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2013 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

Dec. 18 2013 to Dec. 21 2013

Shanghai, China

Table of Contents

[Copyright notice]Freely available from IEEE.pp. 1-1
PrefaceFreely available from IEEE.pp. 1-2
OrganizationFreely available from IEEE.pp. 1-2
Main conference program committee membersFreely available from IEEE.pp. 1-9
Big data analytics for drug discoveryFreely available from IEEE.pp. 1-1
by Keith C. C. Chan
Yin and Yang of reciprocally scale-free biological networks between disease genes and death genesFreely available from IEEE.pp. 2-2
by Ju Han Kim
Elucidation of drivers for cancer initiation and metastasis: A data-mining approachFreely available from IEEE.pp. 3-3
by Ying Xu
Predicting immunogenic T-cell epitopes by combining various sequence-derived featuresFull-text access may be available. Sign in or learn about subscription options.pp. 4-9
by Wen Zhang, Juan Liu, Yi Xiong, Meng Ke, Ke Zhang
Packing protein side-chains by parallel ant coloniesFull-text access may be available. Sign in or learn about subscription options.pp. 10-16
by Lijun Quan, Haiou Li, Xiaoyan Xia, Qiang Li
Inferring global a priori identifiability of optical biosensor experiment modelsFull-text access may be available. Sign in or learn about subscription options.pp. 17-22
by J. M. Whyte
eQTL epistasis: Detecting complex interaction effects between multiple loci from eQTL dataFull-text access may be available. Sign in or learn about subscription options.pp. 23-28
by Mingon Kang, Shuo Li, Chunyu Liu, Jean Gao
SFAPS: An R package for structure/function analysis of protein sequences based on informational spectrum methodFull-text access may be available. Sign in or learn about subscription options.pp. 29-34
by Suping Deng, Jinghua Yuan, Deshuang Huang, Zhen Wang
PBSalign: Sequence-independent local alignment of protein binding sitesFull-text access may be available. Sign in or learn about subscription options.pp. 35-42
by Bin Pang, David Schlessman, Xingyan Kuang, Nan Zhao, Daniel Shyu, Dmitry Korkin, Chi-Ren Shyu
Evaluating topology-based metrics for GO term similarity measuresFull-text access may be available. Sign in or learn about subscription options.pp. 43-48
by Jong Cheol Jeong, Xue-wen Chen
A fuzzy inference system for predicting allergenicity and allergic cross-reactivity in proteinsFull-text access may be available. Sign in or learn about subscription options.pp. 49-52
by Saravanan Vijayakumar, P. T. V. Lakshmi
Mining protein complexes based on connected affinity clique extensionFull-text access may be available. Sign in or learn about subscription options.pp. 53-56
by Peng Li, Xiaohua Hu, Tingting He, Junmin Zhao, Ming Zhang, Xianjun Shen
An integrated approach to identify protein complex based on best neighbor and modularity incrementFull-text access may be available. Sign in or learn about subscription options.pp. 57-60
by Xianjun Shen, Yanli Zhao, Yanan Li, Jincai Yang, Tingting He, Xiaohua Hu
Protein functional module detection based on closely associated degreeFull-text access may be available. Sign in or learn about subscription options.pp. 61-64
by Xianjun Shen, Xiaohui Chen, Rui Xu, Tingting He, Jincai Yang, Xiaohua Hu
Using evolutionary couplings to optimize dimer prediction with Rosetta SymDockFull-text access may be available. Sign in or learn about subscription options.pp. 65-68
by Yiqing Huang, Qiang Lu, Jia Zeng
An efficient multiple protein structure comparison method and its application to structure clustering and outlier detectionFull-text access may be available. Sign in or learn about subscription options.pp. 69-73
by Wei Wu, Anuj Srivastava, Jose Laborde, Jinfeng Zhang
A case-based meta-learning algorithm boosts the performance of structure-based virtual screeningFull-text access may be available. Sign in or learn about subscription options.pp. 74-77
by Xi Yun, Weiwei Han, Susan L. Epstein, Lei Xie
A dividing-and-matching algorithm to detect conserved protein complexes via local network alignmentFull-text access may be available. Sign in or learn about subscription options.pp. 78-81
by Wei Peng, Jianxin Wang, Fangxiang Wu
Inference of microbial interactions from time series data using vector autoregression modelFull-text access may be available. Sign in or learn about subscription options.pp. 82-85
by Xingpeng Jiang, Xiaohua Hu, Weiwei Xu, Guangrong Li, Yongli Wang
