E. Kolker

发表

Underlying order in protein sequence organization.

A. L. Berman, E. Kolker, E. Trifonov, 1994, Proceedings of the National Academy of Sciences of the United States of America.

The promise of multi-omics and clinical data integration to identify and target personalized healthcare approaches in autism spectrum disorders.

E. Kolker, L. Stanberry, R. Bernier, 2015, Omics : a journal of integrative biology.

Identiﬁcation and functional analysis of ‘hypothetical’ genes expressed in Haemophilus inﬂuenzae

Michael Y. Galperin, D. Frishman, K. Makarova, 2004 .

Experimental protein mixture for validating tandem mass spectral analysis.

A. Nesvizhskii, E. Kolker, D. Goodlett, 2002, Omics : a journal of integrative biology.

A statistical model for identifying proteins by tandem mass spectrometry.

R. Aebersold, A. Nesvizhskii, E. Kolker, 2003, Analytical chemistry.

The minimum information about a genome sequence (MIGS) specification

Chris F. Taylor, Allyson L. Lister, Nikos, 2008, Nature Biotechnology.

Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays.

E. Kolker, R. Saxena, C. Rosenow, 2002, Nucleic acids research.

Standard mixtures for proteome studies.

E. Kolker, Alex F Picone, S. Purvine, 2004, Omics : a journal of integrative biology.

Differential stable isotope labeling of peptides for quantitation and de novo sequence derivation.

R. Aebersold, E. Kolker, J. Eng, 2001, Rapid communications in mass spectrometry : RCM.

In-silico human genomics with GeneCards

Tsippi Iny Stein, E. Kolker, D. Lancet, 2011, Human Genomics.

UNRAVELING THE COMPLEXITIES OF LIFE SCIENCES DATA Introduction

E. Kolker, L. Stanberry, R. Higdon, 2012 .

Estimating false discovery rates for peptide and protein identification using randomized databases

Eugene Kolker, Roger Higdon, Andrew Bauman, 2010, Proteomics.

LIP index for peptide classification using MS/MS and SEQUEST search via logistic regression.

E. Kolker, R. Higdon, N. Kolker, 2004, Omics : a journal of integrative biology.

Genome Project Standards in a New Era of Sequencing

B. Birren, T. Graves, A. Wollam, 2009, Science.

Spectral quality assessment for high-throughput tandem mass spectrometry proteomics.

E. Kolker, N. Kolker, S. Purvine, 2004, Omics : a journal of integrative biology.

Protein identification and expression analysis using mass spectrometry.

E. Kolker, R. Higdon, J. Hogan, 2006, Trends in microbiology.

Meeting Report: The Terabase Metagenomics Workshop and the Vision of an Earth Microbiome Project

Rick L. Stevens, James R. Knight, J. Raes, 2010, Standards in genomic sciences.

Ready to put metadata on the post-2015 development agenda? Linking data publications to responsible innovation and science diplomacy.

Türkay Dereli, Sophie Mohin, Eugene Kolker, 2014, Omics : a journal of integrative biology.

Integrative Analysis of Longitudinal Metabolomics Data from a Personal Multi-Omics Profile

Winston Haynes, George I. Mias, Eugene Kolker, 2013, Metabolites.

Statistical analysis of global gene expression data: some practical considerations.

Eugene Kolker, Ted Holzman, E. Kolker, 2004, Current opinion in biotechnology.

Vaccines of the 21st century and vaccinomics: data-enabled science meets global health to spark collective action for vaccine innovation.

Eugene Kolker, Vural Ozdemir, Bartha M. Knoppers, 2011, Omics : a journal of integrative biology.

'Omics Data Sharing

John Wilbanks, Chris F. Taylor, Susanna-Assunta Sansone, 2009, Science.

The United States of America and Scientific Research

Folker Meyer, Peter Arzberger, Winston Haynes, 2010, PloS one.

Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations.

