Paul D R Johnson

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The Raw microprocessor consumes 122 million transistors, executes 16 different load, store, integer or floating point instructions every cycle, controls 25 GB/s of I/O bandwidth, and has 2 MB of on-chip, distributed L1 SRAM memory, providing on-chip memory bandwidth of 43 GB/s. Is this the latest billion-dollar 3,000 man-year processor effort? In fact, Raw(More)
The emergence of vancomycin-intermediate Staphylococcus aureus (VISA) and heterogeneous vancomycin-intermediate Staphylococcus aureus (hVISA) over the past decade has provided a challenge to diagnostic microbiologists to detect these strains, clinicians treating patients with infections due to these strains, and researchers attempting to understand the(More)
This paper evaluates the Raw microprocessor. Raw addresses thechallenge of building a general-purpose architecture that performswell on a larger class of stream and embedded computing applicationsthan existing microprocessors, while still running existingILP-based sequential programs with reasonable performance in theface of increasing wire delays. Raw(More)
Buruli ulcer is a neglected emerging disease that has recently been reported in some countries as the second most frequent mycobacterial disease in humans after tuberculosis. Cases have been reported from at least 32 countries in Africa (mainly west), Australia, Southeast Asia, China, Central and South America, and the Western Pacific. Large lesions often(More)
Mycobacterium ulcerans is a slow-growing environmental bacterium that causes a severe skin disease known as Buruli ulcer. PCR has become a reliable and rapid method for the diagnosis of M. ulcerans infection in humans and has been used for the detection of M. ulcerans in the environment. This paper describes the development of a TaqMan assay targeting(More)
This paper describes the design and implementation of the Harp file system. Harp is a replicated Unix file system accessible via the VFS interface. It provides highly available and reliable storage for files and guarantees that file operations are executed atomically in spite of concurrency and failures. It uses a novel variation of the primary copy(More)
Medicines play an important role in the treatment and prevention of disease. Whereas the side effects on human and animal health resulting directly from treatment have been widely documented, only recently have the occurrence and fate of medicines in the environment and the potential consequences for human health been recognized as an issue warranting(More)
Mycobacterium marinum, a ubiquitous pathogen of fish and amphibia, is a near relative of Mycobacterium tuberculosis, the etiologic agent of tuberculosis in humans. The genome of the M strain of M. marinum comprises a 6,636,827-bp circular chromosome with 5424 CDS, 10 prophages, and a 23-kb mercury-resistance plasmid. Prominent features are the very large(More)
Mycobacterium ulcerans is found in aquatic ecosystems and causes Buruli ulcer in humans, a neglected but devastating necrotic disease of subcutaneous tissue that is rampant throughout West and Central Africa. Here, we report the complete 5.8-Mb genome sequence of M. ulcerans and show that it comprises two circular replicons, a chromosome of 5632 kb and a(More)