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Biocomputing 2014 - Proceedings Of The Pacific Symposium 2014 ed. [Kietas viršelis]

Edited by (Univ Of Pennsylvania, Usa), Edited by (Stanford Univ, Usa), Edited by (Univ Of Colorado Health Sciences Center, Usa), Edited by (Indiana Univ, Usa), Edited by (Stanford Univ, Usa), Edited by (Stanford Univ, Usa)
  • Formatas: Hardback, 436 pages
  • Išleidimo metai: 30-Nov-2013
  • Leidėjas: World Scientific Publishing Co Pte Ltd
  • ISBN-10: 9814596345
  • ISBN-13: 9789814596343
Kitos knygos pagal šią temą:
  • Formatas: Hardback, 436 pages
  • Išleidimo metai: 30-Nov-2013
  • Leidėjas: World Scientific Publishing Co Pte Ltd
  • ISBN-10: 9814596345
  • ISBN-13: 9789814596343
Kitos knygos pagal šią temą:
The Pacific Symposium on Biocomputing (PSB) 2014 is an international, multidisciplinary conference for the presentation and discussion of current research in the theory and application of computational methods in problems of biological significance. Presentations are rigorously peer reviewed and are published in an archival proceedings volume. PSB 2014 will be held from January 3 – 7, 2014 in Kohala Coast, Hawaii. Tutorials and workshops will be offered prior to the start of the conference.PSB 2014 will bring together top researchers from the US, the Asian Pacific nations, and around the world to exchange research results and address open issues in all aspects of computational biology. It is a forum for the presentation of work in databases, algorithms, interfaces, visualization, modeling, and other computational methods, as applied to biological problems, with emphasis on applications in data-rich areas of molecular biology.The PSB has been designed to be responsive to the need for critical mass in sub-disciplines within biocomputing. For that reason, it is the only meeting whose sessions are defined dynamically each year in response to specific proposals. PSB sessions are organized by leaders of research in biocomputing's “hot topics.” In this way, the meeting provides an early forum for serious examination of emerging methods and approaches in this rapidly changing field.
Preface v
CANCER PANOMICS: COMPUTATIONAL METHODS AND INFRASTRUCTURE FOR INTEGRATIVE ANALYSIS OF CANCER HIGH-THROUGHPUT "OMICS" DATA
Session Introduction
1(2)
Søren Brunak
Francisco M. De La Vega
Gunnar Ratsch
Joshua M. Stuart
Tumor Haplotype Assembly Algorithms for Cancer Genomics
3(12)
Derek Aguiar
Wendy S.W. Wong
Sorin Istrail
Extracting Significant Sample-Specific Cancer Mutations Using Their Protein Interactions
15(12)
Liviu Badea
The Stream Algorithm: Computationally Efficient Ridge-Regression via Bayesian Model Averaging, and Applications to Pharmacogenomic Prediction of Cancer Cell Line Sensitivity
27(12)
Elias Chaibub Neto
In Sock Jang
Stephen H. Friend
Adam A. Margolin
Sharing Information to Reconstruct Patient-Specific Pathways in Heterogeneous Diseases
39(12)
Anthony Gitter
Alfredo Braunstein
Andrea Pagnani
Carlo Baldassi
Christian Borgs
Jennifer Chayes
Riccardo Zecchina
Ernest Fraenkel
Detecting Statistical Interaction Between Somatic Mutational Events and Germline Variation from Next-Generation Sequence Data