Gordon A Anderson, John R Yates, Monica Riley, 2005, Proceedings of the National Academy of Sciences of the United States of America.

A Statistical Model of Protein Sequence Similarity and Function Similarity Reveals Overly-Specific Function Predictions

E. Kolker, R. Higdon, Brenton Louie, 2009, PloS one.

SPIRE: Systematic protein investigative research environment.

Winston Haynes, Eugene Kolker, Roger Higdon, 2011, Journal of proteomics.

Quantifying Protein Function Specificity in the Gene Ontology

Eugene Kolker, Roger Higdon, Brenton Louie, 2010, Standards in genomic sciences.

In Silico Metabolic Model and Protein Expression of Haemophilus influenzae Strain Rd KW20 in Rich Medium.

Michael Y. Galperin, Eugene Kolker, Bernhard O Palsson, 2004, Omics : a journal of integrative biology.

New metrics for comparative genomics.

Michael Y. Galperin, Eugene Kolker, Michael Y Galperin, 2006, Current opinion in biotechnology.

Validating annotations for uncharacterized proteins in Shewanella oneidensis.

Peter Tarczy-Hornoch, Eugene Kolker, Roger Higdon, 2008, Omics : a journal of integrative biology.

Designing a post-genomics knowledge ecosystem to translate pharmacogenomics into public health action

Eugene Kolker, Edward S Dove, Vural Özdemir, 2012, Genome Medicine.

of Medical Complexity

J. Roach, E. Kolker, G. Belle, 2013 .

Development of BIATECH‐54 standard mixtures for assessment of protein identification and relative expression

E. Kolker, R. Higdon, N. Kolker, 2007, Proteomics.

Comparison of proteomic and metabolomic profiles of mutants of the mitochondrial respiratory chain in Caenorhabditis elegans.

E. Kolker, R. Higdon, N. Kolker, 2015, Mitochondrion.

Genome-environment interactions and prospective technology assessment: evolution from pharmacogenomics to nutrigenomics and ecogenomics.

Eugene Kolker, Vural Ozdemir, Béatrice Godard, 2009, Omics : a journal of integrative biology.

Towards an Ecology of Collective Innovation: Human Variome Project (HVP), Rare Disease Consortium for Autosomal Loci (RaDiCAL) and Data-Enabled Life Sciences Alliance (DELSA).

Yann Joly, Eugene Kolker, Emmanuelle Vaast, 2011, Current pharmacogenomics and personalized medicine.

Can "normal" protein expression ranges be estimated with high-throughput proteomics?

E. Kolker, R. Higdon, 2015, Journal of proteome research.

In-silico human genomics with

Tsippi Iny Stein, E. Kolker, D. Lancet, 2011 .

Final Summary of "Interdisciplinary Study of Shewanella oneidensis MR-1's Metabolism & Metal Reduction"

E. Kolker, 2007 .

Initial Proteome Analysis of Model Microorganism Haemophilus influenzae Strain Rd KW20

Alexey I Nesvizhskii, Michael Y. Galperin, Andrew Keller, 2003, Journal of bacteriology.

Toward More Transparent and Reproducible Omics Studies Through a Common Metadata Checklist and Data Publications

Lennart Martens, Stefano Toppo, Geoffrey C. Fox, 2013, Big Data.

Identiﬁcation and functional analysis of ‘hypothetical’ genes expressed in Haemophilus inﬂuenzae

Michael Y. Galperin, D. Frishman, K. Makarova, 2004 .

Dynamic Proteomic Analysis of Pancreatic Mesenchyme Reveals Novel Factors That Enhance Human Embryonic Stem Cell to Pancreatic Cell Differentiation

E. Kolker, R. Higdon, M. Hebrok, 2015, Stem cells international.

Competition between PARP-1 and Ku70 control the decision between high-fidelity and mutagenic DNA repair.

E. Kolker, R. Higdon, A. Scharenberg, 2011, DNA repair.

Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search.

