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Bioinformatics

Range of open access peer reviewed Bioinformatics journals & associated research articles. Read full text articles or submit your research for publishing


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Results 250-300 of 790 for Bioinformatics

Prediction of Protein Essentiality by the Support Vector Machine with Statistical Tests
Chiou-Yi Hor, Chang-Biau Yang, Zih-Jie Yang and Chiou-Ting Tseng
Evolutionary Bioinformatics 2013:9 387-416
Original Research | Published on 03 Oct 2013



Monitoring of Technical Variation in Quantitative High-Throughput Datasets
Martin Lauss, Ilhami Visne, Albert Kriegner, Markus Ringnér, Göran Jönsson and Mattias Höglund
Cancer Informatics 2013:12 193-201
Original Research | Published on 23 Sep 2013



Identification, Nomenclature, and Evolutionary Relationships of Mitogen-Activated Protein Kinase (MAPK) Genes in Soybean
Achal Neupane, Madhav P. Nepal, Sarbottam Piya, Senthil Subramanian, Jai S. Rohila, R. Neil Reese and Benjamin V. Benson
Evolutionary Bioinformatics 2013:9 363-386
Original Research | Published on 22 Sep 2013



Molecular Insights on Post-chemotherapy Retinoblastoma by Microarray Gene Expression Analysis
Venkatesan Nalini, Ramya Segu, Perinkulam Ravi Deepa, Vikas Khetan, Madavan Vasudevan and Subramanian Krishnakumar
Bioinformatics and Biology Insights 2013:7 289-306
Original Research | Published on 18 Sep 2013



POPBAM: Tools for Evolutionary Analysis of Short Read Sequence Alignments
Daniel Garrigan
Evolutionary Bioinformatics 2013:9 343-353
Technical Advance | Published on 01 Sep 2013



SBEToolbox: A Matlab Toolbox for Biological Network Analysis
Kranti Konganti, Gang Wang, Ence Yang and James J. Cai
Evolutionary Bioinformatics 2013:9 355-362
Software or database review | Published on 01 Sep 2013



Comprehensive Assessment and Network Analysis of the Emerging Genetic Susceptibility Landscape of Prostate Cancer
Chindo Hicks, Lucio Miele, Tejaswi Koganti and Srinivasan Vijayakumar
Cancer Informatics 2013:12 175-191
Original Research | Published on 28 Aug 2013



Molecular Modeling of Differentially Phosphorylated Serine 10 and Acetylated lysine 9/14 of Histone H3 Regulates their Interactions with 14-3-3ζ, MSK1, and MKP1
Ajit K. Sharma, Abhilasha Mansukh, Ashok Varma, Nikhil Gadewal, and Sanjay Gupta
Bioinformatics and Biology Insights 2013:7 271-288
Original Research | Published on 26 Aug 2013



Analysis of Protein Thermostability Enhancing Factors in Industrially Important Thermus Bacteria Species
Benjamin Kumwenda, Derek Litthauer, Özlem Tastan Bishop, and Oleg Reva
Evolutionary Bioinformatics 2013:9 327-342
Original Research | Published on 18 Aug 2013



Conventional Simulation of Biological Sequences Leads to a Biased Assessment of Multi-Loci Phylogenetic Analysis
Barbara O. Aguiar and Carlos G. Schrago
Evolutionary Bioinformatics 2013:9 317-325
Original Research | Published on 13 Aug 2013



Improved Sparse Multi-Class SVM and Its Application for Gene Selection in Cancer Classification
Lingkang Huang, Hao Helen Zhang, Zhao-Bang Zeng and Pierre R. Bushel
Cancer Informatics 2013:12 143-153
Original Research | Published on 04 Aug 2013



Bioinformatics Analysis of Transcriptome Dynamics During Growth in Angus Cattle Longissimus Muscle
Sonia J. Moisá, Daniel W. Shike, Daniel E. Graugnard, Sandra L. Rodriguez-Zas, Robin E. Everts, Harris A. Lewin, Dan B. Faulkner, Larry L. Berger and Juan J. Loor
Bioinformatics and Biology Insights 2013:7 253-270
Original Research | Published on 04 Aug 2013



