We describe MUSCLE, a new computer program for creating multiple alignments of protein sequences. Elements of the algorithm include fast distance estimation using kmer counting, progressive alignment using a new profile function we call the logexpectation score, and refinement using tree

There are many sources of systematic variation in cDNA microarray experiments which affect the measured gene expression levels (e.g. differences in labeling efficiency between the two fluorescent dyes). The term normalization refers to the process of removing such variation. A constant adjustment

State of the art, real-time, rate-adaptive, multimedia applications adjust their transmission rate to match the available network capacity. Unfortunately, this source-based rate-adaptation performs poorly in a heterogeneous multicast environment because there is no single target rate

We present the Lorel language, designed for querying semistructured data. Semistructured data is becoming more and more prevalent, e.g., in structured documents such as HTML and when performing simple integration of data from multiple sources. Traditional data models and query languages

probabilities. Non-transforming DNAs compete consistent with mass. No significant variation is observed between competing DNAs of difi~rent source, complexity, length or form. Competition with both transforming and non-transforming plasmids indicates that each cell is capable of taking up many DNA molecules

simultaneously track multiple sources of sensitive data. TaintDroid’s efficiency to perform real-time analysis stems from its novel system design that leverages the mobile platform’s virtualized system architecture. TaintDroid incurs only 14 % performance overhead on a CPU-bound micro-benchmark with little

, the performance of a single-server GPS system is analyzed exactly from the standpoint of worst-case packet delay and burstiness when the sources are constrained by leaky buckets. The worst-case session backlogs are also determined. In the sequel to this paper, these results are extended to arbitrary topology

We develop and analyze space–time coded cooperative diversity protocols for combating multipath fading across multiple protocol layers in a wireless network. The protocols exploit spatial diversity available among a collection of distributed terminals that relay messages for one another in such a

-mologous residues in a target database sequence. We can always write an ad hoc program for any given problem, but the same potentially frustrating issues will always recur. One issue is that we often want to incorporate multiple heterogenous sources of information. A genefinder, for in-stance, ought to combine

with routers at every hop which allow sharing of network channels over multiple packet flows. This, however, leads to packets going through a complex router pipeline at every hop, resulting in the overall communication energy/delay being dominated by the router overhead, as opposed to just wire energy