High-throughput RNA sequencing (RNA-seq) promises a comprehensive picture of the
transcriptome, allowing for the complete annotation and quantification of all genes and their …

Chromatin immunoprecipitation followed by sequencing (ChIP–seq) is a technique for
genome-wide profiling of DNA-binding proteins, histone modifications or nucleosomes …

Trait-associated genetic variants affect complex phenotypes primarily via regulatory
mechanisms on the transcriptome. To investigate the genetics of gene expression, we …

While many disease-associated variants have been identified through genome-wide
association studies, their downstream molecular consequences remain unclear. To identify …

Many important applications trigger bulk bitwise operations, ie, bitwise operations on large
bit vectors. In fact, recent works design techniques that exploit fast bulk bitwise operations to …

Background Recent methods have been developed to perform high-throughput sequencing
of DNA by Single Molecule Sequencing (SMS). While Next-Generation sequencing methods …

Two decades after the discovery of the first animal microRNA (miRNA), the number of
miRNAs in animal genomes remains a vexing question. Here, we report findings from …

Motivation: Many programs for aligning short sequencing reads to a reference genome have
been developed in the last 2 years. Most of them are very efficient for short reads but …

We describe 2b-RAD, a streamlined restriction site–associated DNA (RAD) genoty**
method based on sequencing the uniform fragments produced by type IIB restriction …

Motivation: Next-generation sequencing captures sequence differences in reads relative to a
reference genome or transcriptome, including splicing events and complex variants …