Manifold-constrained regularization for variable selection in envrionmental microbiomic dataFull-text access may be available. Sign in or learn about subscription options.pp. 86-89
by Xingpeng Jiang, Xiaohua Hu, Weiwei Xu, Yongli Wang
Lattice models with asymmetric propensity matrices for locationally informed protein structure predictionFull-text access may be available. Sign in or learn about subscription options.pp. 90-93
by Colin Kern, Li Liao
De novo likelihood-based measures for comparing metagenomic assembliesFull-text access may be available. Sign in or learn about subscription options.pp. 94-98
by Christopher M. Hill, Irina Astrovskaya, Howard Huang, Sergey Koren, Atif Memon, Todd J. Treangen, Mihai Pop
BIMMER: A Bi-layer hidden Markov model for differential methylation analysisFull-text access may be available. Sign in or learn about subscription options.pp. 99-102
by Zijing Mao, Tim H-M Huang, Yidong Chen, Yufei Huang
Prioritization of candidate genes based on disease similarity and protein's proximity in PPI networksFull-text access may be available. Sign in or learn about subscription options.pp. 103-108
by Gamage Upeksha Ganegoda, JianXin Wang, Fang-Xiang Wu, Min Li
A new method for predicting essential proteins based on topology potentialFull-text access may be available. Sign in or learn about subscription options.pp. 109-114
by Yu Lu, Min Li, Qi Li, Yi Pan, Jianxin Wang
Infer gene regulatory networks from time series data with formal methodsFull-text access may be available. Sign in or learn about subscription options.pp. 115-120
by Michele Ceccarelli, Luigi Cerulo, Antonella Santone
Hybrid method inference for the construction of cooperative regulatory network in humanFull-text access may be available. Sign in or learn about subscription options.pp. 121-126
by I. Chebil, R. Nicolle, G. Santini, C. Rouveirol, M. Elati
Prediction of signaling networks by information propagation on protein-protein interaction networks integrated with GO annotationsFull-text access may be available. Sign in or learn about subscription options.pp. 127-132
by Young-Rae Cho, Slavka Jaromerska
Identifying essential proteins based on protein domains in protein-protein interaction networksFull-text access may be available. Sign in or learn about subscription options.pp. 133-138
by Jianxin Wang, Wei Peng, Yingjiao Chen, Yu Lu, Yi Pan
Unveiling the dynamics in RNA epigenetic regulationsFull-text access may be available. Sign in or learn about subscription options.pp. 139-144
by Jia Meng, Xiaodong Cui, Hui Liu, Lin Zhang, Shaowu Zhang, Manjeet K. Rao, Yidong Chen, Yufei Huang
StemSearch: RNA search tool based on stem identification and indexingFull-text access may be available. Sign in or learn about subscription options.pp. 145-152
by Sivan Yogev, Nimrod Milo, Michal Ziv-Ukelson
Fast Westfall-Young permutation procedure for combinatorial regulation discoveryFull-text access may be available. Sign in or learn about subscription options.pp. 153-158
by Aika Terada, Koji Tsuda, Jun Sese
Detecting mutual functional gene clusters from multiple related diseasesFull-text access may be available. Sign in or learn about subscription options.pp. 159-164
by Nan Du, Xiaoyi Li, Yuan Zhang, Aidong Zhang
Comparing gene expression similarity metrics for connectivity mapFull-text access may be available. Sign in or learn about subscription options.pp. 165-170
by Jie Cheng, Lun Yang
Reconstructing biological networks using low order partial correlationFull-text access may be available. Sign in or learn about subscription options.pp. 171-175
by Yiming Zuo, Guoqiang Yu, Mahlet G. Tadesse, Habtom W Ressom
A multi-edge graph based de novo peptide sequencing method for HCD spectraFull-text access may be available. Sign in or learn about subscription options.pp. 176-181
by Yan Yan, Anthony J. Kusalik, Fang-Xiang Wu
Inference of gene regulatory networks by integrating gene expressions and genetic perturbationsFull-text access may be available. Sign in or learn about subscription options.pp. 182-187
by Dong-Chul Kim, Chunyu Liu, Xiaoyong Wu, Baoju Zhang, Jean Gao
Predicting protein complexes in protein interaction networks: A supervised learning based methodFull-text access may be available. Sign in or learn about subscription options.pp. 188-188
by Fengying Yu, Zhihao Yang, Nan Tang, Jiajin Wu, Hongfei Lin, Jian Wang
Effective and stable feature selection method based on filter for gene signature identification in paired microarray dataFull-text access may be available. Sign in or learn about subscription options.pp. 189-192
