A Modified Hierarchical Agglomerative Approach for Efficient Document Clustering System

In today’s world, the increasing volume of text documents has brought challenges for their effective and efficient organization. This has led to an enormous demand for efficient tools that turn data into valuable knowledge. One of the techniques that can play an important role towards the achievement of this objective is document clustering. The main function of document clustering is automatic grouping of documents so that the documents within a cluster are very similar, but dissimilar to the documents in other clusters. This research proposes a Modified Agglomerative Hierarchical Clustering (MAHC) algorithm based on hierarchical method. In many traditional systems, the number of term frequency is considered to create data representation matrix. However, a modified algorithm creates data representation matrix based only on occurrence of items, not on frequency of items. The proposed algorithm can increase the quality of clustering because it can merge the related or similar documents into the same cluster efficiently. Moreover, the proposed algorithm can reduce the processing time than the existing methods. In this paper, the performance of clustering between the proposed and original clustering algorithm was compared and evaluated by using F-measure

The First D/V Chikyu IODP Operations: Successful Drilling and Coring During NantroSEIZE Stage 1 Expeditions

The Nankai Trough Seismogenic Zone Experiment (NanTroSEIZE) is a multi-expedition IODP drilling project aimed at drilling, coring, logging, and instrumenting the seismogenic zone of an active subduction margin , in a region thought to generate megathrust earthquakes of magnitude >8.0 on the moment-magnitude scale (Tobin and Kinoshita, 2006). The Nankai Trough, offshore of the Kii Peninsula, Honshu, Japan (Fig. 1) was chosen as the location for thisproject based on a number of scientific drilling proposals to IODP. These reviewed existing drilling data in the region, the long-term historical and recent record of great earthquakes, the social and societal relevance of the area, and the accessibility of the seismogenic zone to present drilling technology. The first stage of this multi-stage project was intended to accomplish a broad characterization of the shallow geology, geophysics, physical properties, heat flow, and fluid flow in a transect across the downgoing Philippine Sea Plate, the toe of the Nankai accretionary prism, the megasplay fault zone region on the continental slope, and the Kumano Basin that lies between the accretionary prism and the KiiPeninsula, on the continental shelf (Fig. 2)

Characterization of bovine MHC DRB3 diversity in global cattle breeds, with a focus on cattle in Myanmar

Background: Myanmar cattle populations predominantly consist of native cattle breeds (Pyer Sein and Shwe), characterized by their geographical location and coat color, and the Holstein-Friesian crossbreed, which is highly adapted to the harsh tropical climates of this region. Here, we analyzed the diversity and genetic structure of the BoLA-DRB3 gene, a genetic locus that has been linked to the immune response, in Myanmar cattle populations. Methods: Blood samples (n = 294) were taken from two native breeds (Pyer Sein, n = 163 and Shwe Ni, n = 69) and a cattle crossbreed (Holstein-Friesian, n = 62) distributed across six regions of Myanmar (Bago, n = 38; Sagaing, n = 77; Mandalay, n = 46; Magway, n = 46; Kayin, n = 43; Yangon, n = 44). In addition, a database that included 2428 BoLA-DRB3 genotypes from European (Angus, Hereford, Holstein, Shorthorn, Overo Negro, Overo Colorado, and Jersey), Zebuine (Nellore, Brahman and Gir), Asian Native from Japan and Philippine and Latin-American Creole breeds was also included. Furthermore, the information from the IPD-MHC database was also used in the present analysis. DNA was genotyped using the sequence-based typing method. DNA electropherograms were analyzed using the Assign 400ATF software. Results: We detected 71 distinct alleles, including three new variants for the BoLA-DRB3 gene. Venn analysis showed that 11 of these alleles were only detected in Myanmar native breeds and 26 were only shared with Asian native and/or Zebu groups. The number of alleles ranged from 33 in Holstein-Friesians to 58 in Pyer Seins, and the observed versus unbiased expected heterozygosity were higher than 0.84 in all the three the populations analyzed. The FST analysis showed a low level of genetic differentiation between the two Myanmar native breeds (FST = 0.003), and between these native breeds and the Holstein-Friesians (FST < 0.021). The average F ST value for all the Myanmar Holstein-Friesian crossbred and Myanmar native populations was 0.0136 and 0.0121, respectively. Principal component analysis (PCA) and tree analysis showed that Myanmar native populations grouped in a narrow cluster that diverged clearly from the Holstein-Friesian populations. Furthermore, the BoLA-DRB3 allele frequencies suggested that while some Myanmar native populations from Bago, Mandalay and Yangon regions were more closely related to Zebu breeds (Gir and Brahman), populations from Kayin, Magway and Sagaing regions were more related to the Philippines native breeds. On the contrary, PCA showed that the Holstein-Friesian populations demonstrated a high degree of dispersion, which is likely the result of the different degrees of native admixture in these populations. Conclusion: This study is the first to report the genetic diversity of the BoLA-DRB3 gene in two native breeds and one exotic cattle crossbreed from Myanmar. The results obtained contribute to our understanding of the genetic diversity and distribution of BoLA-DRB3 gene alleles in Myanmar, and increases our knowledge of the worldwide variability of cattle BoLA-DRB3 genes, an important locus for immune response and protection against pathogens.Fil: Giovambattista, Guillermo. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico CONICET- La Plata. Instituto de Genética Veterinaria "Ing. Fernando Noel Dulout". Universidad Nacional de La Plata. Facultad de Ciencias Veterinarias. Instituto de Genética Veterinaria; ArgentinaFil: Moe, Kyaw Kyaw. University of Veterinary Science; BirmaniaFil: Polat, Meripet. No especifíca;Fil: Borjigin, Liushiqi. No especifíca;Fil: Hein, Si Thu. University Of Veterinary Science; BirmaniaFil: Moe, Hla Hla. University Of Veterinary Science; BirmaniaFil: Takeshima, Shin Nosuke. No especifíca;Fil: Aida, Yoko. No especifíca

