Paper
ID
Regular Paper
B219
Sudeep Roy, Akhil Kumar, and Ivo Provazník, Virtual screening, ADMET profiling, molecular docking and
dynamics approaches to search for potent selective natural molecule based inhibitors against
metallothionein-III to study Alzheimer’s disease
B223
Benjamin Y. S. Li, Lam Fat Yeung, and Genke Yang, Pathogen Host Interaction Prediction via Matrix
Factorization
B224
Trevor DeVore, Scott Winkleblack, Bruce Golden, and Chris Lupo, A Heterogeneous Compute Solution for
Optimized Genomic Selection Analysis
B244
Ilona Kifer, Rui M. Branca, Ping Xu, Janne Lehtio, and Zohar Yakhini, Optimizing analytical depth and cost
efficiency of IEF-LC/MS proteomics
B276
Yuan Ling, Yuan An, and Xiaohua Hu, A Symp-Med Matching Framework for Modeling and Mining Symptom
and Medication Relationships from Clinical Notes
B278
aiping qu, jiamei chen, linwei wang, jingping yuan, fang yang, qingming xiang, Ninu Maskey, guifang yang,
Juan Liu, and yan li, Two-step segmentation of Hematoxylin-Eosin stained histopathological images for
prognosis of breast cancer
B286
Daniel Veltri, Uday Kamath, and Amarda Shehu, A Novel Method to Improve Recognition of Antimicrobial
Peptides through Distal Sequence-based Features
B287
Quazi Abidur Rahman, Larisa Tereshchenko, Matthew Kongkatong, Theodore Abraham, M. Roselle
Abraham, and Hagit Shatkay, Identifying Hypertrophic Cardiomyopathy Patients by Classifying Individual
Heartbeats from 12-lead ECG Signals
B292
Xinran Yu, Turgay Korkmaz, Timothy Lilburn, Hong Cai, Jianying Gu, and Yufeng Wang, Heavy Path Mining
Reveals Novel Protein-Protein Associations in the Malaria Parasite Plasmodium falciparum
B306
Veronika Strnadova, Aydin Buluc, Jarrod Chapman, Joseph Gonzalez, Stefanie Jegelka, John Gilbert, Daniel
Rokshar, and Leonid Oliker, Efficient and Accurate Clustering for Large-Scale Genetic Mapping
B314
Zhexue Wei, Daming Zhu, and Lusheng Wang, A Dynamic Programming Algorithm For (1,2)-Exemplar
Breakpoint Distance
B323
Lishuang Li, Rui Guo, Zhenchao Jiang, and Degen Huang, Improving Kernel-Based Protein-Protein
Interaction Extraction by Unsupervised Word Representation
B328
Chang Sik Kim, Qing Wen, and Shu-Dong Zhang, Integrative analysis of chemo-transcriptomic profiles for
drug-feature specific gene expression signatures
B330
Haider Raza, Girijesh Prasad, Yuhua Li, and Hubert Cecotti, Covariate Shift-Adaptation Using a Transductive
Learning Model for Handling Non-Stationarity in EEG based Brain-Computer Interfaces
B331
Chun-Fu Wang, Kwan-Liu Ma, Chih-Wei Huang, and Yu-Chuan Li, A Visual Analysis Approach to Cohort
Study of Electronic Patient Records
B332
Wooyoung Kim and Sheil Kurmar, Efficient Updates of network motif instances in the extended proteinprotein interaction network
B333
Mingjie Wang, Haixu Tang, and Yuzhen Ye, Identification and characterization of accessory genomes in
bacterial species based on genome comparison and metagenomic recruitment
B339
Fiona Browne, Haiying Wang, and Huiru Zheng, An Integrative Network-Driven Pipeline for the Prioritization
of Alzheimer’s Disease Genes
B342
Haiying Wang, Huiru Zheng, and Chaoyang Wang, Dynamics and Controllability in Cell Cycle Specific
Protein Interaction Networks
B344
Rudan Xu, Yuanyuan Sun, Zhihao Yang, Bo Song, Xiaohua Hu, and Xiaopeng Hu, Fractal Descriptor
Applied to the Classification of HEp-2 Cell Patterns
B350
En-Shiun Annie Lee, Ho-Yin Sze-To, Man-Hon Wong, Kwong-Sak Leung, Terrence Chi-Kong Lau, and
