Tag Archives: algorithms

Gene set enrichment analysis is a popular approach for prioritising the biological processes perturbed in genomic datasets. The Bioconductor project hosts over 80 software packages capable of gene set...

BD (Becton, Dickinson and Company) (Menlo Park, CA) Description: Cellular Research, Inc., a biotechnology research and development company founded in 2011 by innovators from Silicon Valley and Stanford University, was recently acquired by Becton Dickinson and has become an integral ...

Sequencing is widely used to discover associations between microRNAs (miRNAs) and diseases. However, the negative binomial distribution (NB) and high dimensionality of data obtained using sequencing can lead to low-power results and low reproducibility. Several statistical learning algorithms have been ...

Nowadays, knowledge extraction methods from Next Generation Sequencing data are highly requested. In this work, researchers at the National Research Council, Italy focus on RNA-seq gene expression analysis and specifically on case-control studies with rule-based supervised classification algorithms that build ...

Alternative splicing (AS) is a post-transcriptional regulatory mechanism for gene expression regulation. Splicing decisions are affected by the combinatorial behavior of different splicing factors that bind to multiple binding sites in exons and introns. These binding sites are called splicing ...

RNA-seq is a key technology for understanding the biology of the cell because of its ability to profile transcriptional and post-transcriptional regulation at single nucleotide resolutions. Compared to DNA sequencing alignment algorithms, RNA-seq alignment algorithms have a diminished ability to ...

The discrete data structure and large sequencing depth of RNA sequencing (RNA-seq) experiments can often generate outlier read counts in one or more RNA samples within a homogeneous group. Thus, how to identify and manage outlier observations in RNA-seq data ...

Rapidly growing public gene expression databases contain a wealth of data for building an unprecedentedly detailed picture of human biology and disease. This data comes from many diverse measurement platforms that make integrating it all difficult. Although RNA-sequencing (RNA-seq) is ...

Institution – University of Massachusetts Medical School Web Address – http://www.umassmed.edu Location – Worcester Responsibilities – A postdoctoral associate position is available in Dr. Konstantin Zeldovich-s laboratory in the Program in Bioinformatics and Integrative Biology. The postdoctoral associate will work ...

Analysis of differential gene expression by RNA sequencing (RNA-Seq) is frequently done using feature counts, i.e. the number of reads mapping to a gene. However, commonly used count algorithms (e.g. HTSeq) do not address the problem of reads aligning with ...