Alexey I Nesvizhskii, Ruedi Aebersold, Andrew Keller, 2002, Analytical chemistry.

Risk assessment and communication tools for genotype associations with multifactorial phenotypes: the concept of "edge effect" and cultivating an ethical bridge between omics innovations and society.

Eugene Kolker, Vural Ozdemir, Toshiyuki Someya, 2009, Omics : a journal of integrative biology.

Interplay of heritage and habitat in the distribution of bacterial signal transduction systems.

Michael Y. Galperin, Eugene Kolker, Roger Higdon, 2010, Molecular bioSystems.

Health Care Transformation: A Strategy Rooted in Data and Analytics.

Eugene Kolker, Elizabeth Stewart, E. Kolker, 2016, Academic medicine : journal of the Association of American Medical Colleges.

Is it Time for Cognitive Bioinformatics

Eugene Kolker, Elizabeth Stewart, Andrey Lisitsa, 2015 .

Genic insights from integrated human proteomics in GeneCards

Tsviya Olender, Doron Lancet, Marilyn Safran, 2016, Database J. Biol. Databases Curation.

Classifying proteins into functional groups based on all-versus-all BLAST of 10 million proteins.

Winston Haynes, Eugene Kolker, Roger Higdon, 2011, Omics : a journal of integrative biology.

Beyond protein expression, MOPED goes multi-omics

Eugene Kolker, Roger Higdon, Elizabeth Stewart, 2014, Nucleic Acids Res..

MOPED 2.5--an integrated multi-omics resource: multi-omics profiling expression database now includes transcriptomics data.

Eugene Kolker, Roger Higdon, Elizabeth Stewart, 2014, Omics : a journal of integrative biology.

Integrated Proteomic and Transcriptomic-Based Approaches to Identifying Signature Biomarkers and Pathways for Elucidation of Daoy and UW228 Subtypes

E. Kolker, R. Higdon, Elizabeth Montague, 2017, Proteomes.

Toward more transparent and reproducible omics studies through a common metadata checklist and data publications.

Lennart Martens, Doron Lancet, Dmitrij Frishman, 2014, Omics : a journal of integrative biology.

Metadata checklist for the integrated personal OMICS study: proteomics and metabolomics experiments.

Eugene Kolker, Michael Snyder, George Mias, 2014, Omics : a journal of integrative biology.

Metadata Checklist for the Integrated Personal Omics Study: Proteomics and Metabolomics Experiments

Eugene Kolker, Michael Snyder, George Mias, 2013, Big Data.

Delsa Workshop IV: Launching the Quantified Human Initiative

Lennart Martens, Eugene Kolker, Sophie Mohin, 2013, Big Data.

Unraveling the Complexities of Life Sciences Data

Winston Haynes, Eugene Kolker, Roger Higdon, 2013, Big Data.

TOWARD MORE TRANSPARENT AND REPRODUCIBLE

Robert L. Grossman, Lennart Martens, Doron Lancet, 2013 .

An Appeal to the Global Health Community for a Tripartite Innovation: An "Essential Diagnostics List," "Health in All Policies," and "See-Through 21(st) Century Science and Ethics".

Wei Wang, E. Kolker, E. Vayena, 2015, Omics : a journal of integrative biology.

Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project

Nigel W. Hardy, Chris F. Taylor, John M. Hancock, 2008, Nature Biotechnology.

Periodic recurrence of methionines: fossil of gene fusion?

E. Kolker, E. Trifonov, 1995, Proceedings of the National Academy of Sciences of the United States of America.

Toward a standards-compliant genomic and metagenomic publication record.

Frank Oliver Glöckner, Nikos Kyrpides, Owen White, 2008, Omics : a journal of integrative biology.

Meeting report: the fourth Genomic Standards Consortium (GSC) workshop.

Renzo Kottmann, Victor Markowitz, Frank Oliver Glöckner, 2008, Omics : a journal of integrative biology.

MOPED enables discoveries through consistently processed proteomics data.