Combining an Expert-Based Medical Entity Recognizer to a Machine-Learning System: Methods and a Case Study
Pierre Zweigenbaum, Thomas Lavergne, Natalia Grabar, Thierry Hamon, Sophie Rosset and Cyril Grouin
Biomedical Informatics Insights 2013:6 Suppl. 1 51-62
Original Research | Published on 01 Aug 2013



Evolutionary Modeling of Genotype-Phenotype Associations, and Application to Primate Coding and Non-coding mtDNA Rate Variation
Timothy D. O'Connor and Nicholas I. Mundy
Evolutionary Bioinformatics 2013:9 301-316
Original Research | Published on 28 Jul 2013



Identification of Differentially Evolved Genes: An Alternative Approach to Detection of Accelerated Molecular Evolution from Genome-Wide Comparative Data
Kyu-Won Kim, David W. Burt, Heebal Kim and Seoae Cho
Evolutionary Bioinformatics 2013:9 285-299
Methodology | Published on 28 Jul 2013



Systematic Verification of Upstream Regulators of a Computable Cellular Proliferation Network Model on Non-Diseased Lung Cells Using a Dedicated Dataset
Vincenzo Belcastro, Carine Poussin, Stephan Gebel, Carole Mathis, Walter K. Schlage, Rosemarie B. Lichtner, Sibille Quadt-Humme, Sandra Wagner, Julia Hoeng and Manuel C. Peitsch
Bioinformatics and Biology Insights 2013:7 217-230
Original Research | Published on 23 Jul 2013



Text Categorization of Heart, Lung, and Blood Studies in the Database of Genotypes and Phenotypes (dbGaP) Utilizing n-grams and Metadata Features
Mindy K. Ross, Ko-Wei Lin, Karen Truong, Abhishek Kumar and Mike Conway
Biomedical Informatics Insights 2013:6 35-45
Original Research | Published on 22 Jul 2013



Using Conversation Topics for Predicting Therapy Outcomes in Schizophrenia
Christine Howes, Matthew Purver and Rose McCabe
Biomedical Informatics Insights 2013:Suppl. 1 39-50
Original Research | Published on 15 Jul 2013



Conserved Nonsense-Prone CpG Sites in Apoptosis-Regulatory Genes: Conditional Stop Signs on the Road to Cell Death
Yongzhong Zhao and Richard J. Epstein
Evolutionary Bioinformatics 2013:9 275-283
Original Research | Published on 14 Jul 2013



Bioinformatics and Gene Network Analyses of the Swine Mammary Gland Transcriptome during Late Gestation
Wangsheng Zhao, Khuram Shahzad, Mingfeng Jiang, Daniel E. Graugnard, Sandra L. Rodriguez-Zas, Jun Luo, Juan J. Loor and Walter L. Hurley
Bioinformatics and Biology Insights 2013:7 193-216
Original Research | Published on 14 Jul 2013



SARP: A Novel Algorithm to Assess Compositional Biases in Protein Sequences
Kirill S. Antonets and Anton A. Nizhnikov
Evolutionary Bioinformatics 2013:9 263-273
Rapid Communication | Published on 11 Jul 2013



Effective Encoding for DNA Sequence Visualization Based on Nucleotide’s Ring Structure
A.T.M. Golam Bari, Mst. Rokeya Reaz, A.K.M. Tauhidul Islam, Ho-Jin Choi and Byeong-Soo Jeong
Evolutionary Bioinformatics 2013:9 251-261
Original Research | Published on 07 Jul 2013



Molecular Evolution and Functional Divergence of Soluble Starch Synthase Genes in Cassava (Manihot Esculenta Crantz)
Zefeng Yang, Yifan Wang, Shuhui Xu, Chenwu Xu and Changjie Yan
Evolutionary Bioinformatics 2013:9 239-249
Original Research | Published on 03 Jul 2013



Computational Semantics in Clinical Text Supplement
John P. Pestian, Ph.D
Biomedical Informatics Insights 2013:6 (Suppl. 1) 1-2
Editorial | Published on 24 Jun 2013



Computational Semantics in Clinical Text
Stephen Wu
Biomedical Informatics Insights 2013:Suppl. 1 3-5
Editorial | Published on 24 Jun 2013 | Video abstract



