BMC Bioinformatics
Proceedings of the 13th Annual MCBIOS conference
Proceedings
Publication of this supplement has not been supported by sponsorship. Information about the source of funding for publication charges can be found in the individual articles. The articles have undergone the journal's standard peer review process for supplements. The Supplement Editors declare that they have no competing interests.
Memphis, TN, USA
3-5 May 2016
Edited by Jonathan Wren, Inimary Toby, Huziao Hong, Bindu Nanduri, Rakesh Kaundal, Mikhail G Dozmorov and Shradda Thakkar.
- INTRODUCTIONBMC Bioinformatics 2016 17(Suppl 13):356Published on: 6 October 2016
- PROCEEDINGS
VDJML: a file format with tools for capturing the results of inferring immune receptor rearrangements
The genes that produce antibodies and the immune receptors expressed on lymphocytes are not germline encoded; rather, they are somatically generated in each developing lymphocyte by a process called V(D)J reco...BMC Bioinformatics 2016 17(Suppl 13):333Published on: 6 October 2016 - PROCEEDINGS
Effective comparative analysis of protein-protein interaction networks by measuring the steady-state network flow using a Markov model
Comparative analysis of protein-protein interaction (PPI) networks provides an effective means of detecting conserved functional network modules across different species. Such modules typically consist of orth...BMC Bioinformatics 2016 17(Suppl 13):395Published on: 6 October 2016 - PROCEEDINGS
Analysis of optimal alignments unfolds aligners’ bias in existing variant profiles
Efforts such as International HapMap Project and 1000 Genomes Project resulted in a catalog of millions of single nucleotides and insertion/deletion (INDEL) variants of the human population. Viewed as a refere...BMC Bioinformatics 2016 17(Suppl 13):349Published on: 6 October 2016 - RESEARCH
CC-PROMISE effectively integrates two forms of molecular data with multiple biologically related endpoints
As new technologies allow investigators to collect multiple forms of molecular data (genomic, epigenomic, transcriptomic, etc) and multiple endpoints on a clinical trial cohort, it will become necessary to eff...BMC Bioinformatics 2016 17(Suppl 13):382Published on: 6 October 2016 - PROCEEDINGS
Successful classification of cocaine dependence using brain imaging: a generalizable machine learning approach
Neuroimaging studies have yielded significant advances in the understanding of neural processes relevant to the development and persistence of addiction. However, these advances have not explored extensively f...BMC Bioinformatics 2016 17(Suppl 13):357Published on: 6 October 2016 - PROCEEDINGS
Dissecting the biological relationship between TCGA miRNA and mRNA sequencing data using MMiRNA-Viewer
MicroRNAs (miRNA) are short nucleotides that interact with their target genes through 3′ untranslated regions (UTRs). The Cancer Genome Atlas (TCGA) harbors an increasing amount of cancer genome data for both ...BMC Bioinformatics 2016 17(Suppl 13):336Published on: 6 October 2016 - PROCEEDINGS
Leveraging graph topology and semantic context for pharmacovigilance through twitter-streams
Adverse drug events (ADEs) constitute one of the leading causes of post-therapeutic death and their identification constitutes an important challenge of modern precision medicine. Unfortunately, the onset and ...BMC Bioinformatics 2016 17(Suppl 13):335Published on: 6 October 2016 - PROCEEDINGS
Abrupt skin lesion border cutoff measurement for malignancy detection in dermoscopy images
Automated skin lesion border examination and analysis techniques have become an important field of research for distinguishing malignant pigmented lesions from benign lesions. An abrupt pigment pattern cutoff ...BMC Bioinformatics 2016 17(Suppl 13):367Published on: 6 October 2016 - PROCEEDINGS
Phylogenetic tree construction using trinucleotide usage profile (TUP)
It has been a challenging task to build a genome-wide phylogenetic tree for a large group of species containing a large number of genes with long nucleotides sequences. The most popular method, called feature ...BMC Bioinformatics 2016 17(Suppl 13):381Published on: 6 October 2016 - PROCEEDINGS
Prioritization, clustering and functional annotation of MicroRNAs using latent semantic indexing of MEDLINE abstracts
The amount of scientific information about MicroRNAs (miRNAs) is growing exponentially, making it difficult for researchers to interpret experimental results. In this study, we present an automated text mining...BMC Bioinformatics 2016 17(Suppl 13):350Published on: 6 October 2016 - PROCEEDINGS
Incorporating topological information for predicting robust cancer subnetwork markers in human protein-protein interaction network
Discovering robust markers for cancer prognosis based on gene expression data is an important yet challenging problem in translational bioinformatics. By integrating additional information in biological pathwa...BMC Bioinformatics 2016 17(Suppl 13):351Published on: 6 October 2016 - PROCEEDINGS
Application of dynamic topic models to toxicogenomics data
All biological processes are inherently dynamic. Biological systems evolve transiently or sustainably according to sequential time points after perturbation by environment insults, drugs and chemicals. Investi...BMC Bioinformatics 2016 17(Suppl 13):368Published on: 6 October 2016 - PROCEEDINGS
Improving sensitivity of linear regression-based cell type-specific differential expression deconvolution with per-gene vs. global significance threshold
The goal of many human disease-oriented studies is to detect molecular mechanisms different between healthy controls and patients. Yet, commonly used gene expression measurements from blood samples suffer from...BMC Bioinformatics 2016 17(Suppl 13):334Published on: 6 October 2016 - PROCEEDINGS
PGen: large-scale genomic variations analysis workflow and browser in SoyKB
With the advances in next-generation sequencing (NGS) technology and significant reductions in sequencing costs, it is now possible to sequence large collections of germplasm in crops for detecting genome-scal...BMC Bioinformatics 2016 17(Suppl 13):337Published on: 6 October 2016
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