default search action
Journal of Computational Biology, Volume 25
Volume 25, Number 1, January 2018
- Jing He, Kamal Al-Nasr, Weitao Sun, Yonggang Lu:
Special IssuePreface: The 9th Computational Structural Bioinformatics Workshop. 1-2 - Jayvee R. Abella, Mark Moll
, Lydia E. Kavraki
Maintaining and Enhancing Diversity of Sampled Protein Conformations in Robotics-Inspired Methods. 3-20 - Kamal Al-Nasr, Christopher Jones, Feras Yousef
PEM-fitter: A Coarse-Grained Method to Validate Protein Candidate Models. 21-32 - Tatiana Maximova, Zijing Zhang, Daniel Carr, Erion Plaku
Sample-Based Models of Protein Energy Landscapes and Slow Structural Rearrangements. 33-50 - Nathan Clement, Muhibur Rasheed, Chandrajit L. Bajaj
Viral Capsid Assembly: A Quantified Uncertainty Approach. 51-71 - Jin Seob Kim, Gregory S. Chirikjian:
Symmetrical Parameterization of Rigid Body Transformations for Biomolecular Structures. 72-88 - Michael Siderius, Filip Jagodzinski:
Mutation Sensitivity Maps: Identifying Residue Substitutions That Impact Protein Structure Via a Rigidity Analysis In Silico Mutation Approach. 89-102 - Weitao Sun:
The Relationship Between Low-Frequency Motions and Community Structure of Residue Network in Protein Molecules. 103-113 - Tunazzina Islam, Michael Poteat, Jing He:
Quantification of Twist from the Central Lines of β-Strands. 114-120
Volume 25, Number 2, February 2018
- Stephen F. Altschul, Andrew F. Neuwald:
Initial Cluster Analysis. 121-129 - Heewon Park, Teppei Shimamura
Adaptive NetworkProfiler for Identifying Cancer Characteristic-Specific Gene Regulatory Networks. 130-145 - Jin-Hua He, Ze-Ping Han, Mao-Xian Zou, Li Wang, Yu Bing Lv, Jia Bin Zhou, Ming-Rong Cao, Yu-Guang Li:
Analyzing the LncRNA, miRNA, and mRNA Regulatory Network in Prostate Cancer with Bioinformatics Software. 146-157 - Cheng-Hong Yang, Yi-Cheng Chiang, Li-Yeh Chuang, Yu-Da Lin
A CpGCluster-Teaching-Learning-Based Optimization for Prediction of CpG Islands in the Human Genome. 158-169 - Fatima A. Morad, Omran M. Rashidi, Saida S. Sadath, Faisal A. Al-Allaf, Mohammad Athar
In Silico Approach to Investigate the Structural and Functional Attributes of Familial Hypercholesterolemia Variants Reported in the Saudi Population. 170-181 - Mohammad S. Rahman
HetFHMM: A Novel Approach to Infer Tumor Heterogeneity Using Factorial Hidden Markov Models. 182-193 - Evaldo Bezerra Costa:
MELC Genomics: A Framework for De Novo Genome Assembly. 194-199 - Jordi Vilaplana, Rui Alves
MetReS, an Efficient Database for Genomic Applications. 200-213 - Arnon Benshahar, Vered Chalifa-Caspi
A Biclique Approach to Reference-Anchored Gene Blocks and Its Applications to Genomic Islands. 214-235 - Sawsan Kanj, Thomas Brüls, Stéphane Gazut:
Shared Nearest Neighbor Clustering in a Locality Sensitive Hashing Framework. 236-250
Volume 25, Number 3, March 2018
Preface
- Zhipeng Cai
Special IssuePreface: 13th International Symposium on BioinformaticsResearch and Applications (ISBRA 2017). 251-252
- Kuang-Yu Chang, Yun Cui, Siu-Ming Yiu, Wing-Kai Hon:
Reconstructing One-Articulated Networks with Distance Matrices. 253-269 - Zihao Wang, Yu Chen, Jingrong Zhang, Lun Li
ICON-MIC: Implementing a CPU/MIC Collaboration Parallel Framework for ICON on Tianhe-2 Supercomputer. 270-281 - Michal Aleksander Ciach