Analysis of Cross-Institutional Medication Description Patterns in Clinical Narratives
Sunghwan Sohn, Cheryl Clark, Scott R. Halgrim, Sean P. Murphy, Siddhartha R. Jonnalagadda, Kavishwar B. Wagholikar, Stephen T. Wu, Christopher G. Chute and Hongfang Liu
Biomedical Informatics Insights 2013:Suppl. 1 7-16
Original Research | Published on 24 Jun 2013



Using Empirically Constructed Lexical Resources for Named Entity Recognition
Siddhartha Jonnalagadda, Trevor Cohen, Stephen Wu, Hongfang Liu and Graciela Gonzalez
Biomedical Informatics Insights 2013:Suppl. 1 17-27
Original Research | Published on 24 Jun 2013



Towards Converting Clinical Phrases into SNOMED CT Expressions
Rohit J. Kate
Biomedical Informatics Insights 2013:Suppl. 1 29-37
Original Research | Published on 24 Jun 2013



A Modular Cell-Type Focused Inflammatory Process Network Model for Non-Diseased Pulmonary Tissue
Jurjen W. Westra, Walter K. Schlage, Arnd Hengstermann, Stephan Gebel, Carole Mathis, Ty Thomson, Ben Wong, Vy Hoang, Emilija Veljkovic, Michael Peck, Rosemarie B. Lichtner, Dirk Weisensee, Marja Talikka, Renee Deehan, Julia Hoeng and Manuel C. Peitsch
Bioinformatics and Biology Insights 2013:7 167-192
Original Research | Published on 20 Jun 2013



rbrothers: R Package for Bayesian Multiple Change-Point Recombination Detection
Jan Irvahn, Sujay Chattopadhyay, Evgeni V. Sokurenko and Vladimir N. Minin
Evolutionary Bioinformatics 2013:9 235-238
Rapid Communication | Published on 12 Jun 2013



Comment on “The Molecular Evolutionary Patterns of the Insulin/FOXO Signaling Pathway”
David Alvarez-Ponce, Montserrat Aguadé and Julio Rozas
Evolutionary Bioinformatics 2013:9 229-234
Letter to Editor | Published on 10 Jun 2013



The Aquaporin Channel Repertoire of the Tardigrade Milnesium tardigradum
Markus A. Grohme, Brahim Mali, Weronika Welnicz, Stephanie Michel, Ralph O. Schill and Marcus Frohme
Bioinformatics and Biology Insights 2013:7 153-165
Original Research | Published on 26 May 2013



Analysis of Synonymous Codon Usage Patterns in Seven Different Citrus Species
Chen Xu, Jing Dong, Chunfa Tong, Xindong Gong, Qiang Wen and Qiang Zhuge
Evolutionary Bioinformatics 2013:9 215-228
Original Research | Published on 23 May 2013



Antiviral Stratagems Against HIV-1 Using RNA Interference (RNAi) Technology
Dimitrios Vlachakis, Georgia Tsiliki, Athanasia Pavlopoulou, Maria G. Roubelakis, Spyridon Champeris Tsaniras and Sophia Kossida
Evolutionary Bioinformatics 2013:9 203-213
Review | Published on 16 May 2013



Dealing with Diversity in Computational Cancer Modeling
David Johnson, Steve McKeever, Georgios Stamatakos, Dimitra Dionysiou, Norbert Graf, Vangelis Sakkalis, Konstantinos Marias, Zhihui Wang and Thomas S. Deisboeck
Cancer Informatics 2013:12 115-124
Commentary | Published on 07 May 2013



Top-Down Clustering for Protein Subfamily Identification
Eduardo P. Costa, Celine Vens and Hendrik Blockeel
Evolutionary Bioinformatics 2013:9 185-202
Original Research | Published on 06 May 2013



Using n-Grams for Syndromic Surveillance in a Turkish Emergency Department Without English Translation: A Feasibility Study
Sylvia Halász, Philip Brown, Cem Oktay, Arif Alper Çevik, Isa Kiliçaslan, Colin Goodall, Dennis G Cochrane, Thomas R Fowler, Guy Jacobson, Simon Tse and John R Allegra
Biomedical Informatics Insights 2013:6 29-33
Original Research | Published on 25 Apr 2013