Doron Lancet, Winston Haynes, Eugene Kolker, 2014, Journal of proteome research.

Optimizing high performance computing workflow for protein functional annotation

Yuan Liu, Eugene Kolker, Roger Higdon, 2014, Concurr. Comput. Pract. Exp..

Visualizing the Protein Sequence Universe

Geoffrey C. Fox, Judy Qiu, Yang Ruan, 2012, ECMLS '12.

Modeling sequence and function similarity between proteins for protein functional annotation

Eugene Kolker, Roger Higdon, Brenton Louie, 2010, HPDC '10.

Experimental standards for high-throughput proteomics.

Eugene Kolker, Roger Higdon, E. Kolker, 2006, Omics : a journal of integrative biology.

Sequence Markers of Segmented Protein Structure

E. Kolker, E. Trifonov, 1995 .

Biomarker differences between cadaveric grafts used in human orthotopic liver transplantation as identified by coulometric electrochemical array detection (CEAD) metabolomics.

E. Kolker, R. Higdon, D. Richards, 2014, Omics : a journal of integrative biology.

Randomized sequence databases for tandem mass spectrometry peptide and protein identification.

Eugene Kolker, Roger Higdon, Jason M Hogan, 2005, Omics : a journal of integrative biology.

Experiment-specific estimation of peptide identification probabilities using a randomized database.

Eugene Kolker, Roger Higdon, Natali Kolker, 2007, Omics : a journal of integrative biology.

Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9

Renzo Kottmann, Folker Meyer, Frank Oliver Glöckner, 2010, Standards in genomic sciences.

Collective theranostics and postgenomics entrepreneurship: rethinking innovations as knowledge ecosystems built by complex collaboration

Eugene Kolker, Vural Özdemir, E. Kolker, 2012, Expert review of molecular diagnostics.

Big Data and Ethics Review for Health Systems Research in LMICs: Understanding Risk, Uncertainty and Ignorance—And Catching the Black Swans?

Türkay Dereli, Eugene Kolker, Vural Özdemir, 2014, The American journal of bioethics : AJOB.

Differential Expression Analysis for Pathways

Winston Haynes, Eugene Kolker, Roger Higdon, 2013, PLoS Comput. Biol..

MOPED: Model Organism Protein Expression Database

Doron Lancet, Winston Haynes, Eugene Kolker, 2011, Nucleic Acids Res..

A predictive model for identifying proteins by a single peptide match

Eugene Kolker, Roger Higdon, E. Kolker, 2007, Bioinform..

Precision Nutrition 4.0: A Big Data and Ethics Foresight Analysis--Convergence of Agrigenomics, Nutrigenomics, Nutriproteomics, and Nutrimetabolomics.

Eugene Kolker, Vural Özdemir, E. Kolker, 2016, Omics : a journal of integrative biology.

H. influenzae Consortium: integrative study of H. influenzae-human interactions.

Eugene Kolker, Bernhard O Palsson, Samuel Purvine, 2002, Omics : a journal of integrative biology.

Bernard Lerer: recipient of the 2014 inaugural Werner Kalow Responsible Innovation Prize in Global Omics and Personalized Medicine (Pacific Rim Association for Clinical Pharmacogenetics).

E. Hafen, E. Kolker, E. Vayena, 2014, Omics : a journal of integrative biology.

A Case Study: Analyzing City Vitality with Four Pillars of Activity - Live, Work, Shop, and Play

Winston Haynes, Eugene Kolker, Roger Higdon, 2016, Big Data.

Early Pneumonia Alterations in the Airway Proteome during Elicits Marked Staphylococcus Aureus Supplemental Material

Eugene Kolker, Roger Higdon, Laura Hohmann, 2008 .

Facing challenges in Proteomics today and in the coming decade: Report of Roundtable Discussions at the 4th EuPA Scientific Meeting, Portugal, Estoril 2010.