by Zhongbo Cao, Yan Wang, Ying Sun, Wei Du, Yanchun Liang
Differential coexpression analysis in gene modules level and its application to type 2 diabetesFull-text access may be available. Sign in or learn about subscription options.pp. 193-196
by Lin Yuan, Wen Sha, Jun Zhang, Chun-Hou Zheng, Jun-Feng Xia
Correlating adverse drug reactions with biological pathways in humansFull-text access may be available. Sign in or learn about subscription options.pp. 197-200
by Huiru Zheng, Haiying Wang, Hua Xu, Zhongming Zhao, Francisco Azuaje
Modeling competing endogenous RNA regulatory networks in glioblastoma multiformeFull-text access may be available. Sign in or learn about subscription options.pp. 201-204
by Yu-Chiao Chiu, Eric Y. Chuang, Tzu-Hung Hsiao, Yidong Chen
Algorithms to infer metabolic flux ratios from fluxomics dataFull-text access may be available. Sign in or learn about subscription options.pp. 205-209
by Rafael Carreira, Miguel Rocha, Silas G. Villas-Boas, Isabel Rocha
A software framework integrating gene expression patterns, binding site analysis and gene ontology to hypothesize gene regulation relationshipsFull-text access may be available. Sign in or learn about subscription options.pp. 210-213
by Pujan Joshi, Baikang Pei, Seung-Hyun Hong, Ivo Kalajzic, Dong-Ju Shin, David Rowe, Dong-Guk Shin
An information-theoretic algorithm to data-driven genetic pathway interaction network reconstruction of dynamic systemsFull-text access may be available. Sign in or learn about subscription options.pp. 214-217
by Farzaneh Farhangmehr, Daniel M. Tartakovsky, Parastou Sadatmousavi, Mano R. Maurya, Shankar Subramaniam
Network-based pathway enrichment analysisFull-text access may be available. Sign in or learn about subscription options.pp. 218-221
by Lu Liu, Jianhua Ruan
The removal of ocular artifactsfrom EEG signals: An adaptive modeling technique for portable applicationsFull-text access may be available. Sign in or learn about subscription options.pp. 222-228
by Yang Li, Bin Hu, Qinglin Zhao, Hong Peng, Yujun Shi, Yunpeng Li, Philip Moore
High-performance computational analysis of glioblastoma pathology images with database support identifies molecular and survival correlatesFull-text access may be available. Sign in or learn about subscription options.pp. 229-236
by Jun Kong, Fusheng Wang, George Teodoro, Lee Cooper, Carlos S. Moreno, Tahsin Kurc, Tony Pan, Joel Saltz, Daniel Brat
Lung deformation estimation using spatially mean shift for 4D-CTFull-text access may be available. Sign in or learn about subscription options.pp. 237-242
by Xuan Yang, Jihong Pei
A feasibility research on waveform recognition algorithm based on geometric characteristicsFull-text access may be available. Sign in or learn about subscription options.pp. 243-248
by Li Feng, Chen Meili
An error detecting and tagging framework for reducing data entry errors in electronic medical records (EMR) systemFull-text access may be available. Sign in or learn about subscription options.pp. 249-254
by Yuan Ling, Yuan An, Mengwen Liu, Xiaohua Hu
Detecting high-risk regions for pressure ulcer risk assessmentFull-text access may be available. Sign in or learn about subscription options.pp. 255-260
by M. Farshbaf, R. Yousefi, M. Baran Pouyan, S. Ostadabbas, M. Nourani, M. Pompeo
A sparse Bayesian multi-instance multi-label model for skin biopsy image analysisFull-text access may be available. Sign in or learn about subscription options.pp. 261-266
by Gang Zhang, Xiangyang Su, Yongjing Huang, Yingrong Lao, Zhaohui Liang, Shanxing Ou, Jimmy Huang
Using cluster analysis to improve gene selection in the formation of discriminant rules for the prediction of disease outcomesFull-text access may be available. Sign in or learn about subscription options.pp. 267-272
by Shu-Kay Ng, Geoffrey J McLachlan
Image registration using consistent robust point matchingFull-text access may be available. Sign in or learn about subscription options.pp. 273-278
by Xuan Yang, Jihong Pei, Jingli Shi
Psychiatric insights into liver cirrhosis and their correlations with traditional Chinese medicine diagnosticsFull-text access may be available. Sign in or learn about subscription options.pp. 279-284
by Yuanzhe Bei, Pengyu Hong, Fangyuan Ke, Yang Zhou, Lieming Xu, Meiping Zhu
Classification of neonatal amplitude-integrated EEG using random forest model with combined featureFull-text access may be available. Sign in or learn about subscription options.pp. 285-290