Estimation of Rates of Reactions Triggered by Electron Transfer in Top-Down Mass Spectrometry. 282-301 - Ruofan Xia, Yu Lin
A Median Solver and Phylogenetic Inference Based on Double-Cut-and-Join Sorting. 302-312 - Rashika Mishra, Ovidiu Daescu, Patrick Leavey
Convolutional Neural Network for Histopathological Analysis of Osteosarcoma. 313-325 - Albert Ng, Dong Si:
Beta-Barrel Detection for Medium Resolution Cryo-Electron Microscopy Density Maps Using Genetic Algorithms and Ray Tracing. 326-336 - Xiuchun Xiao, Bing Liu, Jing Zhang, Xueli Xiao, Yi Pan
An Optimized Method for Bayesian Connectivity Change Point Model. 337-347 - Bruno Fosso
Unbiased Taxonomic Annotation of Metagenomic Samples. 348-360 - Lei Wang, Zhu-Hong You
A Computational-Based Method for Predicting Drug-Target Interactions by Using Stacked Autoencoder Deep Neural Network. 361-373
Volume 25, Number 4, April 2018
- Ana M. Jelovic, Nenad S. Mitic, Samira Eshafah, Milos V. Beljanski:
Finding Statistically Significant Repeats in Nucleic Acids and Proteins. 375-387 - Hong Wang
Survival Forests with R-Squared Splitting Rules. 388-395 - Lingling Li, Tianhai Tian
Mutation Mechanisms of Human Breast Cancer. 396-404 - Hsin-Hsiung Huang, Senthil B. Girimurugan:
A Novel Real-Time Genome Comparison Method Using Discrete Wavelet Transform. 405-416 - Jaeil Ahn, Brian Conkright, Simina M. Boca
POPSTR: Inference of Admixed Population Structure Based on Single-Nucleotide Polymorphisms and Copy Number Variations. 417-429 - Andreas M. Kist
DIsulfide Mapping PLanner Software Tool. 430-434 - Jun Fan, Jing Yang, Zhenran Jiang:
Prediction of Central Nervous System Side Effects Through Drug Permeability to Blood-Brain Barrier and Recommendation Algorithm. 435-443 - Andrey Minarsky, Nadya Morozova, Robert Penner, Christophe Soulé:
Theory of Morphogenesis. 444-450 - Rodrigo Ligabue-Braun
Everyone Is a Protagonist: Residue Conformational Preferences in High-Resolution Protein Structures. 451-465
Volume 25, Number 5, May 2018
- Chen Sun
AllSome Sequence Bloom Trees. 467-479 - Néli J. Fonseca-Júnior, Marcelo Q. L. Afonso
PFstats: A Network-Based Open Tool for Protein Family Analysis. 480-486 - Qiang-Hui Guo, Jian Wang, Zhao Xu:
Approximation Algorithms for Protein Folding in the Hydrophobic-Polar Model on 3D Hexagonal Prism Lattice. 487-498 - Yang Xu, Xiaochun Luo
PyPathway: Python Package for Biological Network Analysis and Visualization. 499-504 - Miha Moskon, Nikolaj Zimic, Miha Mraz:
Grohar: Automated Visualization of Genome-Scale Metabolic Models and Their Pathways. 505-508 - Shuangyang Wu
REDO: RNA Editing Detection in Plant Organelles Based on Variant Calling Results. 509-516 - Carlos N. Fischer
On the Search for Retrotransposons: Alternative Protocols to Obtain Sequences to Learn Profile Hidden Markov Models. 517-527
Volume 25, Number 6, June 2018
- Yongan Zhao, Xiaofeng Wang, Haixu Tang:
A Secure Alignment Algorithm for Mapping Short Reads to Human Genome. 529-540 - Albert Vexler
To t-Test or Not to t-Test? A p-Values-Based Point of View in the Receiver Operating Characteristic Curve Framework. 541-550 - Lu Zeng, Stephen M. Pederson
Genome-Wide Analysis of the Association of Transposable Elements with Gene Regulation Suggests that Alu Elements Have the Largest Overall Regulatory Impact. 551-562 - Xiaodong Wang, Lei Wang:
A Simple Linear Space Algorithm for Computing Nonoverlapping Inversion and Transposition Distance in Quadratic Average Time. 563-575 - Yan Dong, Hongbao Cao, Zhigang Liang:
A Curated Target Gene Pool Assisting Early Disease Prediction and Patient-Specific Treatment for Small Cell Lung Cancer. 576-585 - Lizhen Liu, Xiaowu Sun
A Method for Predicting Protein Complexes from Dynamic Weighted Protein-Protein Interaction Networks. 586-605 - Chelsea M. Lawhorn, Rachel Schomaker, Jonathan T. Rowell, Olav Rueppell
Simple Comparative Analyses of Differentially Expressed Gene Lists May Overestimate Gene Overlap. 606-612 - Markus Boenn:
ShRangeSim: Simulation of Single Nucleotide Polymorphism Clusters in Next-Generation Sequencing Data. 613-622
Volume 25, Number 7, July 2018
Preface
- S. Cenk Sahinalp:
Preface: Selected Articles from RECOMB 2017. 623
- Ashok Rajaraman, Jian Ma
Toward Recovering Allele-specific Cancer Genome Graphs. 624-636 - Soyeon Ahn, Haris Vikalo
aBayesQR: A Bayesian Method for Reconstruction of Viral Populations Characterized by Low Diversity. 637-648 - Benedict Paten, Jordan M. Eizenga
Superbubbles, Ultrabubbles, and Cacti. 649-663 - David Haussler, Maciej Smuga-Otto, Jordan M. Eizenga
A Flow Procedure for Linearization of Genome Sequence Graphs. 664-676 - Victoria Popic, Volodymyr Kuleshov, Michael P. Snyder, Serafim Batzoglou:
Fast Metagenomic Binning via Hashing and Bayesian Clustering. 677-688 - Simone Zaccaria
Phylogenetic Copy-Number Factorization of Multiple Tumor Samples. 689-708 - Robert Osazuwa Ness, Karen Sachs, Parag Mallick, Olga Vitek:
A Bayesian Active Learning Experimental Design for Inferring Signaling Networks. 709-725 - Adegoke A. Ojewole, Jonathan D. Jou, Vance G. Fowler, Bruce Randall Donald:
BBK* (Branch and Bound Over K*): A Provable and Efficient Ensemble-Based Protein Design Algorithm to Optimize Stability and Binding Affinity Over Large Sequence Spaces. 726-739 - Jesper Jansson
Determining the Consistency of Resolved Triplets and Fan Triplets. 740-754 - Brad Solomon, Carl Kingsford:
Improved Search of Large Transcriptomic Sequencing Databases Using Split Sequence Bloom Trees. 755-765 - Chirag Jain, Alexander T. Dilthey, Sergey Koren, Srinivas Aluru, Adam M. Phillippy
A Fast Approximate Algorithm for Mapping Long Reads to Large Reference Databases. 766-779 - Dan F. DeBlasio
Adaptive Local Realignment of Protein Sequences. 780-793 - Regev Schweiger, Eyal Fisher
Using Stochastic Approximation Techniques to Efficiently Construct Confidence Intervals for Heritability. 794-808 - Xiaoqian Wang, Jingwen Yan, Xiaohui Yao, Sungeun Kim, Kwangsik Nho, Shannon L. Risacher
Longitudinal Genotype-Phenotype Association Study through Temporal Structure Auto-Learning Predictive Model. 809-824 - Guillaume Holley, Roland Wittler, Jens Stoye
Dynamic Alignment-Free and Reference-Free Read Compression. 825-836
Volume 25, Number 8, August 2018
- Miguel A. Vega-Rodríguez
Preface to the Special Issue: Parallel Computing in Computational Biology: A Technological Point of View. 837-840 - Esteban Pérez-Wohlfeil
Precise and Parallel Pairwise Metagenomic Comparisons. 841-849 - Andreia Sofia Teixeira
Large-Scale Simulations of Bacterial Populations Over Complex Networks. 850-861 - Héctor Martínez
FaST-LMM for Two-Way Epistasis Tests on High-Performance Clusters. 862-870 - Marek Nowicki
