Abstract is missing.
- A scalable, flexible workflow for MethylCap-seq data analysisBenjamin Rodriguez, Hok-Hei Tam, David Frankhouser, Michael Trimarchi, Mark Murphy, Chris Kuo, Deval Parikh, Bryan Ball, Sebastian Schwind, John Curfman, William Blum, Guido Marcucci, Pearlly Yan, Ralf Bundschuh. 1-4 [doi]
- An ERα/modulator regulatory network in the breast cancer cellsHeng-Yi Wu, Yu Wang, Pengyue Zheng, Guanglong Jiang, Yunlong Liu, Tim Hui-Ming Huang, Kenneth P. Nephew, Lang Li. 5-8 [doi]
- Empirical bayes model comparisons for differential methylation analysisMingxiang Teng, Yadong Wang, Yunlong Liu, Seongho Kim, Curtis Balch, Kenneth P. Nephew, Lang Li. 9-12 [doi]
- Chromatin signature analysis and prediction of genome-wide novel promoters using finite mixture modelCenny Taslim, Shili Lin, Kun Huang, Tim Hui-Ming Huang. 13-16 [doi]
- Uncertainty-based essentiality in gene regulatory networksXiaoning Qian, Byung-Jun Yoon, Edward R. Dougherty. 17-20 [doi]
- The effect of certain Boolean functions in stability of networks with varying topologyVitor H. P. Louzada, Fabrício Martins Lopes, Ronaldo Fumio Hashimoto. 21-24 [doi]
- A cubature Kalman filter approach for inferring gene regulatory networks using time series dataAmina Noor, Erchin Serpedin, Mohamed N. Nounou, Hazem N. Nounou. 25-28 [doi]
- A novel critical time analysis approach for genetic regulatory networksSonal Bhattacharya, Ranadip Pal. 29-32 [doi]
- Efficient combinatorial drug optimization through stochastic searchMansuck Kim, Byung-Jun Yoon. 33-35 [doi]
- A novel approach for tumor sensitivity prediction and combination therapy design for targeted drugsNoah Berlow, Ranadip Pal. 36-37 [doi]
- Modeling cyclic and acyclic therapeutic methods with persistent intervention effect in probabilistic Boolean networksMohammadmahdi R. Yousefi, Aniruddha Datta, Edward R. Dougherty. 38-41 [doi]
- Predicting drug efficacy based on the integrated breast cancer pathway modelHui Huang 0007, Xiaogang Wu, Sara Ibrahim, Marianne McKenzie, Jake Y. Chen. 42-45 [doi]
- Identifying genes associated with chemotherapy response in ovarian carcinomas based on DNA copy number and expression profilesFang-Han Hsu, Erchin Serpedin, Tzu-Hung Hsiao, Alexander J. R. Bishop, Edward R. Dougherty, Yidong Chen. 46-49 [doi]
- Assessing the efficacy of molecularly targeted agents by using Kalman filterXiangfang Li, Lijun Qian, Michael L. Bittner, Edward R. Dougherty. 50-51 [doi]
- Probabilistic consistency transformation for multiple alignment of biological networksSayed Mohammad Ebrahim Sahraeian, Byung-Jun Yoon. 52-53 [doi]
- Attractor estimation and model refinement for stochastic regulatory network modelsJason M. Knight, Edward R. Dougherty. 54-55 [doi]
- Steady state probability approximation applied to stochastic model of biological networkMd. Shahriar Karim, David M. Umulis, Gregery T. Buzzard. 56-59 [doi]
- Identification of biomarkers in breast cancer metastasis by integrating protein-protein interaction network and gene expression dataMd. Jamiul Jahid, Jianhua Ruan. 60-63 [doi]
- Pathway analysis in the context of Bayesian networks - mathematical modeling of master and canalizing genesChen Zhao, Ivan Ivanov, Michael L. Bittner, Edward R. Dougherty. 64-65 [doi]