Andrew K. C. Wong, Discovering Protein-DNA Binding Cores by Aligned Pattern Clustering
B351
Xiaohua Hu and Minghong Fang, Prioritizing Disease-Causing Genes Based on Network Diffusion and Rank
Concordance
B352
CHRISTOPHER MA, YIXIN CHEN, and DAWN WILKINS, Ranking of Cancer Genes In Markov Chain Model
Through Integration of Heterogeneous Sources of Data
B353
Lin Zhu, Su-Ping Deng, and De-Shuang Huang, A Two-Stage Geometric Method for Detecting Unreliable
Links in Protein-Protein Networks
B355
Yongguo Mei, Adria Carbo, Raquel Hontecillas, Stefan Hoops, Nathan Liles, Pinyi Lu, Casandra Philipson,
and Josep Bassaganya-Riera, ENISI MSM: A Novel Multi-Scale Modeling Platform for Computational
Immunology
B357
Qiang Yu, Hongwei Huo, Xiaoyang Chen, Haitao Guo, Jeffrey Scott Vitter, and Jun Huan, An Efficient Motif
Finding Algorithm for Large DNA Data Sets
B358
Osamu Maruyama and Shota Shikita, A scale-free structure prior for Bayesian inference of Gaussian
Graphical models
B365
Aidan Meade, Colin Clarke, Hugh Byrne, and Fiona Lyng, Selection of preprocessing methodology for
multivariate regression of cellular FTIR and Raman spectra in radiobiological analyses
B367
Didier Devaurs, Amarda Shehu, Thierry Siméon, and Juan Cortés, Sampling-based Methods for a Full
Characterization of Energy Landscapes of Small Peptides
B368
Inês V. Rodrigues, Pedro M. Ferreira, Ana R. Malheiro, Pedro Brites, Eduardo M. Pereira, and Hélder P.
Oliveira, Morphometric Analysis of Sciatic Nerve Images: A Directional Gradient Approach
B377
Chang Sik Kim, Seungwoo Hwang, and Shu-Dong Zhang, RMA with quantile normalization mixes biological
signals between different sample groups in microarray data analysis
B379
Başak Esin Köktürk and Bilge Karaçalı, Model-free Expectation Maximization for Divisive Hierarchical
Clustering of Multicolor Flow Cytometry Data
B382
Yun Su, Bin Hu, Lixin Xu, Hanshu Cai, Philip Moore, Xiaowei Zhang, and Jing Chen, EmotionO+:
Physiological Signals Knowledge Representation and Emotion Reasoning Model for Mental Health
Monitoring
B384
Fengying Yu, Zhihao Yang, Yuanyuan Sun, Hongfei Lin, and Jian Wang, Data Integration and Supervised
Learning Based Protein Complex Detection Method
B386
Min-Seok Kwon, Yongkang Kim, Seungyeoun Lee, Junghyun Namkung, Taegyun Yun, Sung Gon Yi, Meejoo
Kang, Sun Whe Kim, Jin-Young Jang, and Taesung Park, Multi-marker developement for pancreatic ductal
adenocarcinoma using integrated analysis of mRNA and miRNA expression
B390
Jian-Yu Shi, Siu-Ming Yiu, Yiming Li, Henry C. M. Leung, and Francis Y. L. Chin, Predicting Drug-Target
Interaction for New Drugs Using Enhanced Similarity Measures and Super-Target Clustering
B391
Matthias Becker and Nadia Magnenat-Thalmann, Muscle Tissue Labeling of Human Lower Extremities in
Multi-Channel mDixon MR Imaging: Concepts and Applications
B401
Qiao Wang, Fan Shi, Andrew Kowalczyk, Richard Campbell, Benjamin Goudey, David Rawlinson, Aaron
Harwood, Herman Ferra, and Adam Kowalczyk, GWISFI: a Universal GPU Interface for Exhaustive Search
of Pairwise Interactions in Case-Control GWAS in Minutes
B402
Yan Yan, Anthony J. Kusalik, and Fang-Xiang Wu, NovoPair: de novo peptide sequencing for
complementary spectra pair
B413
Michael Andel, Jiri Klema, and Zdenek Krejcik, Network-Constrained Forest for Regularized Omics Data
Classification
B418
Xingpeng Jiang and Xiaohua Hu, Microbiome Data Integration by Robust Similarity Network Fusion
B421
Alexander Schoell, Claus Braun, Markus Daub, Guido Schneider, and Hans-Joachim Wunderlich, Adaptive