by Yu Wang, Weiting Chen, Kai Huang, Qiufang Gu
Ensemble fuzzy c-means clustering algorithms based on KL-Divergence for medical image segmentationFull-text access may be available. Sign in or learn about subscription options.pp. 291-296
by Jing Zou, Long Chen, C. L. Philip Chen
Visibility guided multimodal volume visualizationFull-text access may be available. Sign in or learn about subscription options.pp. 297-304
by Lin Zheng, Carlos Correa, Kwan-Liu Ma
Affective state recognition from EEG with deep belief networksFull-text access may be available. Sign in or learn about subscription options.pp. 305-310
by Kang Li, Xiaoyi Li, Yuan Zhang, Aidong Zhang
Clinical multi-label free text classification by exploiting disease label relationFull-text access may be available. Sign in or learn about subscription options.pp. 311-315
by Rui-Wei Zhao, Guo-Zheng Li, Jia-Ming Liu, Xiao Wang
Multi-view biclustering for genotype-phenotype association studies of complex diseasesFull-text access may be available. Sign in or learn about subscription options.pp. 316-321
by Jiangwen Sun, Jinbo Bi, Henry R. Kranzler
Multi-domain feature extraction from surface EMG signals using nonnegative tensor factorizationFull-text access may be available. Sign in or learn about subscription options.pp. 322-325
by Ping Xie, Yan Song
Patient information extraction in noisy tele-health textsFull-text access may be available. Sign in or learn about subscription options.pp. 326-329
by Mi-Young Kim, Ying Xu, Osmar Zaiane, Randy Goebel
Wavelet based despeckling of multiframe optical coherence tomography data using similarity measure and anisotropic diffusion filteringFull-text access may be available. Sign in or learn about subscription options.pp. 330-333
by Wajiha Habib, Adil Masood Siddiqui, Imran Touqir
Detecting good quality frames in videos captured by a wearable camera for blind navigationFull-text access may be available. Sign in or learn about subscription options.pp. 334-337
by Long Tian, Yingli Tian, Chucai Yi
Rigid registration of 3-D medical image using convex hull matchingFull-text access may be available. Sign in or learn about subscription options.pp. 338-341
by Jingfan Fan, Jian Yang, Mahima Goyal, Yongtian Wang
Prediction of cytochrome P450 inhibition using ensemble of extreme learning machineFull-text access may be available. Sign in or learn about subscription options.pp. 342-344
by Huan Wu, Yun-Qiang Di, Chun-Hou Zheng, Junfeng Xia
Dual-function biomarkers for detection of breast cancer and its cancer type: Invasive versus non-invasiveFull-text access may be available. Sign in or learn about subscription options.pp. 345-348
by Fan Zhang, Tao Liu, Mu Wang, Renee Drabier
Text mining driven drug-drug interaction detectionFull-text access may be available. Sign in or learn about subscription options.pp. 349-354
by Su Yan, Xiaoqian Jiang, Ying Chen
Augmenting LASSO regression with decision tree for identifying the correlation of genetic polymorphism and adverse eventsFull-text access may be available. Sign in or learn about subscription options.pp. 355-360
by Yi-fei Cai, Zhao-hui Liang, Tong He, Gang Zhang, Jimmy Xiangji Huang, Xing Zeng
A hybrid approach to recognising discourse causality in the biomedical domainFull-text access may be available. Sign in or learn about subscription options.pp. 361-366
by Claudiu Mihaila, Sophia Ananiadou
NSC-NSGA2: Optimal search for finding multiple thresholds for nearest shrunken centroidFull-text access may be available. Sign in or learn about subscription options.pp. 367-372
by Vinh Quoc Dang, Chiou-Peng Lam
Prediction of the pro-longevity or anti-longevity effect of Caenorhabditis Elegans genes based on Bayesian classification methodsFull-text access may be available. Sign in or learn about subscription options.pp. 373-380
by Cen Wan, Alex Freitas
Dimension reduction for p53 protein recognition by using incremental partial least squaresFull-text access may be available. Sign in or learn about subscription options.pp. 381-385
by Xue-Qiang Zeng, Guo-Zheng Li
A novel protein complex identification algorithm based on gene co-expression (PCIA-GeCo)Full-text access may be available. Sign in or learn about subscription options.pp. 386-391
by Junmin Zhao, Xiaohua Hu, Tingting He, Peng Li, Ming Zhang, Xianjun Shen
ENISI SDE: A novel web-based stochastic modeling tool for computational biologyFull-text access may be available. Sign in or learn about subscription options.pp. 392-397