51(12)
Hao Hu
Chad D. Huff
Systematic Assessment of Analytical Methods for Drug Sensitivity Prediction from Cancer Cell Line Data
63(12)
In Sock Jang
Elias Chaibub Neto
Juistin Guinney
Stephen H. Friend
Adam A. Margolin
Integrative Analysis of Two Cell Lines Derived from a Non-Small-Lung Cancer Patient -- A Panomics Approach
75(12)
Oleg Mayba
Florian Gnad
Michael Peyton
Fan Zhang
Kimberly Walter
Pan Du
Melanie A. Huntley
Zhaoshi Jiang
Jinfeng Liu
Peter M. Haverty
Robert C. Gentleman
Ruiqiang Li
John D. Minna
Yingrui Li
David S. Shames
Zemin Zhang
An Integrated Approach To Blood-Based Cancer Diagnosis And Biomarker Discovery
87(12)
Martin Renqiang Min
Salim Chowdhury
Yanjun Qi
Alex Stewart
Rachel Ostroff
Multiplex Meta-Analysis of Medulloblastoma Expression Studies with External Controls
99(11)
Alexander A. Morgan
Matthew D. Li
Achal S. Achrol
Purvesh J. Khatri
Samuel H. Cheshier
COMPUTATIONAL APPROACHES TO DRUG REPURPOSING AND PHARMACOLOGY
Session Introduction
110(4)
S. Joshua Swamidass
Zhiyong Lu
Pankaj Agarwal
Atul Butte
Challenges in Secondary Analysis of High Throughput Screening Data
114(11)
Aurora S. Blucher
Shannon K. McWeeney
Drug Intervention Response Predictions with Paradigm (DIRPP) Identifies Drug Resistant Cancer Cell Lines and Pathway Mechanisms of Resistance
125(11)
Douglas Brubaker
Analisa Difeo
Yanwen Chen
Taylor Pearl
Kaide Zhai
Gurkan Bebek
Mark Chance
Jill Barnholtz-Sloan
Anti-Infectious Drug Repurposing Using an Integrated Chemical Genomics and Structural Systems Biology Approach
136(12)
Clara Ng
Ruth Hauptman
Yinliang Zhang
Philip E. Bourne
Lei Xie
Drug-Target Interaction Prediction by Integrating Chemical, Genomic, Functional and Pharmacological Data
148(12)
Fan Yang
Jinbo Xu
Jianyang Zeng
Prediction of Off-Target Drug Effects Through Data Fusion
160(12)
Emmanuel R. Yera
Ann E. Cleves
Ajay N. Jain
Exploring the Pharmacogenomics Knowledge Base (PharmGKB) for Repositioning Breast Cancer Drugs by Leveraging Web Ontology Language (OWL) and Cheminformatics Approaches
172(11)
Qian Zhu
Cui Tao
Feichen Shen
Christopher Chute
DETECTING AND CHARACTERIZING PLEIOTROPY: NEW METHODS FOR UNCOVERING THE CONNECTION BETWEEN THE COMPLEXITY OF GENOMIC ARCHITECTURE AND MULTIPLE PHENOTYPES
Session Introduction
183(5)
Anna L. Tyler
Dana C. Crawford
Sarah A. Pendergrass
Using the Bipartite Human Phenotype Network to Reveal Pleiotropy and Epistasis Beyond the Gene
188(12)
Christian Darabos
Samantha H. Harmon
Jason H. Moore
Environment-Wide Association Study (EWAS) for Type 2 Diabetes in the Marshfield Personalized Medicine Research Project Biobank
200(12)
Molly A. Hall
Scott M. Dudek
Robert Goodloe
Dana C. Crawford
Sarah A. Pendergrass
Peggy Peissig
Murray Brilliant
Catherine A. McCarty
Marylyn D. Ritchie
Dissection of Complex Gene Expression Using the Combined Analysis of Pleiotropy and Epistasis
212(12)
Vivek M. Philip
Anna L. Tyler
Gregory W. Carter
PERSONALIZED MEDICINE: FROM GENOTYPES AND MOLECULAR PHENOTYPES TOWARDS THERAPY
Session Introduction
224(5)
Jennifer Listgarten
Oliver Stegle
Quaid Morris
Steven E. Brenner
Leopold Parts