Massively Parallel Implementation of Sequence Alignment with Basic Local Alignment Search Tool Using Parallel Computing in Java Library. 871-881 - Juan José Escobar
A Power-Performance Perspective to Multiobjective Electroencephalogram Feature Selection on Heterogeneous Parallel Platforms. 882-893 - Jordi Lladós
Scalable Consistency in T-Coffee Through Apache Spark and Cassandra Database. 894-906
- Jian-Xin Wen, Xiaoqin Li, Yu Chang:
Signature Gene Identification of Cancer Occurrence and Pattern Recognition. 907-916 - Elise Rosati, Morgan Madec, Jean-Baptiste Kammerer, Luc Hébrard, Christophe Lallement
Efficient Modeling and Simulation of Space-Dependent Biological Systems. 917-933 - Fengqian Pang, Heng Li, Yonggang Shi, Zhiwen Liu:
Computational Analysis of Cell Dynamics in Videos with Hierarchical-Pooled Deep-Convolutional Features. 934-953 - Tatsuhiko Naito
Human Splice-Site Prediction with Deep Neural Networks. 954-961
Volume 25, Number 9, September 2018
- Jian Zhao, Jiasong Wang, Hongmei Jiang:
Detecting Periodicities in Eukaryotic Genomes by Ramanujan Fourier Transform. 963-975 - Tsukasa Fukunaga
A Novel Method for Assessing the Statistical Significance of RNA-RNA Interactions Between Two Long RNAs. 976-986 - Yoonji Kim, Jaejik Kim:
Estimation of Dynamic Systems for Gene Regulatory Networks from Dependent Time-Course Data. 987-996 - Bandana Kumari
Prediction of Rare Palmitoylation Events in Proteins. 997-1008 - Álvaro Rubio-Largo
A Parallel Multiobjective Metaheuristic for Multiple Sequence Alignment. 1009-1022 - Komlan Atitey, Pavel Loskot, Paul Rees
Determining the Transcription Rates Yielding Steady-State Production of mRNA in the Lac Genetic Switch of Escherichia coli. 1023-1039 - Nicholas B. Larson
Improving Single-Nucleotide Polymorphism-Based Fetal Fraction Estimation of Maternal Plasma Circulating Cell-Free DNA Using Bayesian Hierarchical Models. 1040-1049 - Xinrui Huang
Applying a Modified Wavelet Shrinkage Filter to Improve Cryo-Electron Microscopy Imaging. 1050-1058 - Joonyeon Park, Myeongji Cho, Hyeon S. Son:
Simulation Model of Bacterial Resistance to Antibiotics Using Individual-Based Modeling. 1059-1070
Volume 25, Number 10, October 2018
- Yu Bao, Morihiro Hayashida, Pengyu Liu
Analysis of Critical and Redundant Vertices in Controlling Directed Complex Networks Using Feedback Vertex Sets. 1071-1090 - Stefano Beretta, Mauro Castelli
Improving eQTL Analysis Using a Machine Learning Approach for Data Integration: A Logistic Model Tree Solution. 1091-1105 - Marek Palkowski
Parallel Tiled Codes Implementing the Smith-Waterman Alignment Algorithm for Two and Three Sequences. 1106-1119 - Irfan Kösesoy, Murat Gök
PROSES: A Web Server for Sequence-Based Protein Encoding. 1120-1122 - Shisheng Wang, Wen Zheng, Liqiang Hu, Meng Gong, Hao Yang
MixProTool: A Powerful and Comprehensive Web Tool for Analyzing and Visualizing Multigroup Proteomics Data. 1123-1127 - Jie Chen
Detection of Copy Number Variation Regions Using the DNA-Sequencing Data from Multiple Profiles with Correlated Structure. 1128-1140 - Jan Voges, Ali Fotouhi, Jörn Ostermann, Muhammed Oguzhan Külekci
A Two-Level Scheme for Quality Score Compression. 1141-1151 - Qie Liu, Min Liu, Wenfa Wu:
