMATICS

PredAlgo: A New Subcellular Localization Prediction Tool Dedicated to Green Algae

(2012) Marianne Tardif et al.   MOLECULAR BIOLOGY AND EVOLUTION

Putative Glycosyltransferases and Other Plant Golgi Apparatus Proteins Are Revealed by LOPIT Proteomics

(2012) N. Nikolovski et al.   PLANT PHYSIOLOGY

Multi-Label Multi-Kernel Transfer Learning for Human Protein Subcellular Localization

(2012) Suyu Mei   PLoS One

PSCL: Predicting Protein Subcellular Localization Based on Optimal Functional Domains

(2012) Kai Wang et al.   PROTEIN AND PEPTIDE LETTERS

Using Protein-protein Interaction Network Information to Predict the Subcellular Locations of Proteins in Budding Yeast

(2012) Le-Le Hu et al.   PROTEIN AND PEPTIDE LETTERS

Gene ontology based transfer learning for protein subcellular localization

(2011) Suyu Mei et al.   BMC BIOINFORMATICS

The mitochondrial contact site complex, a determinant of mitochondrial architecture

(2011) Max Harner et al.   EMBO JOURNAL

Recent progress in predicting protein sub-subcellular locations

(2011) Pufeng Du et al.   Expert Review of Proteomics

Large-Scale Protein Profiling in Human Cell Lines Using Antibody-Based Proteomics

(2011) Linn Fagerberg et al.   JOURNAL OF PROTEOME RESEARCH

Multi-kernel transfer learning based on Chou's PseAAC formulation for protein submitochondria localization

(2011) Suyu Mei   JOURNAL OF THEORETICAL BIOLOGY

Using a Novel AdaBoost Algorithm and Chous Pseudo Amino Acid Composition for Predicting Protein Subcellular Localization

(2011) Jie Lin et al.   PROTEIN AND PEPTIDE LETTERS

Going from where to why—interpretable prediction of protein subcellular localization

(2010) Sebastian Briesemeister et al.   BIOINFORMATICS

The Protein Composition of Mitotic Chromosomes Determined Using Multiclassifier Combinatorial Proteomics

(2010) Shinya Ohta et al.   CELL

High performance set of PseAAC and sequence based descriptors for protein classification

(2010) Loris Nanni et al.   JOURNAL OF THEORETICAL BIOLOGY

Towards a knowledge-based Human Protein Atlas

(2010) Mathias Uhlen et al.   NATURE BIOTECHNOLOGY

YLoc—an interpretable web server for predicting subcellular localization

(2010) Sebastian Briesemeister et al.   NUCLEIC ACIDS RESEARCH

Improved sub-cellular resolution via simultaneous analysis of organelle proteomics data across varied experimental conditions

(2010) Matthew W. B. Trotter et al.   PROTEOMICS

Learning from Imbalanced Data

(2009) Haibo He et al.   IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING

Mapping Organelle Proteins and Protein Complexes inDrosophila melanogaster

(2009) Denise J. L. Tan et al.   JOURNAL OF PROTEOME RESEARCH

The Organelle Proteome of the DT40 Lymphocyte Cell Line

(2009) Stephanie L. Hall et al.   MOLECULAR & CELLULAR PROTEOMICS

Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins

(2009) Bernd Wollscheid et al.   NATURE BIOTECHNOLOGY

PROSITE, a protein domain database for functional characterization and annotation

(2009) Christian J. A. Sigrist et al.   NUCLEIC ACIDS RESEARCH

ProLoc-GO: Utilizing informative Gene Ontology terms for sequence-based prediction of protein subcellular localization

(2008) Wen-Lin Huang et al.   BMC BIOINFORMATICS

Predicting Subcellular Localization of Mycobacterial Proteins by Using Chous Pseudo Amino Acid Composition

(2008) Hao Lin et al.   PROTEIN AND PEPTIDE LETTERS

Predicting Protein Subcellular Location Using Chous Pseudo Amino Acid Composition and Improved Hybrid Approach

(2008) Feng-Min Li et al.   PROTEIN AND PEPTIDE LETTERS

Sub-cellular localization of membrane proteins

(2008) Pawel G. Sadowski et al.   PROTEOMICS