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Author Details

Sarah Killcoyne
Cyted Ltd
2007
24
11
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37454136Mutational signature dynamics shaping the evolution of oesophageal adenocarcinoma.Nat Commun2023
37220898Real-world implementation of non-endoscopic triage testing for Barrett's oesophagus during COVID-19.QJM2023
34757196Limitations of Heartburn and Other Societies' Criteria in Barrett's Screening for Detecting De Novo Esophageal Adenocarcinoma.Clin Gastroenterol Hepatol2022
35030332Use of a Cytosponge biomarker panel to prioritise endoscopic Barrett's oesophagus surveillance: a cross-sectional study followed by a real-world prospective pilot.Lancet Oncol2022
33154569Practical early cancer detection: distinguishing stable from unstable genomes in pre-cancerous tissues.Br J Cancer2021
34545238Evolution and progression of Barrett's oesophagus to oesophageal cancer.Nat Rev Cancer2021
34218956Genomic instability signals offer diagnostic possibility in early cancer detection.Trends Genet2021
32460165Aneuploidy in targeted endoscopic biopsies outperforms other tissue biomarkers in the prediction of histologic progression of Barrett's oesophagus: A multi-centre prospective cohort study.EBioMedicine2020
31712077Comparison of Phenotypes and Risk Factors for Esophageal Adenocarcinoma at Present vs Prior Decades.Clin Gastroenterol Hepatol2020
30165050Identification of Prognostic Phenotypes of Esophageal Adenocarcinoma in 2 Independent Cohorts.Gastroenterology2018
26264669Identification of large-scale genomic variation in cancer genomes using in silico reference models.Nucleic Acids Res2016
24885193FIGG: simulating populations of whole genome sequences for heterogeneous data analyses.BMC Bioinformatics2014
22236120Mining PeptideAtlas for biomarkers and therapeutics in human disease.Curr Pharm Des2012
23216909Hydra: a scalable proteomic search engine which utilizes the Hadoop distributed computing framework.BMC Bioinformatics2012
22941959Interfaces to PeptideAtlas: a case study of standard data access systems.Brief Bioinform2012
22524279Methods for visual mining of genomic and proteomic data atlases.BMC Bioinformatics2012
21851633SAMQA: error classification and validation of high-throughput sequenced read data.BMC Genomics2011
20630057SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments.BMC Bioinformatics2010
19265554Adaptable data management for systems biology investigations.BMC Bioinformatics2009
20700479Managing Chaos: Lessons Learned Developing Software in the Life Sciences.Comput Sci Eng2009
19597788Cytoscape: a community-based framework for network modeling.Methods Mol Biol2009
18578887Systems biology driven software design for the research enterprise.BMC Bioinformatics2008
17169983T1DBase: integration and presentation of complex data for type 1 diabetes research.Nucleic Acids Res2007
17947979Integration of biological networks and gene expression data using Cytoscape.Nat Protoc2007
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Collaborators

Ilya Shmulevich
Institute for Systems Biology
Co-authored papers 3
Eric W Deutsch
Institute for Systems Biology
Co-authored papers 3
Pengliang Wang
Sun Yat-sen Memorial Hospital, Sun Yat-sen University
Co-authored papers 1
Helen Schuilenburg
European Bioinformatics Institute
Co-authored papers 1
Robert L Moritz
Institute for Systems Biology
Co-authored papers 1
Chris Sander
Broad Institute of MIT and Harvard
Co-authored papers 1
Richard Kreisberg
Co-authored papers 1
Iliana Avila-Campillo
New York University
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Vuk Pavlovic
Co-authored papers 1
Ryan Kelley
Stanford University School of Medicine
Co-authored papers 1
Bruce R Conklin
Gladstone Institutes
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Michael R Hoopmann
Institute for Systems Biology
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Michael Creech
Technion - Israel Institute of Technology
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Ruth Isserlin
University of Toronto
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John H Morris
University of California san francisco
Co-authored papers 1
Alexander R Pico
Institute of Data Science and Biotechnology, Gladstone Institutes
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Institute for Systems Biology
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Michael Smoot
University of California
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Benno Schwikowski
Center for Bioinformatics, Institut Pasteur CNRS
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Bruz Marzolf
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Josyf C Mychaleckyj
Co-authored papers 1
Melissa S Cline
Genomics Institute, University of California Santa Cruz
Co-authored papers 1
Rowan H Christmas
Co-authored papers 1
Nuria Lopez-Bigas
Universitat Pompeu Fabra
Co-authored papers 1
Moritz Gerstung
German Cancer Research Centre DKFZ
Co-authored papers 1
Ethan Cerami
Dana-Farber Cancer Institute
Co-authored papers 1
Guy J Warner
Co-authored papers 1
Steven Maere
Ghent University
Co-authored papers 1
Benjamin E Gross
Memorial Sloan Kettering Cancer Center
Co-authored papers 1
Kristina Hanspers
Gladstone Institutes
Co-authored papers 1
Release 1.2