Strong/Weak Feature Recognition of Promoters Based on Position Weight Matrix and Ensemble Set-Valued Models. 1152-1160 - Xuedong Wang, Wenhui Shang, Yu Chang, Xiaoqin Li:
Methylation Signature Genes Identification of the Lung Squamous Cell Carcinoma Occurrence and Recognition Research. 1161-1169
Volume 25, Number 11, November 2018
- Yaron Orenstein
Joker de Bruijn: Covering k-Mers Using Joker Characters. 1171-1178 - Christopher L. Barrett, Qijun He
An Efficient Dual Sampling Algorithm with Hamming Distance Filtration. 1179-1192 - Xinrui Zhou, Amihood Amir, Concettina Guerra, Gad M. Landau, Jarek Rossignac:
EDoP Distance Between Sets of Incomplete Permutations: Application to Bacteria Classification Based on Gene Order. 1193-1202 - Nikita Alexeev
Combinatorial Scoring of Phylogenetic Trees and Networks Based on Homoplasy-Free Characters. 1203-1219 - Theodore Alexandrov, Nina Golyandina
Two-Exponential Models of Gene Expression Patterns for Noisy Experimental Data. 1220-1230 - Siamak K. Sorooshyari
Probabilistic Modeling of Pseudorabies Virus Infection in a Neural Circuit. 1231-1246 - Ali Yousefian Jazi
Sequential Integration of Fuzzy Clustering and Expectation Maximization for Transcription Factor Binding Site Identification. 1247-1256 - Tiago Tambonis, Marcelo Boareto, Vitor B. P. Leite:
Differential Expression Analysis in RNA-seq Data Using a Geometric Approach. 1257-1265 - Hui Yang, Hao Lv
iRNA-2OM: A Sequence-Based Predictor for Identifying 2′-O-Methylation Sites in Homo sapiens. 1266-1277 - Dinko Osmankovic, Semir Doric, Naris Pojskic
New Approach to Detect Coiled Coil and Leucine Zipper Motifs in Protein Sequences. 1278-1283
Volume 25, Number 12, December 2018
- Jose M. J. Costa, Helcio R. B. Orlande
Simultaneous Model Selection and Model Calibration for the Proliferation of Tumor and Normal Cells During In Vitro Chemotherapy Experiments. 1285-1300 - Vijaya Raghavan Rangamaran
EasyQC: Tool with Interactive User Interface for Efficient Next-Generation Sequencing Data Quality Control. 1301-1311 - Xiaoping Yan, Yu Huang
Identify Cross Talk Between Circadian Rhythm and Coronary Heart Disease by Multiple Correlation Analysis. 1312-1327 - Caio R. N. Santiago, Vivian M. Y. Pereira, Luciano A. Digiampietri
Homology Detection Using Multilayer Maximum Clustering Coefficient. 1328-1338 - Matthias Werner
Large-Deviation Properties of Sequence Alignment of Correlated Sequences. 1339-1346 - Hsin-Yao Wang
Machine Learning-Based Method for Obesity Risk Evaluation Using Single-Nucleotide Polymorphisms Derived from Next-Generation Sequencing. 1347-1360 - Ming Yang, Louis Z. Yang:
Determining a Reasonable Range of Relative Numerical Tolerance Values for Simulating Deterministic Models of Biochemical Reactions. 1361-1364 - Snehalika Lall
Structure-Aware Principal Component Analysis for Single-Cell RNA-seq Data. 1365-1373 - Jeonifer M. Garren, Jaejik Kim:
Bootstrapping Time-Course Gene Expression Data for Gene Networks: Application to Gene Relevance Networks. 1374-1384 - Yue Liu, Shu-Lin Wang, Jun-Feng Zhang:
Prediction of Microbe-Disease Associations by Graph Regularized Non-Negative Matrix Factorization. 1385-1394
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
last updated on 2024-12-16 22:17 CET by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated and maintained by:
the dblp computer science bibliography is funded and supported by: