An MPI profiling library is a standard mechanism for intercepting MPI calls by applications. Profiling libraries are so named because they are commonly used to gather runtime information about performance characteristics. Here we present a profiling library whose purpose is to detect user errors in the use of MPI’s collective operations. While some errors can be detected locally (by a single pr...

Clinical staging and profiling is a diagnostic strategy that goes beyond the traditional dichotomy in medicine of merely focusing on the presence or absence of a disease. Disease staging extends this traditional dichotomy by defining where a patient lies along the continuum of the course of his or her particular illness. Successful examples include the general tumor, node, metastasis (TNM) clas...

We show here that gene expression profiling, performed with conventional techniques and focused on a selected group of genes, when used in combination with standard clinical information, provides reliable prognostic prediction of prostate cancer (CaP). We showed previously that changes in the expression of metabolically related genes are involved in CaP progression. We then proceeded to search ...

Detecting repetitive “phases” in program execution is helpful for program understanding, runtime optimization, and for reducing simulation/profiling workload. The nature of the phases that may be found, however, depend on the kinds of programs, as well how programs interact with the underlying hardware. We present a technique to detect long term and variable length repetitive program behaviour ...

BACKGROUND Antibody-based microarrays are a developing tool for high-throughput proteomics in health and disease. However, in order to enable global proteome profiling, novel miniaturized high-density antibody array formats must be developed. RESULTS In this proof-of-concept study, we have designed a miniaturized planar recombinant (single-chain Fragment variable). antibody array technology p...

Fine tuning the performance of large parallel programs is a very difficult task. A profiling tool can provide detailed insight into the utilization and communication of the different processors, which helps identify performance bottlenecks. In this paper we present two profiling techniques for the fine-grained parallel programming language Split-C, which provides a simple global address space m...

Heterogeneous computing has emerged as one of the major computing platforms in many domains. Although there have been several proposals to aid programming for heterogeneous computing platforms, optimizing applications on heterogeneous computing platforms is not an easy task. Identifying which parallel regions (or tasks) should run on GPUs or CPUs is one of the critical decisions to improve perf...

Small RNAs (smRNAs) encompass several different classes of short noncoding RNAs. Progress in smRNA research and applications has coincided with the advance of techniques to detect them. Next-generation sequencing technologies are becoming the preferred smRNA profiling method because of their high-throughput capacity and digitized results. In our small RNA profiling study using Solexa, we observ...

This paper describes a post-mortem call-graph profiling tool that analyses trace information generated during the execution of BSPlib programs. The purpose of the tool is to expose imbalance in either computation or communication, and to highlight portions of code that are amenable to improvement. Unlike other profiling tools, the profile information guides optim-isation in an architecture inde...

What if racial profiling were useful? Even, perhaps, very useful? Are the costs of racial profiling so significant that racial profiling should be banned? Courts and commentators do not ask these questions; indeed, they rarely, if ever, acknowledge that racial profiling may be useful. This paper explores what costs police would have to justify, and how they might do so in order to use racial pr...