The Use of Metagenomic Approaches to Analyze Changes in Microbial Communities
Girish Neelakanta and Hameeda Sultana
Microbiology Insights 2013:6 37-48
Review | Published on 16 Apr 2013



A Tool Preference Choice Method for RNA Secondary Structure Prediction by SVM with Statistical Tests
Chiou-Yi Hor, Chang-Biau Yang, Chia-Hung Chang, Chiou-Ting Tseng and Hung-Hsin Chen
Evolutionary Bioinformatics 2013:9 163-184
Original Research | Published on 14 Apr 2013



Circulation of Human Respiratory Syncytial Virus Strains Among Hospitalized Children with Acute Lower Respiratory Infection in Malaysia
Mohammad Reza Etemadi, Zamberi Sekawi, Norlijah Othman, Munn-Sann Lye and Faezeh Yazdani Moghaddam
Evolutionary Bioinformatics 2013:9 151-161
Original Research | Published on 10 Apr 2013



miR-Explore: Predicting MicroRNA Precursors by Class Grouping and Secondary Structure Positional Alignment
Bram Sebastian and Samuel E. Aggrey
Bioinformatics and Biology Insights 2013:7 133-142
Original Research | Published on 02 Apr 2013



Recognizing Scientific Artifacts in Biomedical Literature
Tudor Groza, Hamed Hassanzadeh and Jane Hunter
Biomedical Informatics Insights 2013:6 15-27
Original Research | Published on 02 Apr 2013



Knowledge Discovery in Variant Databases Using Inductive Logic Programming
Hoan Nguyen, Tien-Dao Luu, Olivier Poch and Julie D. Thompson
Bioinformatics and Biology Insights 2013:7 119-131
Original Research | Published on 18 Mar 2013



Design of Synthetic Genetic Oscillators Using Evolutionary Optimization
Yen-Chang Chang, Chun-Liang Lin and Tanagorn Jennawasin
Evolutionary Bioinformatics 2013:9 137-150
Methodology | Published on 10 Mar 2013



EDGE-pro: Estimated Degree of Gene Expression in Prokaryotic Genomes
Tanja Magoc, Derrick Wood and Steven L. Salzberg,
Evolutionary Bioinformatics 2013:9 127-136
Technical Advance | Published on 10 Mar 2013



Construction of a Computable Network Model for DNA Damage, Autophagy, Cell Death, and Senescence
Stephan Gebel, Rosemarie B. Lichtner, Brian Frushour, Walter K. Schlage, Vy Hoang, Marja Talikka, Arnd Hengstermann, Carole Mathis, Emilija Veljkovic, Michael Peck, Manuel C. Peitsch, Renee Deehan, Julia Hoeng and Jurjen W. Westra
Bioinformatics and Biology Insights 2013:7 97-117
Original Research | Published on 07 Mar 2013



Computational Small RNA Prediction in Bacteria
Jayavel Sridhar and Paramasamy Gunasekaran
Bioinformatics and Biology Insights 2013:7 83-95
Review | Published on 07 Mar 2013



CMCpy: Genetic Code-Message Coevolution Models in Python
Peter J. Becich, Brian P. Stark, Harish S. Bhat and David H. Ardell
Evolutionary Bioinformatics 2013:9 111-125
Technical Advance | Published on 27 Feb 2013



Integrative Approach for Computationally Inferring Interactions between the Alpha and Beta Subunits of the Calcium-Activated Potassium Channel (BK): a Docking Study
Janneth González, Angela Gálvez, Ludis Morales, George E. Barreto, Francisco Capani, Omar Sierra and Yolima Torres
Bioinformatics and Biology Insights 2013:7 73-82
Original Research | Published on 27 Feb 2013



A Unifying Mathematical Framework for Genetic Robustness, Environmental Robustness, Network Robustness and their Trade-off on Phenotype Robustness in Biological Networks Part I: Gene Regulatory Networks in Systems and Evolutionary Biology
Bor-Sen Chen and Ying-Po Lin
Evolutionary Bioinformatics 2013:9 43-68
Original Research | Published on 26 Feb 2013




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