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Semantic Scholar2. BCB 2011: Chicago, IL, USA
Robert Grossman, Andrey Rzhetsky, Sun Kim, Wei Wang:
ACM International Conference on Bioinformatics, Computational Biology and Biomedicine, BCB' 11, Chicago, IL, USA - July 31 - August 03, 2011. ACM 2011, ISBN 978-1-4503-0796-3Boon-Siew Seah, Sourav S. Bhowmick, C. Forbes Dewey Jr., Hanry Yu:
Fuse: towards multi-level functional summarization of protein interaction networks. 2-11Iman Rezaeian, Luis Rueda:
Biological assessment of grid and spot detection in cDNA microarray images. 12-19Changjiang Zhang, Kimberly Forsten-Williams, Michael Fannon, Wensheng Shen, Jun Zhang:
Parallel simulation of multiple proteins through a bioreactor coupled with biochemical reactions. 20-28R. Mitchell Parry, John H. Phan, May D. Wang:
Win percentage: a novel measure for assessing the suitability of machine classifiers for biological problems. 29-38Zanoni Dias, Ulisses Dias, João C. Setubal:
Using inversion signatures to generate draft genome sequence scaffolds. 39-48Yin Tang, Fei Wang:
Neural system modeling and simulation using hybrid functional Petri net. 49-58Corban G. Rivera, Brett M. Tyler, T. M. Murali:
Sensitive detection of pathway perturbations in cancers: extended abstract. 59-68Taehyong Kim, Murali Ramanathan, Lawrence Bone, Aidong Zhang:
Mathematical network model for bone mineral density (BMD) and bone quality assessment. 69-75Richard Jang, Xin Gao, Ming Li:
Combining ambiguous chemical shift mapping with structure-based backbone and NOE assignment from 15N-NOESY. 76-86Marco Pellegrini, M. Elena Renda, Alessio Vecchio:
Detecting fuzzy amino acid tandem repeats in protein sequences. 87-95Yu-Keng Shih, Srinivasan Parthasarathy:
Scalable multiple global network alignment for biological data. 96-105Xia Ning, Michael A. Walters, George Karypis:
Improved machine learning models for predicting selective compounds. 106-115Toshiaki Namiki, Tsuyoshi Hachiya, Hideaki Tanaka, Yasubumi Sakakibara:
MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads. 116-124Andrey N. Chernikov, Nikos Chrisochoides:
Tetrahedral image-to-mesh conversion for biomedical applications. 125-134Artem Sokolov, Asa Ben-Hur:
Multi-view prediction of protein function. 135-142Lu He, Alan M. Friedman, Chris Bailey-Kellogg:
Algorithms for optimizing cross-overs in DNA shuffling. 143-152Basak Oztan, Lindsey M. Polizzotti, Cemal Çagatay Bilgin, Kira M. Henderson, George E. Plopper, Bülent Yener:
Classification of breast cancer grades through quantitative characterization of ductal structure morphology in three-dimensional cultures. 153-161Maryam Haghighi, Sylvia C. Boyd:
A fast method for large-scale multichromosomal breakpoint median problems. 162-171Ayshwarya Subramanian, Stanley Shackney, Russell Schwartz:
Inference of tumor phylogenies from genomic assays on heterogeneous samples. 172-181Li An, Haibin Ling, Zoran Obradovic, Desmond J. Smith, Vasileios Megalooikonomou:
Identifying pair-wise gene functional similarity by multiplex gene expression maps and supervised learning. 182-190Shruthi Prabhakara, Raj Acharya:
A two-way multi-dimensional mixture model for clustering metagenomic sequences. 191-200Minoo Aminian, Amina Shabbeer, Kane Hadley, Cagri Ozcaglar, Scott L. Vandenberg, Kristin P. Bennett:
Knowledge-based Bayesian network for the classification of Mycobacterium tuberculosis complex sublineages. 201-208Osama Aljawad, Yanni Sun, Alex Liu, Jikai Lei:
NcRNA homology search using Hamming distance seeds. 209-217Jianlong Qi, Tom Michoel, Gregory Butler:
An integrative approach to infer regulation programs in a transcription regulatory module network. 218-225Aaron Smalter Hall, Jun Huan, Gerald H. Lushington:
Similarity boosting for label noise tolerance in protein-chemical interaction prediction. 226-234Lei Yang, En Cheng, Z. Meral Özsoyoglu:
Using compact encodings for path-based computations on pedigree graphs. 235-244Yuan Li, Shaojie Zhang:
Predicting folding pathways between RNA conformational structures guided by RNA stacks. 245-253Ye Tian, Bai Zhang, Ie-Ming Shih, Yue Joseph Wang:
Knowledge-guided differential dependency network learning for detecting structural changes in biological networks. 254-263Ameet Soni, Jude W. Shavlik:
Probabilistic ensembles for improved inference in protein-structure determination. 264-273Michael Dang, Ferhat Ay, Tamer Kahveci:
A novel framework for large scale metabolic network alignments by compression. 274-283Huey-Eng Chua, Qing Zhao, Sourav S. Bhowmick, C. Forbes Dewey Jr., Lisa Tucker-Kellogg, Hanry Yu:
Pani: a novel algorithm for fast discovery of putative target nodes in signaling networks. 284-288Leif Ellingson, Jinfeng Zhang:
An efficient algorithm for matching protein binding sites for protein function prediction. 289-293Luis C. González, Dennis R. Livesay, Donald J. Jacobs:
Improving protein flexibility predictions by combining statistical sampling with a mean-field virtual Pebble Game. 294-298Chengcheng Shen, Ying Liu:
A tripartite clustering analysis on microRNA, gene and disease model. 299-303Woo-Hyuk Jang, Suk Hoon Jung, Bo-ra Hyun, Dong-Soo Han:
Modeling of multi domain contribution to protein interaction. 304-308Majid Masso:
Sequence-based prediction of HIV-1 coreceptor usage: utility of n-grams for representing gp120 V3 loops. 309-314Shilpa Nadimpalli, Noah M. Daniels, Lenore Cowen:
Formatt: correcting protein multiple structural alignments by sequence peeking. 315-319Anupam Ghosh, Rajat K. De:
A fuzzy entropy based approach for development of gene prediction networks (GPNs): detecting altered dependency in carcinogenic state. 320-324Yixuan Chen, Jing Li:
Generation of synthetic data in evaluating interactions for association studies. 325-329Tomás Flouri, Costas S. Iliopoulos, Solon P. Pissis:
DynMap: mapping short reads to multiple related genomes. 330-334Jeremy W. Wang, Fernando Pardo-Manuel de Villena, Leonard McMillan:
Dynamic visualization and comparative analysis of multiple collinear genomic data. 335-339Shulin Yang, Linda G. Shapiro, Michael L. Cunningham, Matthew L. Speltz, Su-In Lee:
Classification and feature selection for craniosynostosis. 340-344Akther Shermin, Hasan Jamil, Mehmet A. Orgun:
A scalable approach for inferring transcriptional regulation in the yeast cell cycle. 345-349Omar Odibat, Chandan K. Reddy:
Ranking differential genes in co-expression networks. 350-354Songjian Lu, Xinghua Lu:
A graph model and an exact algorithm for finding transcription factor modules. 355-359Lei Shi, Aidong Zhang:
An ACO based functional module detection algorithm for protein interaction networks. 360-365Youngik Yang:
A novel K-mer mixture logistic regression for methylation susceptibility modeling of CpG dinucleotides in human gene promoters. 366-370Lindsey Bell, Jinfeng Zhang, Xufeng Niu:
Mixture of logistic models and an ensemble approach for protein-protein interaction extraction. 371-375Noor Alaydie, Chandan K. Reddy, Farshad Fotouhi:
A Bayesian integration model for improved gene functional inference from heterogeneous data sources. 376-380Michael Hamilton, A. S. N. Reddy, Asa Ben-Hur:
Kernel methods for Calmodulin binding and binding site prediction. 381-386Ali Cakmak, Xinjian Qi, A. Ercument Cicek, Gultekin Özsoyoglu:
Computational interpretation of metabolomics measurements: steady-state metabolic network dynamics analysis. 387-392Adriana Muñoz, David Sankoff:
Changes in gene expression near evolutionary breakpoints. 393-398Jie Zhou, Hanchuan Peng:
Counting cells in 3D confocal images based on discriminative models. 399-403M. Leigh Fanning, Joanne Macdonald, Darko Stefanovic:
ISO: numeric representation of nucleic acid form. 404-408A. Ercument Cicek, Gultekin Özsoyoglu:
Resolving observation conflicts in steady state metabolic network dynamics analysis. 409-414Xuan Liu, Shing-Wan Choi, Thomas K. F. Wong, Tak Wah Lam, Siu-Ming Yiu:
Detection of novel tandem duplication with next-generation sequencing. 415-419Vinicio Reynoso, Catherine Putonti:
Mapping short sequencing reads to distant relatives. 420-424Hiroyuki Kuwahara, Chris J. Myers:
Erlang-delayed stochastic chemical kinetic formalism for efficient analysis of biological systems with non-elementary reaction effects. 425-429Qiong Cheng, Mitsunori Ogihara, Vineet Gupta:
Inferring conflict-sensitive phosphorylation dynamics. 430-434Günhan Gülsoy, Bhavik Gandhi, Tamer Kahveci:
Topology aware coloring of gene regulatory networks. 435-440Li C. Xue, Rafael A. Jordan, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Ranking docked models of protein-protein complexes using predicted partner-specific protein-protein interfaces: a preliminary study. 441-445Emmett Sprecher, Sudipa Sarkar, Steven H. Kleinstein, Murli Narayan, Eric P. Winer, David Tuck, Kimberly Lezon-Geyda, Ian Krop, Lyndsay Harris:
Association between response to brief trastuzumab exposure in cell lines and early stage HER2+ breast tumors. 446-450Yuan Li, Aaron L. Halpern, Shaojie Zhang:
TreeLign: simultaneous stepwise alignment and phylogenetic positioning, with its application to automatic phylogenetic assignment of 16S rRNAs. 451-456Chih Lee, Chun-Hsi Huang:
Geometric visualization of TF binding sites in context. 457-461Kavishwar B. Wagholikar, Manabu Torii, Hongfang Liu:
Human gene/protein synonym dictionary from WikiLinks. 462-464Paolo Atzeni, Fabio Polticelli, Daniele Toti:
Experimentation of an automatic resolution method for protein abbreviations in full-text papers. 465-467Chee Keong Kwoh, Lakshmi Chandrasekaran:
Phylogenetic and mutational analysis of 2008, 2009 & 2010 neuraminidase of H1N1 influenza A. 468-470Jia Wu, Raymond Tse, Carrie Heike, Linda G. Shapiro:
Learning to compute the plane of symmetry for human faces. 471-474Zhi-Liang Hu, Xiaolin Wu, James M. Reecy:
Extension of Animal QTLdb: QTL meta-analysis on the fly. 475-477Sabareesh Subramaniam, Sriraam Natarajan, Alessandro Senes:
A machine learning based approach to improve sidechain optimization. 478-480Ling Chen, Wei Liu:
An effective approach for mining frequent patterns in multiple biological sequences. 481-483Thomas K. F. Wong, Hui-Ting Yu, Bay-Yuan Hsu, Tak Wah Lam, Wing-Kai Hon, Siu-Ming Yiu:
Algorithms for pseudoknot classification. 484-486Yam Ki Cheung, Ovidiu Daescu, Lech Papiez:
Volume matching with application in medical treatment planning. 487-489Tomás Flouri, Kunsoo Park, Kimon Frousios, Solon P. Pissis, Costas S. Iliopoulos, German Tischler:
Approximate string-matching with a single gap for sequence alignment. 490-492Yifeng Liu, Zhaochen Guo, Xiaodi Ke, Osmar R. Zaïane:
Protein subcellular localization prediction with associative classification and multi-class SVM. 493-495Ondrej Kuzelka, Andrea Szabóová, Filip Zelezný:
Gaussian logic and its applications in bioinformatics. 496-498Osamu Maruyama:
Heterodimeric protein complex identification. 499-501George Mathew, Zoran Obradovic:
Constraint graphs as security filters for privacy assurance in medical transactions. 502-504Christian Baudet, Zanoni Dias:
Partial enumeration of solutions traces for the problem of sorting by signed reversals. 505-507Kuan Yang, João Carlos Setubal:
A whole genome simulator of prokaryote genome evolution. 508-510Daniel Johnson, Kun Wang, Carole L. Cramer, Xiuzhen Huang:
Graph-based approach for gene markers and applications in next-generation sequencing data analysis. 511-513Tu-Liang Lin, Santhosh Kumar Vammi, Guang Song:
Evaluating the quality of conformation sampling methods using experimental residual dipolar coupling data. 514-518Alpna Agarwal, Eron Oronsaye, Arthur Nadas, Susan Zolla-Pazner, Timothy Cardozo:
CCR5/CXCR4 discriminating sites in the HIV-1 gp120 core. 519-521Ho-Sun Shon, Kyung-Sook Yang, Che Woo Yoo, Keun Ho Ryu:
Feature selection method using WF-LASSO for gene expression data analysis. 522-524Maragaille R. Capiroso, Marla A. Endriga, Valerie Diane V. Valeriano, Custer C. Deocaris:
A molecular systems analysis of HOX PPI networks in hematopoiesis and leukemogenesis. 525-527Angel Bravo-Salgado, Jessica Beckham, Armin R. Mikler:
Modeling malaria: stretch-delay effect of temperature in the sporogonic cycle and disease dynamics. 528-530Nan Du, Kang Li, Supriya D. Mahajan, Stanley A. Schwartz, Bindukumar B. Nair, Chiu Bin Hsiao, Aidong Zhang:
Gene Co-Adaboost: a semi-supervised approach for classifying gene expression data. 531-535Natasa Miskov-Zivanov, Andrew Bresticker, Deepa Krishnaswamy, Sreesan Venkatakrishnan, Diana Marculescu, James R. Faeder:
