ANALYTICAL MODEL FOR CHIP MULTIPROCESSOR MEMORY HIERARCHY DESIGN AND MAMAGEMENT

Continued advances in circuit integration technology has ushered in the era of chip multiprocessor (CMP) architectures as further scaling of the performance of conventional wide-issue superscalar processor architectures remains hard and costly. CMP architectures take advantageof Moore¡¯s Law by integrating more cores in a given chip area rather than a single fastyet larger core. They achieve higher performance with multithreaded workloads. However,CMP architectures pose many new memory hierarchy design and management problems thatmust be addressed. For example, how many cores and how much cache capacity must weintegrate in a single chip to obtain the best throughput possible? Which is more effective,allocating more cache capacity or memory bandwidth to a program?This thesis research develops simple yet powerful analytical models to study two newmemory hierarchy design and resource management problems for CMPs. First, we considerthe chip area allocation problem to maximize the chip throughput. Our model focuses onthe trade-off between the number of cores, cache capacity, and cache management strategies.We find that different cache management schemes demand different area allocation to coresand cache to achieve their maximum performance. Second, we analyze the effect of cachecapacity partitioning on the bandwidth requirement of a given program. Furthermore, ourmodel considers how bandwidth allocation to different co-scheduled programs will affect theindividual programs¡¯ performance. Since the CMP design space is large and simulating only one design point of the designspace under various workloads would be extremely time-consuming, the conventionalsimulation-based research approach quickly becomes ineffective. We anticipate that ouranalytical models will provide practical tools to CMP designers and correctly guide theirdesign efforts at an early design stage. Furthermore, our models will allow them to betterunderstand potentially complex interactions among key design parameters

A computational approach for identifying pathogenicity islands in prokaryotic genomes

BACKGROUND: Pathogenicity islands (PAIs), distinct genomic segments of pathogens encoding virulence factors, represent a subgroup of genomic islands (GIs) that have been acquired by horizontal gene transfer event. Up to now, computational approaches for identifying PAIs have been focused on the detection of genomic regions which only differ from the rest of the genome in their base composition and codon usage. These approaches often lead to the identification of genomic islands, rather than PAIs. RESULTS: We present a computational method for detecting potential PAIs in complete prokaryotic genomes by combining sequence similarities and abnormalities in genomic composition. We first collected 207 GenBank accessions containing either part or all of the reported PAI loci. In sequenced genomes, strips of PAI-homologs were defined based on the proximity of the homologs of genes in the same PAI accession. An algorithm reminiscent of sequence-assembly procedure was then devised to merge overlapping or adjacent genomic strips into a large genomic region. Among the defined genomic regions, PAI-like regions were identified by the presence of homolog(s) of virulence genes. Also, GIs were postulated by calculating G+C content anomalies and codon usage bias. Of 148 prokaryotic genomes examined, 23 pathogenic and 6 non-pathogenic bacteria contained 77 candidate PAIs that partly or entirely overlap GIs. CONCLUSION: Supporting the validity of our method, included in the list of candidate PAIs were thirty four PAIs previously identified from genome sequencing papers. Furthermore, in some instances, our method was able to detect entire PAIs for those only partial sequences are available. Our method was proven to be an efficient method for demarcating the potential PAIs in our study. Also, the function(s) and origin(s) of a candidate PAI can be inferred by investigating the PAI queries comprising it. Identification and analysis of potential PAIs in prokaryotic genomes will broaden our knowledge on the structure and properties of PAIs and the evolution of bacterial pathogenesis

Hybrid star HD 81817 accompanied by brown dwarf or substellar companion

HD 81817 is known as a hybrid star. Hybrid stars have both cool stellar wind properties and Ultraviolet (UV) or even X-ray emission features of highly ionized atoms in their spectra. A white dwarf companion has been suggested as the source of UV or X-ray features. HD 81817 has been observed since 2004 as a part of a radial velocity (RV) survey program to search for exoplanets around K giant stars using the Bohyunsan Observatory Echelle Spectrograph at the 1.8 m telescope of Bohyunsan Optical Astronomy Observatory in Korea. We obtained 85 RV measurements between 2004 and 2019 for HD 81817 and found two periodic RV variations. The amplitudes of RV variations are around 200 m s^-1, which are significantly lower than that expected from a closely orbiting white dwarf companion. Photometric data and relevant spectral lines were also analyzed to help determine the origin of the periodic RV variations. We conclude that 627.4-day RV variations are caused by intrinsic stellar activities such as long-term pulsations or rotational modulations of surface activities based on H{\alpha} equivalent width (EW) variations of a similar period. On the other hand, 1047.1-day periodic RV variations are likely to be caused by a brown dwarf or substellar companion, which is corroborated by a recent GAIA proper motion anomaly for HD 81817. The Keplerian fit yields a minimum mass of 27.1 M_Jup, a semimajor axis of 3.3 AU, and an eccentricity of 0.17 for the stellar mass of 4.3 M_sun for HD 81817. The inferred mass puts HD 81817 b in the brown dwarf desert

Towards pathogenomics: a web-based resource for pathogenicity islands

Pathogenicity islands (PAIs) are genetic elements whose products are essential to the process of disease development. They have been horizontally (laterally) transferred from other microbes and are important in evolution of pathogenesis. In this study, a comprehensive database and search engines specialized for PAIs were established. The pathogenicity island database (PAIDB) is a comprehensive relational database of all the reported PAIs and potential PAI regions which were predicted by a method that combines feature-based analysis and similarity-based analysis. Also, using the PAI Finder search application, a multi-sequence query can be analyzed onsite for the presence of potential PAIs. As of April 2006, PAIDB contains 112 types of PAIs and 889 GenBank accessions containing either partial or all PAI loci previously reported in the literature, which are present in 497 strains of pathogenic bacteria. The database also offers 310 candidate PAIs predicted from 118 sequenced prokaryotic genomes. With the increasing number of prokaryotic genomes without functional inference and sequenced genetic regions of suspected involvement in diseases, this web-based, user-friendly resource has the potential to be of significant use in pathogenomics. PAIDB is freely accessible at

Effects of education on low-phosphate diet and phosphate binder intake to control serum phosphate among maintenance hemodialysis patients: A randomized controlled trial.

Background:For phosphate control, patient education is essential due to the limited clearance of phosphate by dialysis. However, well-designed randomized controlled trials about dietary and phosphate binder education have been scarce. Methods:We enrolled maintenance hemodialysis patients and randomized them into an education group (n = 48) or a control group (n = 22). We assessed the patients' drug compliance and their knowledge about the phosphate binder using a questionnaire. Results:The primary goal was to increase the number of patients who reached a calcium-phosphorus product of lower than 55. In the education group, 36 (75.0%) patients achieved the primary goal, as compared with 16 (72.7%) in the control group (P = 0.430). The education increased the proportion of patients who properly took the phosphate binder (22.9% vs. 3.5%, P = 0.087), but not to statistical significance. Education did not affect the amount of dietary phosphate intake per body weight (education vs. control: -1.18 ± 3.54 vs. -0.88 ± 2.04 mg/kg, P = 0.851). However, the dietary phosphate-to-protein ratio tended to be lower in the education group (-0.64 ± 2.04 vs. 0.65 ± 3.55, P = 0.193). The education on phosphate restriction affected neither the Patient-Generated Subjective Global Assessment score (0.17 ± 4.58 vs. -0.86 ± 3.86, P = 0.363) nor the level of dietary protein intake (-0.03 ± 0.33 vs. -0.09 ± 0.18, P = 0.569). Conclusion:Education did not affect the calcium-phosphate product. Education on the proper timing of phosphate binder intake and the dietary phosphate-to-protein ratio showed marginal efficacy

The Ship Detection Using Airborne and In-situ Measurements Based on Hyperspectral Remote Sensing

International audienceMaritime accidents around the Korean Peninsula are increasing, and the ship detection research using remote sensing data is consequently becoming increasingly important. This study presented a new ship detection algorithm using hyperspectral images that provide the spectral information of several hundred channels in the ship detection field, which depends on high resolution optical imagery. We applied a spectral matching algorithm between the reflection spectrum of the ship deck obtained from two field observations and the ship and seawater spectrum of the hyperspectral sensor of an airborne visible/infrared imaging spectrometer. A total of five detection algorithms were used, namely spectral distance similarity (SDS), spectral correlation similarity (SCS), spectral similarity value (SSV), spectral angle mapper (SAM), and spectral information divergence (SID). SDS showed an error in the detection of seawater inside the ship, and SAM showed a clear classification result with a difference between ship and seawater of approximately 1.8 times. Additionally, the present study classified the vessels included in hyperspectral images by presenting the adaptive thresholds of each technique. As a result, SAM and SID showed superior ship detection abilities compared to those of other detection algorithms

Incidence and Seroprevalence of Hepatitis A Virus Infections among Young Korean Soldiers

This study was performed to determine the incidence and seroprevalence of hepatitis A virus (HAV) infections in young soldiers in the Republic of Korea Army. From January 2000 through December 2004, a total of 147 hepatitis A cases were reported to the Armed Forces Medical Command. The annual incidence rates were 7.4 per 100,000 persons in 2000, 1.6 in 2001, 4.4 in 2002, 9.8 in 2003, and 6.2 in 2004, based on the reported cases among approximately 500,000 soldiers. All patients were males with a median age of 21 yr (range, 19-27). The most common symptom was nausea (86.5%), and all patients had recovered without complications. In addition, in order to evaluate the seroprevalence of HAV infection in young adults, serum samples were obtained from randomly selected young subjects among those who had been admitted to the Armed Forces Capital Hospital from September 2005 to February 2006. A total of 200 subjects were enrolled in the study to analyze the anti-HAV immune status. The overall anti-HAV IgG seropositive rate was 2% (4/200, 95% CI, 0.60-5.21%). Given the changing epidemiology of the disease and the associated increase in morbidity, it was suggested that the routine HAV vaccination for Korean military personnel might be necessary

Pseudoinvasion in an Adenomatous Polyp of the Colon Mimicking Invasive Colon Cancer

Pseudoinvasion or pseudocarcinomatous invasion in an adenomatous polyp of the colon can be unfamiliar to an endoscopist. Pseudoinvasion in an adenomatous polyp represents prolapse of the adenomatous epithelium into its stalk. In most cases its morphology does not differ from of general adenomatous polyps, but in some cases it can morphologically mimic a malignant polyp with submucosal invasion due to mass-like lesioning of its stalk. This makes it difficult for endoscopists to differentiate pseudoinvasion in an adenoma from an invasive carcinoma by conventional endoscopy; instead, endoscopic ultrasonography can provide useful information for differentiating these conditions. We report on an 82-year-old man who presented with a large pedunculated polyp with a thick stalk in the sigmoid colon, which mimicked a submucosal invasive carcinoma. The patient was diagnosed with pseudoinvasion in an adenomatous polyp after segmental resection of the sigmoid colon