Parallel Simulation of a Two-Timescale Model for Apoptotic Receptor-Clustering on GPUs
B422
Mehmet Tan, Drug sensitivity prediction for cancer cell lines based on pairwise kernels and miRNA profiles
B423
Ana Stanescu and Doina Caragea, Ensemble-based semi-supervised learning approaches for imbalanced
splice site datasets
B433
Peiyan Zhu, Junhui Shen, Dezhi Sun, and Ke Xu, Mining Meaningful Topics from Massive Biomedical
Literature
B439
Mengwen Liu, Yuan Ling, Yuan An, Xiaohua Hu, Alan Yagoda, and Rick Misra, Relation Extraction from
Biomedical Literature with Minimal Supervision and Grouping Strategy
B440
Kimin Oh, Taeho Hwang, Kihoon Cha, and Gwan-Su Yi, Functional module-centric interpretation of
transcriptomic change between human and chimpanzee cerebral cortex
B444
Jing Zhao, Aron Henriksson, Lars Asker, and Henrik Boström, Detecting Adverse Drug Events with Multiple
Representations of Clinical Measurements
B448
Aron Henriksson, Hercules Dalianis, and Stewart Kowalski, Generating Features for Named Entity
Recognition by Learning Prototypes in Semantic Space: The Case of De-Identifying Health Records
B449
Yue Zhang, Kuanquan Wang, and Henggui Zhang, Simulation of Ventricular Automaticity Induced by
Reducing Inward-rectifier K+ Current
B456
Benjamin P Vandervalk, Shaun D Jackman, Anthony Raymond, Hamid Mohamadi, Chen Yang, Dean A
Attali, Justin Chu, René L Warren, and Inanç Birol, Konnector: Connecting paired-end reads using a Bloom
filter de Bruijn graph
B461
Changlin Fu, Zhou Tan, Rui Liu, Shiying Hao, Zhen Li, Pei Chen, Taichang Jang, Milton Merchant, John
Whitin, Oxford Wang, Minyi Guo, Harvey Cohen, Lawrence Recht, and Xuefeng Ling, CSF protein dynamic
driver network: at the crossroads of brain tumorigenesis
B464
David Rodriguez, Stephan Heuer, Alexandre Guerra, Wilhelm Stork, Benedikt Weber, and Markus Eichler,
Towards automatic sensor-based triage for individual remote monitoring during mass casualty incidents
B465
Ruimin Sun, Ye Tian, and Xin Chen, TAMeBS: a sensitive bisulfite-sequencing read mapping tool for DNA
methylation analysis
B470
Hongfei Cao, Michael Phinney, Devin Petersohn, Benjamin Merideth, and Chi-Ren Shyu, MRSMRS: Mining
Repetitive Sequences in a MapReduce Setting
B479
Haijun Gong and Lu Feng, Probabilistic Verification of ER Stress-induced Signaling Pathways
Paper
ID
Short Paper
B204
Pietro Hiram Guzzi, DMET-Miner: Efficient Learning of Association Rules from Genotyping Data for
Personalized Medicine
B218
Zehui He, Construct Validity of the Chinese version of WHOQOL-BREF & Disabilities Module in 1000 adults
with disabilities: an Item Response Theory analysis
B233
Zhaohui Liang, Jimmy Xiangji Huang, Gang Zhang, Honglai Zhang, and Jianhua Zhang, Deep Learning for
Diagnosis and Healthcare Decision Making
B237
Diyue Bu and Haixu Tang, Quasispecies Reconstruction Based on Vertex Coloring Algorithm
B247
Caihua Wang, Juan Liu, Yafang Tan, Zixin Deng, and Qian-nan Hu, Pairwise Input Neural Network for LargeScale Target-Ligand Interaction Prediction
B253
SeungHeui Ryu, NaHyun Kwak, and DoHoon Lee, VISWES: a system for finding related vaccinia virus
protein sequences in cancer immune therapy
B254
Yongnan Li, Arithmetic computation using self-assembly of DNA tiles: integer power over finite field GF(2n)
B255
Bassam AlKindy, Christophe Guyeux, Jean-François Couchot, Michel Salomon, and Jacques M. Bahi, Gene
Similarity-based Approaches for Determining Core-Genes of Chloroplasts
B257