IODP Expedition 333: Return to Nankai Trough Subduction Inputs Sites and Coring of Mass Transport Deposits

Integrated Ocean Drilling Program (IODP) Expedition 333 returned to two sites drilled during IODP Expedition 322 on the ocean side of the Nankai Trough to pursue the characterization of the inputs to the Nankai subduction and seismogenic zone, as part of the Nankai Trough Seismogenic Experiment (NanTroSEIZE) multi-expedition project. SiteC0011 is located at the seaward edge of the trench and Site C0012 on a basement high, Kashinozaki Knoll (Fig. 1). The main objectives of drilling again at these sites were to fill coring gaps in the upper part (<350 m) of the sedimentary sequence, to measure heat flow, and to core the oceanic basement to a greater depth on the Knoll. New results include the observation of a diagenetic boundary within the Shikoku Basin sediments that may be compared to one documented further west by ODP Legs 131, 190 and 196 but occurs here at a lower temperature. Borehole heat flow measurements confirm spatial variations in the Shikoku Basin that were indicated by short probe surveys. Heat flow variations between topographic highs and lows may be related to fluid convection within the basement. This expedition also included the objectives of the Nankai Trough Submarine LandSLIDEhistory (NanTroSLIDE) Ancillary Project Letter (APL) and cored at Site C0018 a pile of mass transport deposits on the footwall of the megasplay fault, a major out of sequence thrust that presumably slips coseismically during large subduction earthquakes. This brought newinsight on the timing of these mass wasting events and on the deformation within the sliding slope sediments

Low Incidence of Renal Dysfunction among HIV-Infected Patients on a Tenofovir-Based First Line Antiretroviral Treatment Regimen in Myanmar.

BACKGROUND: Since 2004, Médecins Sans Frontières-Switzerland has provided treatment and care for people living with HIV in Dawei, Myanmar. Renal function is routinely monitored in patients on tenofovir (TDF)-based antiretroviral treatment (ART), and this provides an opportunity to measure incidence and risk factors for renal dysfunction. METHODS: We used routinely collected program data on all patients aged ≥15 years starting first-line TDF-based ART between January 2012 and December 2013. Creatinine clearance (CrCl) was assessed at base line and six-monthly, with renal dysfunction defined as CrCl < 50 ml/min/1.73 m2. We calculated incidence of renal dysfunction and used Cox regression analysis to identify associated risk factors. RESULTS: There were 1391 patients, of whom 1372 had normal renal function at baseline. Of these, 86 (6.3%) developed renal dysfunction during a median time of follow-up 1.14 years with an incidence rate of 5.4 per 100 person-years: 78 had CrCl between 30-50 ml/min/1.73 m2 and were maintained on TDF-based ART, but 5 were changed to another regimen: 4 because of CrCl <30 ml/min/1.73 m2. Risk factors for renal dysfunction included age ≥45 years, diagnosed diabetes, underlying renal disease, underweight and CD4 count <200 cells/mm3. There were 19 patients with baseline renal dysfunction and all continued on TDF-based ART: CrCl stayed between 30-49 ml/min/1.73 m2 in five patients while the remainder regained normal renal function. CONCLUSIONS: In a resource-poor country like Myanmar, the low incidence of renal toxicity in our patient cohort suggests that routine assessment of CrCl may not be needed and could be targeted to high risk groups if resources permit

Development of cDNA-derived SSR markers and their efficiency in diversity assessment of Cymbidium accessions