PATH-SCAN: A Reporting Tool for Identifying Clinically Actionable Variants
229(12)
Roxana Daneshjou
Zachary Zappala
Kim Kukurba
Sean M Boyle
Kelly E Ormond
Teri E Klein
Michael Snyder
Carlos D Bustamante
Russ B Altman
Stephen B Montgomery
Imputation-based Assessment of Next Generation Rare Exome Variant Arrays
241(12)
Alicia R. Martin
Gerard Tse
Carlos D. Bustamante
Eimear E. Kenny
Utilization of an EMR-Biorepository to Identify the Genetic Predictors of Calcineurin-Inhibitor Toxicity in Heart Transplant Recipients
253(12)
Matthew Oetjens
William S. Bush
Kelly A. Birdwell
Holli H. Dilks
Erica A. Bowton
Joshua C. Denny
Russell A. Wilke
Dan M. Roden
Dana C. Crawford
Robust Reverse Engineering of Dynamic Gene Networks Under Sample Size Heterogeneity
265(12)
Ankur P. Parikh
Wei Wu
Eric P. Xing
Variant Priorization and Analysis Incorporating Problematic Regions of the Genome
277(11)
Anil Patwardhan
Michael Clark
Alex Morgan
Stephen Chervitz
Mark Pratt
Gabor Bartha
Gemma Chandratillake
Sarah Garcia
Nan Leng
Richard Chen
Bags of Words Models of Epitope Sets: HIV Viral Load Regression with Counting Grids
288(12)
Alessandro Perina
Pietro Lovato
Nebojsa Jojic
Joint Association Discovery and Diagnosis of Alzheimer's Disease by Supervised Heterogeneous Multiview Learning
300(12)
Shandian Zhe
Zenglin Xu
Yuan Qi
Peng Yu
TEXT AND DATA MINING FOR BIOMEDICAL DISCOVERY
Session Introduction
312(4)
Graciela H. Gonzalez
Kevin Bretonnel Cohen
Robert Leaman
Casey Greene
Nigam Shah
Maricel G. Kann
Jieping Ye
Vector Quantization Kernels for the Classification of Protein Sequences and Structures
316(12)
Wyatt T. Clark
Predrag Radivojac
Combining Heterogenous Data for Prediction of Disease Related and Pharmacogenes
328(12)
Christopher S. Funk
Lawrence E. Hunter
K. Bretonnel Cohen
A Novel Profile Biomarker Diagnosis for Mass Spectral Proteomics
340(12)
Henry Han
Towards Pathway Curation Through Literature Mining -- A Case Study Using PharmGKB
352(12)
Ravikumar K.E.
Kavishwar B. Wagholikar
Hongfang Liu
Sparse Generalized Functional Linear Model for Predicting Remission Status of Depression Patients
364(12)
Yashu Liu
Zhi Nie
Jiayu Zhou
Michael Farnum
Vaibhav A Narayan
Gayle Wiittenberg
Jieping Ye
Development of a Data-Mining Algorithm to Identify Ages at Reproductive Milestones in Electronic Medical Records
376(12)
Jennifer Malinowski
Eric Farber-Eger
Dana C. Crawford
An Efficient Algorithm to Integrate Network and Attribute Data for Gene Function Prediction
388(12)
Shankar Vembu
Quaid Morris
Matrix Factorization-Based Data Fusion for Gene Function Prediction in Baker's Yeast and Slime Mold
400(12)
Marinka Zitnik
Blaz Zupan
WORKSHOPS
Applications of Bioinformatics to Non-Coding RNAs in the Era of Next-Generation Sequencing
412(5)
Chao Cheng
Jason Moore
Casey Greene
Building the Next Generation of Quantitative Biologists
417(5)
Kristine A. Pattin
Anna C. Greene
Russ B. Altman
Lawrence E. Hunter
David A. Ross
James A. Foster
Jason H. Moore
Uncovering the Etiology of Autism Spectrum Disorders: Genomics, Bioinformatics, Environment, Data Collection and Exploration, and Future Possibilities
422
Sarah A. Pendergrass
Santhosh Girirajan
Scott Selleck