Fredrik Levander, Jürgen Cox, Eugene Kolker, 2011, Journal of proteomics.

Host Airway Proteins Interact with Staphylococcus aureus during Early Pneumonia

Eugene Kolker, Roger Higdon, E. Kolker, 2008, Infection and Immunity.

Opportunities and challenges for the life sciences community.

Eugene Kolker, Vural Ozdemir, Elizabeth Stewart, 2012, Omics : a journal of integrative biology.

Bioinformatics and data-intensive scientific discovery in the beginning of the 21st century.

Winston Haynes, Christian Roth, Eugene Kolker, 2011, Omics : a journal of integrative biology.

Education and data-intensive science in the beginning of the 21st century.

Eugene Kolker, Andrew Bauman, Sean Rapson, 2011, Omics : a journal of integrative biology.

Meta-analysis for protein identification: a case study on yeast data.

Winston Haynes, Eugene Kolker, Roger Higdon, 2010, Omics : a journal of integrative biology.

Biology and data-intensive scientific discovery in the beginning of the 21st century.

Magdalena Balazinska, Michael McLennan, Burton J. Smith, 2011, Omics : a journal of integrative biology.

Precision Medicine 2.0: The Rise of Glocal Innovation, Superconnectors, and Design Thinking.

E. Kolker, L. Endrenyi, L. Steuten, 2016, Omics : a journal of integrative biology.

Policy and data-intensive scientific discovery in the beginning of the 21st century.

Eugene Kolker, Bartha M Knoppers, Vural Ozdemir, 2011, Omics : a journal of integrative biology.

The necessity of adjusting tests of protein category enrichment in discovery proteomics

Eugene Kolker, Roger Higdon, Brenton Louie, 2010, Bioinform..

Identifying operons and untranslated regions of transcripts using Escherichia coli RNA expression analysis

David R. Haynor, Eugene Kolker, Brian Tjaden, 2002, ISMB.

Special issue on data-intensive science.

Eugene Kolker, E. Kolker, 2011, Omics : a journal of integrative biology.

How Healthcare Can Refocus on Its Super-Customers (Patients, n =1) and Customers (Doctors and Nurses) by Leveraging Lessons from Amazon, Uber, and Watson.

Eugene Kolker, Vural Özdemir, Evelyne Kolker, 2016, Omics : a journal of integrative biology.

OMICS studies: How about metadata checklist and data publications?

Eugene Kolker, Elizabeth Stewart, E. Kolker, 2014, Journal of proteome research.

Staphylococcus aureus Elicits Marked Alterations in the Airway Proteome during Early Pneumonia

E. Kolker, R. Higdon, S. Skerrett, 2008, Infection and Immunity.

Collective theranostics and postgenomics entrepreneurship: rethinking innovations as knowledge ecosystems built by complex collaboration

E. Kolker, V. Özdemir, Samer Faraj, 2012, Expert review of molecular diagnostics.

Predictive Analytics In Healthcare: Medications as a Predictor of Medical Complexity

Eugene Kolker, Gerald van Belle, Natali Kolker, 2013, Big Data.

Design and initial characterization of the SC-200 proteomics standard mixture.

Peter Myler, Eugene Kolker, Elizabeth Stewart, 2011, Omics : a journal of integrative biology.

Bernard Lerer: recipient of the 2014 inaugural Werner Kalow Responsible Innovation Prize in Global Omics and Personalized Medicine (Pacific Rim Association for Clinical Pharmacogenetics).

E. Hafen, E. Kolker, E. Vayena, 2014, Omics : a journal of integrative biology.

Health Care Transformation: A Strategy Rooted in Data and Analytics.

E. Kolker, Elizabeth Stewart, J. Koster, 2016, Academic medicine : journal of the Association of American Medical Colleges.

Ready to put metadata on the post-2015 development agenda? Linking data publications to responsible innovation and science diplomacy.

E. Kolker, P. Hotez, B. Wynne, 2014, Omics : a journal of integrative biology.