- Gene network inference via sparse structural equation modeling with genetic perturbationsXiaodong Cai, Juan-Andrés Bazerque, Georgios B. Giannakis. 66-69 [doi]
- Improvement of GNs inference through biological data integrationFabio Fernandes da Rocha Vicente, Fabrício Martins Lopes, Ronaldo Fumio Hashimoto. 70-73 [doi]
- Multisource biological pathway consolidationMark Doderer, Zachry Anguiano, Uthra Suresh, Ravi Dashnamoorthy, Alexander J. R. Bishop, Yidong Chen. 74-77 [doi]
- A method for finding novel associations between genome-wide copy number and dna methylation patternsMan-Hung Eric Tang, Vinay Varadan, Sid Kamalakaran, Michael Q. Zhang, Nevenka Dimitrova, James Hicks. 78-82 [doi]
- Stochastic modeling of dynamic effects of copy number alterations upon gene expression levelsFang-Han Hsu, Erchin Serpedin, Yidong Chen, Edward R. Dougherty. 83-86 [doi]
- Efficient cancer therapy using Boolean networks and Max-SAT-based ATPGPey-Chang Kent Lin, Sunil P. Khatri. 87-90 [doi]
- Designing enhanced classifiers using prior process knowledge: Regularized maximum-likelihoodMohammad Shahrokh Esfahani, Amin Zollanvari, Byung-Jun Yoon, Edward R. Dougherty. 91-94 [doi]
- Finding effective subnetwork markers for cancer by passing messagesByung-Jun Yoon. 95-96 [doi]
- Application of survival analysis methodology to the quantitative analysis of LC-MS proteomics dataCarmen D. Tekwe, Alan R. Dabney, Raymond J. Carroll. 97-100 [doi]
- Mapping of international protein index to Affymetrix probe-set identifier for correlating genomics and proteomics expression profiles in multiple myelomaShweta S. Chavan, John D. Shaughnessy Jr., Bart Barlogie, Ricky D. Edmondson. 101-104 [doi]
- Multiple reaction monitoring: Modeling and systematic analysisEsmaeil Atashpaz-Gargari, Ulisses Braga-Neto, Edward R. Dougherty. 105-107 [doi]
- Joint corresponding feature identification and alignment for multiple LC/MS replicatesJian Cui, Xuepo Ma, Jianqiu Zhang. 108-111 [doi]
- Modeling and systematic analysis of LC-MS proteomics pipelineYouting Sun, Ulisses Braga-Neto, Edward R. Dougherty. 112-116 [doi]
- Enabling Atlas2 personal genome analysis on the cloudUday S. Evani, Danny Challis, Jin Yu, Andrew R. Jackson, Sameer Paithankar, Matthew N. Bainbridge, Cristian Coarfa, Aleksandar Milosavljevic, Fuli Yu. 117-120 [doi]
- A sequential Monte Carlo base-calling method for next-generation dna sequencingXiaohu Shen, Haris Vikalo. 121-122 [doi]
- Comparative copy number variation from whole genome sequencingAngel Janevski, Vinay Varadan, Sitharthan Kamalakaran, Nilanjana Banerjee, Nevenka Dimitrova. 123-126 [doi]
- Beyond seed match: Improving miRNA target prediction using PAR-CLIP dataMingzhu Lu, C. L. Philip Chen, Yufei Huang. 127-130 [doi]
- Network-assisted causal gene detection in genome-wide association studies: an improved module search algorithmPeilin Jia, Zhongming Zhao. 131-134 [doi]
- Classifier error estimator performance in a Bayesian contextLori A. Dalton, Edward R. Dougherty. 135-138 [doi]
- Sample-based estimators for the instrinsically multivariate prediction scoreTing Chen, Ulisses Braga-Neto. 139-142 [doi]
- Clustering gene expression data using probabilistic non-negative matrix factorizationBelhassen Bayar, Nidhal Bouaynaya, Roman Shterenberg. 143-146 [doi]
- Relationship between the accuracy of classifier error estimation and distribution complexityEsmaeil Atashpaz-Gargari, Chao Sima, Ulisses Braga-Neto, Edward R. Dougherty. 147-149 [doi]