Emulation of biological networks in reconfigurable hardware. 536-540Todd H. Stokes, Richard A. Moffitt, May D. Wang:
SecureMed-ID: memorable and private identifiers for off-site access to medical records. 541-543Fethullah Karabiber, Kevin Weeks, Oleg V. Favorov:
Automated peak alignment for nucleic acid capillary electrophoresis data by dynamic programming. 544-546Zhonghua Jiang, George Karypis:
Automatic detection of vaccine adverse reactions by incorporating historical medical conditions. 547-549Heung-Seon Oh, Jong-Beom Kim, Sung-Hyon Myaeng:
Extracting targets and attributes of medical findings from radiology reports in a mixture of languages. 550-552Vishal Bahirwani, Doina Caragea:
Study on regulatory motifs in Arabidopsis thaliana. 553-555Li C. Xue, Rasna R. Walia, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
Improving protein-RNA interface prediction by combining sequence homology based method with a naive Bayes classifier: preliminary results. 556-558Suely Oliveira, David E. Stewart:
Clustering for bioinformatics via matrix optimization. 559-563
Immunoinformatics and Computational Immunology Workshop
Francesca Cordero, Stefania Lanzardo, Maddalena Arigoni, Chiara Fornari, Laura Conti, Gianfranco Balbo, Federica Cavallo, Daniele Manini, Raffaele Calogero:
Cancer stem cell based adjuvant for oncoantingen-driven vaccination. 564-568Salvador Eugenio C. Caoili:
Affinity limits in B-cell epitope prediction for immunity mediated by antipeptide antibodies. 569-578Christopher S. Eickhoff, Matthew Ardito, Eric Gustafson, William D. Martin, Daniel F. Hoft:
Generation of novel Chagas vaccines: evolving studies/work in progress. 579-583Nora C. Toussaint, Magdalena Feldhahn, Matthias Ziehm, Stefan Stevanovic, Oliver Kohlbacher:
T-cell epitope prediction based on self-tolerance. 584-588Leonard Moise, Matthew Ardito, William D. Martin, Eric Gustafson, Alan Rothman, Anne S. De Groot:
Immunoinformatic discovery of potential cross-reactive T cell epitopes in the measles genome. 589-593Dan He, Pratima Kunwar, Eleazar Eskin, Helen Horton, Peter B. Gilbert, Tomer Hertz:
Using HLA binding prediction algorithms for epitope mapping in HIV vaccine clinical trials. 594-601Guanglan Zhang, Melisa L. Budde, Jennifer J. Lhost, David H. O'Connor, William H. Hildebrand, Vladimir Brusic:
PREDmafa: a system for prediction of peptide binding to several MHC class I molecules in cynomolgus macaques. 602-606Yohan Kim, Jonathan W. Yewdell, Bjoern Peters:
Determining positional bias of MHC class I restricted T-cell epitopes in viral antigens. 607-611
Workshop on Semantic Applied Technologies on Biomedical Informatics
Alejandro Rodríguez González, Enrique Jiménez-Domingo, Ángel García-Crespo, Giner Alor-Hernández, Juan Miguel Gómez-Berbís, Rubén Posada-Gómez:
Designing an ontology to support the creation of diagnostic decision support system. 612-616María Del Carmen Legaz-García, José Antonio Miñarro-Giménez, Marisa Madrid, Santiago Torres Martínez, Jesualdo Tomás Fernández-Breis:
Using ontologies for supporting genomic sequence annotation projects. 617-625Jose María Álvarez Rodríguez, Luis Polo, Weena Jimenez, Pablo Abella, José Emilio Labra Gayo:
Application of the spreading activation technique for recommending concepts of well-known ontologies in medical systems. 626-635Nate Blaylock, William de Beaumont, James F. Allen, Hyuckchul Jung:
Towards an OWL-based framework for extracting information from clinical texts. 636-640
Workshop on Biomolecular Network Analysis
Edward Casey Kenley, Lyles Kirk, Young-Rae Cho:
Differentiating party and date hubs in protein interaction networks using semantic similarity measures. 641-645Saeed Salem, Loqmane Seridi, Rami Alroobi, James E. Brewer, Shadi Banitaan, Ibrahim Aljarah:
CLARM: an integrative approach for functional modules discovery. 646-650Kim Jong Kwang:
Brain tumor pathway identification by integrating transcriptome and interactome data. 651-655Pietro Hiram Guzzi, Pierangelo Veltri, Mario Cannataro:
Experimental evaluation of OntoPIN: an ontology-annotated PPI database. 656-660
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