IEEE/ACM transactions on computational biology and bioinformatics
Jan 1, 2016
Many single nucleotide polymorphisms (SNPs) for complex genetic diseases are genotyped by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) in small-scale basic research studies. It is an essential work to design feasible ...
IEEE/ACM transactions on computational biology and bioinformatics
Jan 1, 2016
In recent years, thanks to the efforts of individual scientists and research consortiums, a huge amount of chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) experimental data have been accumulated. Instead of investigati...
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
Jan 1, 2016
To support people trying to lose weight and stay healthy, more and more fitness apps have sprung up including the ability to track both calories intake and expenditure. Users of such apps are part of a wider "quantified self" movement and many opt-in...
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
Jan 1, 2016
We have previously developed a statistical method to identify gene sets enriched with condition-specific genetic dependencies. The method constructs gene dependency networks from bootstrapped samples in one condition and computes the divergence betwe...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2016
The use of controlled, structured vocabularies (ontologies) has become a critical tool for scientists in the post-genomic era of massive datasets. Adoption and integration of common vocabularies and annotation practices enables cross-species comparat...
Advances in experimental medicine and biology
Jan 1, 2016
High content analysis (HCA) has become a leading methodology in phenotypic drug discovery efforts. Typical HCA workflows include imaging cells using an automated microscope and analyzing the data using algorithms designed to quantify one or more spec...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2016
Cellular phenotypes result from the combined effect of multiple genes, and high-throughput techniques such as DNA microarrays and deep sequencing allow monitoring this genomic complexity. The large scale of the resulting data, however, creates challe...
Systems-biology inspired identification of drug targets and machine learning-based screening of small molecules which modulate their activity have the potential to revolutionize modern drug discovery by complementing conventional methods. To utilize ...
The wide sharing of biological data, especially nucleotide sequences, is now considered to be a key feature of genomics. Historians and sociologists have attempted to account for the rise of this sharing by pointing to precedents in model organism co...
Use of computational methods to predict gene regulatory networks (GRNs) from gene expression data is a challenging task. Many studies have been conducted using unsupervised methods to fulfill the task; however, such methods usually yield low predicti...
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