H
Han-Yu Chuang
Researcher at Illumina
Publications - 47
Citations - 5773
Han-Yu Chuang is an academic researcher from Illumina. The author has contributed to research in topics: Biology & Cancer. The author has an hindex of 18, co-authored 36 publications receiving 5296 citations. Previous affiliations of Han-Yu Chuang include National Taiwan University & University of California.
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Journal ArticleDOI
The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes
Ross Overbeek,Tadhg P. Begley,Ralph Butler,Jomuna V. Choudhuri,Han-Yu Chuang,Matthew P. Cohoon,Valérie de Crécy-Lagard,Naryttza N. Diaz,Terry Disz,Robert D. Edwards,Robert D. Edwards,Michael Fonstein,Ed D. Frank,Svetlana Gerdes,Elizabeth M. Glass,Alexander Goesmann,Andrew C. Hanson,Dirk Iwata-Reuyl,Roy A. Jensen,Neema Jamshidi,Lutz Krause,Michael Kubal,Niels Bent Larsen,Burkhard Linke,Alice C. McHardy,Folker Meyer,Heiko Neuweger,Gary J. Olsen,Robert Olson,Andrei L. Osterman,Vasiliy A. Portnoy,Gordon D. Pusch,Dmitry A. Rodionov,Christian Rückert,Jason Steiner,Rick Stevens,Rick Stevens,Ines Thiele,Olga Vassieva,Yuzhen Ye,Olga Zagnitko,Veronika Vonstein +41 more
TL;DR: The subsystem approach is described, the first release of the growing library of populated subsystems is offered, and the SEED is the first annotation environment that supports this model of annotation.
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Network-based classification of breast cancer metastasis.
TL;DR: A protein‐network‐based approach is applied that identifies markers not as individual genes but as subnetworks extracted from protein interaction databases, which provide novel hypotheses for pathways involved in tumor progression.
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Inferring pathway activity toward precise disease classification.
TL;DR: It is shown that classifiers using pathway activity achieve better performance than classifiers based on individual gene expression, for both simple and complex case-control studies including differentiation of perturbed from non-perturbed cells and subtyping of several different kinds of cancer.
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A reference data set of 5.4 million phased human variants validated by genetic inheritance from sequencing a three-generation 17-member pedigree
Michael A. Eberle,Epameinondas Fritzilas,Peter Krusche,Morten Källberg,Benjamin L. Moore,Mitchell A. Bekritsky,Zamin Iqbal,Han-Yu Chuang,Sean Humphray,Aaron L. Halpern,Semyon Kruglyak,Elliott H. Margulies,Gil McVean,Gil McVean,David R. Bentley +14 more
TL;DR: Analysis of 334,652 SNVs revealed that the majority of these variants are de novo and cell-line mutations or reside within previously unidentified duplications and deletions, which are a resource for objective assessment of the accuracy of variant calls throughout genomes.
Journal ArticleDOI
A Decade of Systems Biology
TL;DR: The state of the field is reviewed with a focus on four emerging applications of systems biology likely to be of particular importance during the decade to follow: pathway-based biomarkers, global genetic interaction maps, systems approaches to identify disease genes, and stem cell systems biology.