Abstract Cymbidium spp. are popular flowering plants. Assessment of the genetic diversity in cultivated Cymbidium facilitates conservation of germplasm and subsequent cultivar improvement. Thus, it is important to develop more efficient polymorphic DNA markers. Although more motifs (403) were identified and more primers (206) were designed in the genomic library compared to the cDNA library, a larger number of successful primers were obtained from the cDNA library (59.9%) than from genomic DNA library (51.1%). However, higher PIC and gene diversity were identified in genomic SSRs. The average allele number per locus was also higher in genomic SSRs (7.3) than EST-SSRs (5.2), among the 24 evaluated Cymbidium accessions. AT/TA was comparatively high in EST-SSRs, while this motif was not as common in genomic SSRs. The CTT/AAG/TCT/AGA/TTC/GAA and TGC/GCA/GCT/AGC/CTG/CAG motifs were the most abundant tri-nucleotide sequences in EST-SSRs, while GTT/AAC/TGT/ACA/TTG/CAA was the most frequent in genomic SSRs. The number of repeats ranged from 3 to 12 in EST-SSRs. Currently, 52 novel polymorphic SSR markers have been evaluated, which will be useful for germplasm assessments, core set construction, evaluation of genetic diversity, and marker assisted selection (MAS) based Cymbidium breeding

Statistical Machine Translation between Myanmar Sign Language and Myanmar Written Text

This paper contributes the first evaluation of the quality of automatic translation between Myanmar sign language (MSL) and Myanmar written text, in both directions. Our developing MSL-Myanmar parallel corpus was used for translations and the experiments were carried out using three different statistical machine translation (SMT) approaches: phrase-based, hierarchical phrase-based, and the operation sequence model. In addition, three different segmentation schemes were studies, these were syllable segmentation, word segmentation and sign unit based word segmentation. The results show that the highest quality machine translation was attained with syllable segmentations for both MSL and Myanmar written text

Development of Natural Language Processing based Communication and Educational Assisted Systems for the People with Hearing Disability in Myanmar

Information and communication technologies (ICTs) provide people with disabilities to better integrate socially and economically into their communities by supporting access to information and knowledge, learning and teaching situations, personal communication and interaction. Our research purpose is to develop systems that will provide communication and educational assistance to persons with hearing disability using Natural Language Processing (NLP). In this paper, we present corpus building for Myanmar sign language (MSL), Machine Translation (MT) between MSL, Myanmar written text (MWT) and Myanmar SignWriting (MSW) and two Fingerspelling keyboard layouts for Myanmar SignWriting. We believe that the outcome of this research is useful for educational contents and communication between hearing disability and general people

Scientific drilling

Integrated Ocean Drilling Program (IODP) Expedition 333 returned to two sites drilled during IODP Expedition 322 on the ocean side of the Nankai Trough to pursue the characterization of the inputs to the Nankai subduction and seismogenic zone, as part of the Nankai Trough Seismogenic Experiment (NanTroSEIZE) multi-expedition project. Site C0011 is located at the seaward edge of the trench and Site C0012 on a basement high, Kashinozaki Knoll (Fig. 1). The main objectives of drilling again at these sites were to fill coring gaps in the upper part (<350 m) of the sedimentary sequence, to measure heat flow, and to core the oceanic basement to a greater depth on the Knoll. New results include the observation of a diagenetic boundary within the Shikoku Basin sediments that may be compared to one documented further west by ODP Legs 131, 190 and 196 but occurs here at a lower temperature. Borehole heat flow measurements confirm spatial variations in the Shikoku Basin that were indicated by short probe surveys. Heat flow variations between topographic highs and lows may be related to fluid convection within the basement. This expedition also included the objectives of the Nankai Trough Submarine LandSLIDE history (NanTroSLIDE) Ancillary Project Letter (APL) and cored at Site C0018 a pile of mass transport deposits on the footwall of the megasplay fault, a major out of sequence thrust that presumably slips coseismically during large subduction earthquakes. This brought new insight on the timing of these mass wasting events and on the deformation within the sliding slope sediments

Maintaining dimensions and mechanical properties of ionically crosslinked alginate hydrogel scaffolds in vitro

Ionically crosslinked alginate hydrogels are attractive scaffolds because of their biocompatibility and mild gelation reaction that allows for gentle cell incorporation. However, the instability of ionically crosslinked hydrogels in an aqueous environment is a challenge that limits their application. This report presents a novel method to control the dimensions and mechanical properties of ionically crosslinked hydrogels via control of the ionic concentration of the medium. Homogeneous calcium-alginate gels were incubated in physiological saline baths adjusted to specific calcium ion concentrations. Swelling and shrinking occurred at low and high ionic concentrations of the medium, respectively, while an “optimal” intermediate calcium ion concentration of the medium was found to maintain original size and shape of the hydrogel. This optimal calcium ion concentration was found to be a function of crosslinking density and polymer concentration of the hydrogel and chemical composition of the alginate. The effects of optimal and high calcium ion concentrations of the medium on swelling behavior, calcium content, dry weight, and mechanical properties of the immersed hydrogels were investigated. It was found that the resulting hydrogel composition and mechanical properties depended on not only the calcium concentration of the medium, but also the crosslinking density and polymer concentration of the gel. In an 8-week experiment, controlled dimensions and mechanical properties of alginate gels in an aqueous environment were demonstrated. This new technique significantly enhances the potential of alginate hydrogels for tissue engineering and other biomedical applications. © 2007 Wiley Periodicals, Inc. J Biomed Mater Res, 2008Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/58038/1/31375_ftp.pd