Daekeun You, Sameer Antani, Dina Demner-Fushman, and George Thoma, Biomedical Image
Segmentation for Semantic Visual Feature Extraction
B264
Diogo Pernes, Jaime S. Cardoso, and Hélder P. Oliveira, Fitting of Superquadrics for Breast Modelling by
Geometric Distance Minimization
B271
Hui-Hui Li, Feng-Feng Shao, and Guo-Zheng LI, Semi-supervised Imputation for Microarray Missing Value
Estimation
B279
Xiujuan Lei, Fei Wang, Fang-Xiang Wu, and Aidong Zhang, Detecting Functional Modules in Dynamic
Protein-Protein Interaction Networks Using Markov Clustering and Firefly Algorithm
B282
Guang Zheng, Exploring Potential Therapeutic Agents of Duhuo-Jisheng-Tang for Rheumatoid Arthritis
B283
Pedro Costa, João P. Monteiro, Hooshiar Zolfagharnasab, and Hélder P. Oliveira, Tessellation-based Coarse
Registration Method for 3D Reconstruction of the Female Torso
B291
Jia-Ming Liu, Mingyu You, Zheng Wang, Guo-Zheng LI, Xianghuai Xu, and Zhongmin Qiu, Cough Detection
Using Deep Neural Networks
B297
Yuexu Jiang, Yan Wang, Wei Pang, Liang Chen, Huiyan Sun, Yanchun Liang, and Enrico Blanzieri,
Essential Protein Identification based on Essential Protein-Protein Interaction Prediction by Integrated Edge
Weights
B302
Sultan Imangaliyev, Bart Keijser, Wim Crielaard, and Evgeni
Tsivtsivadze
, Personalized microbial network inference via coregularized spectral clustering
B308
Athanasia Polychronopoulou and Zoran Obradovic, Hospital Pricing Estimation by Gaussian Conditional
Random Fields Based Regression on Graphs
B309
Shuo Xu, Guixin Wu, Dawei Tu, and Huiru Zheng, Human-Machine-Environment Cyber-Physical Systems
and Hierarchical Task Planning to Support Independent Living
B310
Subrata Saha and Sanguthevar Rajasekaran, Efficient algorithms for the compression of FASTQ files
B324
Shuhua Chen, Juan Liu, and Tao Zeng, MMSE: a generalized coherence measure for identifying linear
patterns
B327
Xiao Wang, Guo-Zheng LI, Qiuwen Zhang, and De-Shuang Huang, MultiP-SChlo: multi-label protein
subchloroplast localization prediction
B335
Zhi-Peng Jiang, Fang-Fang Zhao, and Yi Guan, Developing a Linguistically Annotated Corpus of Chinese
Electronic Medical Record
B336
Sheehan Khan and Russell Greiner, Budgeted Transcript Discovery: A Framework For Joint Exploration And
Validation Studies
B337
Andreea Radulescu, Guillaume Fertin, Géraldine Jean, and Irena Rusu, DExTaR: Detection of Exact
Tandem Repeats based on the de Bruijn graph
B345
Qian Zhu, Hongfang Liu, Christopher chute, and Matthew ferber, Genetic Testing Knowledge Base (GTKB)
towards Individualized Genetic Test Recommendation – An Experimental Study
B346
Lishuang Li, Liuke Jin, Jieqiong Zheng, Panpan Zhang, and Degen Huang, The Protein-Protein Interaction
Extraction Based on Full Texts
B356
Xiaohua Hu and Junmin Zhao, A Novel Disease Gene Prediction Method Based on PPI Network
B369
Lishuang Li, Zhenchao Jiang, and Degen Huang, An General Instance Representation Framework for
Protein-Protein Interaction Extraction
B373
Nancy Huang and Yen-Jen Oyang, Microbial Abundance Patterns of Host Obesity Inferred by the Structural
Incorporation of Association Measures into Interpretable Classifiers
B374
Nic Herndon, Karthik Tangirala, and Doina Caragea, Predicting Protein Localization Using a Domain
Adaptation Naive Bayes Classifier with Burrows Wheeler Transform Features
B380
Qinmin Hu, Liang He, Mingyao Li, and E. Mark Haccke, A Semi-informative Aware Approach using Topic
Model for Medical Search
B383