by Yongguo Mei, Adria Carbo, Raquel Hontecillas, Josep Bassaganya-Riera
Dataset reconstruction for protein interface identification using manifold learning methodFull-text access may be available. Sign in or learn about subscription options.pp. 398-403
by Bing Wang, De-Shuang Huang
Intra- and inter-sparse multiple output regression with application on environmental microbial community studyFull-text access may be available. Sign in or learn about subscription options.pp. 404-409
by Jie Yang, Henry C. M. Leung, S. M. Yiu, Yunpeng Cai, Francis Yl. Chin
Using aggregate human genome data for individual identificationFull-text access may be available. Sign in or learn about subscription options.pp. 410-415
by Yue Wang, Xintao Wu, Xinghua Shi
Approximate Bayesian computation for estimating rate constants in biochemical reaction systemsFull-text access may be available. Sign in or learn about subscription options.pp. 416-421
by Qianqian Wu, Kate Smith-Miles, Tianhai Tian
Confirming biological significance of co-occurrence clusters of aligned pattern clustersFull-text access may be available. Sign in or learn about subscription options.pp. 422-427
by En-Shiun Annie Lee, Sanderz Fung, Ho-Yin Sze-To, Andrew K. C. Wong
Genealogical-based method for ontology self-extension in MeSHFull-text access may be available. Sign in or learn about subscription options.pp. 428-433
by Yu-Wen Guo, Hung-Yu Kao
Locating basic bio-entities in genome-scale reconstructed metabolic networksFull-text access may be available. Sign in or learn about subscription options.pp. 434-439
by Xinjian Qi, Gultekin Ozsoyoglu
An ensemble approach for drug side effect predictionFull-text access may be available. Sign in or learn about subscription options.pp. 440-445
by Md Jamiul Jahid, Jianhua Ruan
Rule based regression and feature selection for biological dataFull-text access may be available. Sign in or learn about subscription options.pp. 446-451
by Sheng Liu, Shamitha Dissanayake, Sanjay Patel, Xin Dang, Todd Mlsna, Yixin Chen, Dawn Wilkins
A Hadoop approach to advanced sampling algorithms in molecular dynamics simulation on cloud computingFull-text access may be available. Sign in or learn about subscription options.pp. 452-455
by Jin Niu, Shuju Bai, Ebrahim Khosravi, Seung-Jong Park
Integrating multiple biomedical resources for protein complex predictionFull-text access may be available. Sign in or learn about subscription options.pp. 456-459
by Yijia Zhang, Hongfei Lin, Zhihao Yang, Jian Wang, Bo Xu
Exploring Li-Fa-Fang-Yao rules of major depressive disorder in traditional Chinese medicine through text miningFull-text access may be available. Sign in or learn about subscription options.pp. 460-464
by Junping Zhan, Guang Zheng, Mengmeng Song, Tong Wei, Miao Jiang, Cheng Lu, Aiping Lu
Enhancing entity annotation using web service and ontology hierarchy in biomedical domainsFull-text access may be available. Sign in or learn about subscription options.pp. 465-468
by Yue Shang, Yuan An, Xiaohua Tony Hu, Mi Zhang, Xia Lin
Multigrid discretization method for PopZ polarization in Caulobacter cell cycleFull-text access may be available. Sign in or learn about subscription options.pp. 469-472
by Fei Li, Yang Cao
StemFinder: An efficient algorithm for searching motif stems over large alphabetsFull-text access may be available. Sign in or learn about subscription options.pp. 473-476
by Qiang Yu, Hongwei Huo, Jeffrey Scott Vitter, Jun Huan, Yakov Nekrich
Integrating semantic transcriptomic data analysis and knowledge extraction from biological literatureFull-text access may be available. Sign in or learn about subscription options.pp. 477-480
by Vid Podpecan, Dragana Miljkovic, Marko Petek, Tjasa Stare, Kristina Gruden, Igor Mozetic, Nada Lavrac
Using silver and semi-gold standard corpora to compare open named entity recognisersFull-text access may be available. Sign in or learn about subscription options.pp. 481-485
by Tudor Groza, Anika Oellrich, Nigel Collier
CUDA-MAFFT: Accelerating MAFFT on CUDA-enabled graphics hardwareFull-text access may be available. Sign in or learn about subscription options.pp. 486-489
by Xiangyuan Zhu, Kenli Li
Connectivity and path analysis for neuron network in the Drosophila brainFull-text access may be available. Sign in or learn about subscription options.pp. 490-494
by Ching-Yao Lin, Kuen-Long Tsai, Chang-Huain Hsieh, Hsiu-Ming Chang, Ann-Shyn Chiang
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