Building a glaucoma interaction network using a text mining approach
The volume of biomedical literature and its underlying knowledge base is rapidly expanding, making it beyond the ability of a single human being to read through all the literature. Several automated methods ha... (Source: BioData Mining)
Source: BioData Mining - May 5, 2016 Category: Bioinformatics Authors: Maha Soliman, Olfa Nasraoui and Nigel G. F. Cooper Source Type: research
Visual programming for next-generation sequencing data analytics
High-throughput or next-generation sequencing (NGS) technologies have become an established and affordable experimental framework in biological and medical sciences for all basic and translational research. Pr... (Source: BioData Mining)
Source: BioData Mining - April 27, 2016 Category: Bioinformatics Authors: Franco Milicchio, Rebecca Rose, Jiang Bian, Jae Min and Mattia Prosperi Source Type: research
The golden era of biomedical informatics has begun
Biomedical informatics has become a central focus for many academic medical centers and universities as biomedical research because increasingly reliant on the processing, analysis, and interpretation of large... (Source: BioData Mining)
Source: BioData Mining - April 11, 2016 Category: Bioinformatics Authors: Jason H. Moore and John H. Holmes Source Type: research
Detecting gene-gene interactions using a permutation-based random forest method
Identifying gene-gene interactions is essential to understand disease susceptibility and to detect genetic architectures underlying complex diseases. Here, we aimed at developing a permutation-based methodolog... (Source: BioData Mining)
Source: BioData Mining - April 6, 2016 Category: Bioinformatics Authors: Jing Li, James D. Malley, Angeline S. Andrew, Margaret R. Karagas and Jason H. Moore Source Type: research
Distinguishing highly similar gene isoforms with a clustering-based bioinformatics analysis of PacBio single-molecule long reads
Gene isoforms are commonly found in both prokaryotes and eukaryotes. Since each isoform may perform a specific function in response to changing environmental conditions, studying the dynamics of gene isoforms ... (Source: BioData Mining)
Source: BioData Mining - April 5, 2016 Category: Bioinformatics Authors: Ma Liang, Castle Raley, Xin Zheng, Geetha Kutty, Emile Gogineni, Brad T. Sherman, Qiang Sun, Xiongfong Chen, Thomas Skelly, Kristine Jones, Robert Stephens, Bin Zhou, William Lau, Calvin Johnson, Tomozumi Imamichi, Minkang Jiang… Source Type: research
Evolutionary triangulation: informing genetic association studies with evolutionary evidence
Genetic studies of human diseases have identified many variants associated with pathogenesis and severity. However, most studies have used only statistical association to assess putative relationships to disea... (Source: BioData Mining)
Source: BioData Mining - April 2, 2016 Category: Bioinformatics Authors: Minjun Huang, Britney E. Graham, Ge Zhang, Reed Harder, Nuri Kodaman, Jason H. Moore, Louis Muglia and Scott M. Williams Source Type: research
Robust normalization protocols for multiplexed fluorescence bioimage analysis
study of mapping and interaction of co-localized proteins at a sub-cellular level is important for understanding complex biological phenomena. One of the recent techniques to map co-localized proteins is to us... (Source: BioData Mining)
Source: BioData Mining - March 5, 2016 Category: Bioinformatics Authors: Shan E Ahmed Raza, Daniel Langenkämper, Korsuk Sirinukunwattana, David Epstein, Tim W. Nattkemper and Nasir M. Rajpoot Source Type: research
Exploiting HIV-1 protease and reverse transcriptase cross-resistance information for improved drug resistance prediction by means of multi-label classification
Antiretroviral therapy is essential for human immunodeficiency virus (HIV) infected patients to inhibit viral replication and therewith to slow progression of disease and prolong a patient’s life. However, the... (Source: BioData Mining)
Source: BioData Mining - February 29, 2016 Category: Bioinformatics Authors: Mona Riemenschneider, Robin Senge, Ursula Neumann, Eyke Hüllermeier and Dominik Heider Source Type: research
Erratum to: Evolving hard problems: generating human genetics datasets with a complex etiology
(Source: BioData Mining)
Source: BioData Mining - February 3, 2016 Category: Bioinformatics Authors: Daniel S. Himmelstein, Casey S. Greene and Jason H. Moore Source Type: research
Erratum to: BioDB extractor: customized data extraction system for commonly used bioinformatics databases
(Source: BioData Mining)
Source: BioData Mining - February 2, 2016 Category: Bioinformatics Authors: Rajiv Karbhal, Sangeeta Sawant and Urmila Kulkarni-Kale Source Type: research
r2VIM: A new variable selection method for random forests in genome-wide association studies
Machine learning methods and in particular random forests (RFs) are a promising alternative to standard single SNP analyses in genome-wide association studies (GWAS). RFs provide variable importance measures (... (Source: BioData Mining)
Source: BioData Mining - February 1, 2016 Category: Bioinformatics Authors: Silke Szymczak, Emily Holzinger, Abhijit Dasgupta, James D. Malley, Anne M. Molloy, James L. Mills, Lawrence C. Brody, Dwight Stambolian and Joan E. Bailey-Wilson Source Type: research
The prediction accuracy of dynamic mixed-effects models in clustered data
Clinical prediction models often fail to generalize in the context of clustered data, because most models fail to account for heterogeneity in outcome values and covariate effects across clusters. Furthermore,... (Source: BioData Mining)
Source: BioData Mining - January 27, 2016 Category: Bioinformatics Authors: Brian S. Finkelman, Benjamin French and Stephen E. Kimmel Source Type: research
SequenceCEROSENE: a computational method and web server to visualize spatial residue neighborhoods at the sequence level
To understand the molecular function of biopolymers, studying their structural characteristics is of central importance. Graphics programs are often utilized to conceive these properties, but with the increasi... (Source: BioData Mining)
Source: BioData Mining - January 27, 2016 Category: Bioinformatics Authors: Florian Heinke, Sebastian Bittrich, Florian Kaiser and Dirk Labudde Source Type: research
Prediction of donor splice sites using random forest with a new sequence encoding approach
Detection of splice sites plays a key role for predicting the gene structure and thus development of efficient analytical methods for splice site prediction is vital. This paper presents a novel sequence encod... (Source: BioData Mining)
Source: BioData Mining - January 22, 2016 Category: Bioinformatics Authors: Prabina Kumar Meher, Tanmaya Kumar Sahu and Atmakuri Ramakrishna Rao Source Type: research
Network-based analysis of genetic variants associated with hippocampal volume in Alzheimer’s disease: a study of ADNI cohorts
Alzheimer’s disease (AD) is a neurodegenerative disease that causes dementia. While molecular basis of AD is not fully understood, genetic factors are expected to participate in the development and progression... (Source: BioData Mining)
Source: BioData Mining - January 19, 2016 Category: Bioinformatics Authors: Ailin Song, Jingwen Yan, Sungeun Kim, Shannon Leigh Risacher, Aaron K. Wong, Andrew J. Saykin, Li Shen and Casey S. Greene Source Type: research