Sílvia Bessa, Inês Domingues, Jaime Cardoso, Pedro Passarinho, Pedro Cardoso, Vítor Rodrigues, and
Fernando Lage, Normal breast identification in screening mammography: a study on 18 000 images
B385
Xiaoxia liu, Zhihao Yang, Hongfei Lin, and Jian Wang, Exploring the relation between the characteristics of
protein interaction networks and the performances of computational complex detection methods
B387
Hong Song, Qian Zhang, and Shuliang Wang, Liver segmentation based on SKFCM and Improved GrowCut
for CT images
B394
xiaofang Wu, Zhihao Yang, Yuanyuan Sun, Hongfei Lin, and Jian Wang, Deep Graph Search Based Disease
Related Knowledge Summarization From Biomedical Literature
B395
Yongkang Kim and Taesung Park, Identifying differentially expressed genes for ordinal phenotypes
B396
Darren O'Doherty, Yogesh Kumar Meena, Haider Raza, Hubert Cecotti, and Girijesh Prasad, Exploring
Gaze-Motor Imagery Hybrid Brain-Computer Interface design
B398
Nicolas Maillet, Guillaume Collet, Thomas Vannier, Dominique Lavenier, and Pierre Peterlongo, COMMET:
comparing and combining multiple metagenomic datasets
B408
Bolin chen, Min Li, Jianxin Wang, and Fang-Xiang Wu, A logistic regression based algorithm for identifying
human disease genes
B409
Jungrim Kim, Jeagyoon Ahn, Youngmi Yoon, Yunku Yeu, and Sanghyun Park, Discovering phenotype
specific gene module using a novel biclustering algorithm in colorectal cancer
B415
Yizhou Zang, Yuan An, and Xiaohua Hu, Automatically Recommending Healthy Living Programs to Patients
with Chronic Diseases through Hybrid Content-Based and Collaborative Filtering
B420
Keith Feldman and Nitesh Chawla, Admission Duration Model for Infant Treatment (ADMIT)
B429
Jiangwen Sun, Jinbo Bi, and Henry Kranzler, Identifying Heritable Composite Traits from Multivariate
Phenotypes with Genome-Wide SNPs
B432
Yang Bai, Shufan Ji, and Yadong Wang, ESclassifier: a random forest classifier for detection of exon
skipping events from RNA-Seq data
B437
Amrisha Bhosle and Nagasuma Chandra, Different cancer cell lines resistant to the same drug exhibit
differences in folate pathway dynamics
B445
Robert Schuler, Carl Kesselman, and Karl Czajkowski, Digital Asset Management For Heterogeneous
Biomedical Data in an Era of Data-Intensive Science
B454
Kaidi Ma, Marco Canepa, James Strait, and Hagit Shatkay, Using Unsupervised Learning to Determine Risk
Level for Left Ventricular Diastolic Dysfunction
B462
Moumita Bhattacharya, Deborah Ehrenthal, and Hagit Shatkay, Identifying Growth-Patterns in Children by
Applying Cluster analysis to Electronic Medical Records
B463
Fan Yang and George Karypis, Signaling Adverse Drug Reactions with Novel Feature-based Similarity
Model
B469
Yiming Zuo, Guoqiang YU, Chi Zhang, and Habtom Ressom, A new approach to investigate the inter and
intra relationships for multi-omics data integration
B473
Quangang Zheng, Haidong Lan, and Weiguo Liu, XPFS: A New Parallel PROSITE Profile Search Algorithm
on Xeon Phi
B476
Xi Wen, Hong Wang, and Weiming Zhai, Automatic and Fast Registration Method for Image-Guided Surgery
B477
Alexandru Mizeranschi, Huiru Zheng, Paul Thompson, and Werner Dubitzky, A multi-model reverseengineering algorithm for large gene regulation networks
B478
Tomasz Oliwa and Yang Shen, A framework of complex-based normal mode analysis (cNMA) to model
conformational changes of proteins upon interactions
B480
Mahua Bhattacharya, Koushik Pal, and Goutam Ghosh, GUI based Smart Breast Cancer Identification
System Using 2nd Level Secured Combined Crypto-Watermarking