- Geometrical modification of wavelet SVM kernels and its application in microarray analysisHong Cai, Yufeng Wang. 150-153 [doi]
- S-score: A novel scoring method of gene signatures for molecular classificationHung-I Harry Chen, Tzu-Hung Hsiao, Yidong Chen, Charles Keller. 154-157 [doi]
- Computational prediction of microRNA regulatory pathwaysDong Yue, Yidong Chen, Shou-Jiang Gao, Yufei Huang. 158-161 [doi]
- Inference of a genetic regulatory network model from limited time series dataSaad Haider, Ranadip Pal. 162-165 [doi]
- Modelling oxidative stress response pathwaysSriram Sridharan, Ritwik Layek, Aniruddha Datta, Jijayanagaram Venkatraj. 166-169 [doi]
- Clustering DNA methylation expressions using nonparametric beta mixture modelLin Zhang 0015, Jia Meng, Hui Liu, Yufei Huang. 170-173 [doi]
- A novel approach for alignments output storage problem facing clinical scenariosYiqi Lu, Yanghua Xiao, Yaoliang Chen, Danfeng Xu, Fuli Yu. 174-177 [doi]
- Personal genome privacy protection with feature-based hierarchical dual-stage encryptionXukai Zou, Peng Liu, Jake Y. Chen. 178-181 [doi]
- ECF sigma factor-associated regulatory networks in Streptomyces colicolor A3(2)Zhan Zhou, Qi Li, Julie Tudyk, Yong-Quan Li, Yufeng Wang. 182-185 [doi]
- Transcriptomic analysis using SVD clustering and SVM classificationHong Cai, Yufeng Wang. 186-189 [doi]
- A Compton scattering suppression based image reconstruction method for Digital Breast TomosynthesisShiyu Xu, Ying Chen. 190-193 [doi]
- Effects of slice thickness filter in filtered backprojection reconstruction with the parallel breast tomosynthesis imaging configurationLinlin Cong, Ying Chen, Weihua Zhou. 194-197 [doi]
- Targeting myocardial infarction-specific protein interaction network using computational analysesNguyen Nguyen, Xiaolin Zhang, Yunji Wang, Hai-Chao Han, Yufang Jin, Galen Schmidt, Richard A. Lange, Robert J. Chilton, Merry Lindsey. 198-201 [doi]
- Mathematical modeling of macrophage activation in left ventricular remodeling post-myocardial infarctionYunji Wang, Yufang Jin, Yonggang Ma, Ganesh V. Halade, Merry L. Linsey. 202-205 [doi]
- Revision of the variational Bayesian method for uncovering genes regulatory networkManuel Sanchez-Castillo, Isabel M. Tienda-Luna, David Blanco-Navarro, Maria Carmen Carrion Perez. 206-209 [doi]
- A study of the effects of non-specific filtering on the gene expression data prior to statistical testingJiaxiu He. 210-213 [doi]
- Fast and parallelized greedy forward selection of genetic variants in Genome-wide association studiesSebastian Okser, Tapio Pahikkala, Antti Airola, Tero Aittokallio, Tapio Salakoski. 214-217 [doi]
- Studying the possibility of peaking phenomenon in linear support vector machines with non-separable dataSardar Afra, Ulisses Braga-Neto. 218-221 [doi]
- Intervention in general topology gene regulatory networksNidhal Bouaynaya, Mohammed Rasheed, Roman Shterenberg, Dan Schonfeld. 222-225 [doi]
- Feature set enhancement via hierarchical clustering for microarray classificationMattia Bosio, Pau Bellot Pujalte, Philippe Salembier, Albert Oliveras-Vergés. 226-229 [doi]
- Minimum description length based selection of reference sequences for comparative assemblersBilal Wajid, Erchin Serpedin. 230-233 [doi]