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SPlitSSI-SVM: an algorithm to reduce the misleading and increase the strength of domain signal

Kalsum HU, Shah ZA, Othman RM, Hassan R, Rahim SM, Asmuni H, et al.

Comput Biol Med, 2009 Nov;39(11):1013-9.
PMID: 19720371 DOI: 10.1016/j.compbiomed.2009.08.002

Protein domains contain information about the prediction of protein structure, function, evolution and design since the protein sequence may contain several domains with different or the same copies of the protein domain. In this study, we proposed an algorithm named SplitSSI-SVM that works with the following steps. First, the training and testing datasets are generated to test the SplitSSI-SVM. Second, the protein sequence is split into subsequence based on order and disorder regions. The protein sequence that is more than 600 residues is split into subsequences to investigate the effectiveness of the protein domain prediction based on subsequence. Third, multiple sequence alignment is performed to predict the secondary structure using bidirectional recurrent neural networks (BRNN) where BRNN considers the interaction between amino acids. The information of about protein secondary structure is used to increase the protein domain boundaries signal. Lastly, support vector machines (SVM) are used to classify the protein domain into single-domain, two-domain and multiple-domain. The SplitSSI-SVM is developed to reduce misleading signal, lower protein domain signal caused by primary structure of protein sequence and to provide accurate classification of the protein domain. The performance of SplitSSI-SVM is evaluated using sensitivity and specificity on single-domain, two-domain and multiple-domain. The evaluation shows that the SplitSSI-SVM achieved better results compared with other protein domain predictors such as DOMpro, GlobPlot, Dompred-DPS, Mateo, Biozon, Armadillo, KemaDom, SBASE, HMMPfam and HMMSMART especially in two-domain and multiple-domain.
Cutting efficiency of different dental materials utilized in an air abrasion system

Hassan U, Farooq I, Moheet IA, AlShwaimi E

Int J Health Sci (Qassim), 2017 Sep-Oct;11(4):23-27.
PMID: 29085264

OBJECTIVES: The aim of the present study was to test cutting efficiency of different materials against conventional alumina in an air abrasion system.

MATERIALS AND METHODS: The powder samples were divided into three groups: Group 1 - alumina (control), Group 2 - 45S5 bioactive glass, and Group 3 - hydroxyapatite. 30 microscope glass slides of 0.5 mm thickness were used as an alternative of human enamel and were also divided randomly into these three groups. The time taken by the abrasive particles to cut a hole through the microscope glass slide was recorded with a stop watch. In addition, morphology of the particles was observed through scanning electron microscopy (SEM). A t-test was used to compare the times taken to cut a hole through the microscope glass slides, and the level of significance was set at P < 0.05.

RESULTS: The mean time taken to cut a hole through the microscope glass slide was 2.96 s and 23.01s for Groups 1 and 2, respectively, whereas powder of Group 3 did not cut after 120 s. The differences between cutting times of Groups 1 and 2 were statistically significant (P < 0.05). The SEM micrographs revealed coarse angular shape for particles of Groups 1 and 2 but Group 3 particles were with round ends and presence of smaller particles was also observed in Groups 2 and 3.

CONCLUSION: The alumina particles demonstrated excellent cutting efficiency followed by 45S5 particles. The use of bioactive glass particles should be encouraged for cutting purposes whenever a shortage of time for practitioners is not a concern.
The etiology of pediatric hydrocephalus across Asia: a systematic review and meta-analysis

Ferris E, Kynaston J, Dalle DU, Ng YJ, Leahy P, Hassan U, et al.

J Neurosurg Pediatr, 2024 Apr 01;33(4):323-333.
PMID: 38181497 DOI: 10.3171/2023.11.PEDS23389

OBJECTIVE: Despite the high prevalence and significant implications of pediatric hydrocephalus, the etiological distribution of pediatric hydrocephalus across the diverse Asian demographic is poorly understood. This study aimed to inform clinical guidelines and public health decisions by identifying the etiological distribution of pediatric hydrocephalus across Asia.
METHODS: In this systematic review and meta-analysis, the authors searched EMBASE, MEDLINE, CENTRAL, Global Health, Global Index Medicus, and Scopus, with no language restriction, from inception to January 27, 2023. Observational or experimental studies with pediatric data on the causes of hydrocephalus in a country within Asia were included. Pooled proportions of postinfectious hydrocephalus, nonpostinfectious hydrocephalus, and hydrocephalus related to spinal dysraphism were calculated using a random-effects model. Subgroup analyses were performed on prespecified moderators. Methodological study quality was assessed using the modified Newcastle-Ottawa Score and Cochrane's risk-of-bias tool as per the registered protocol on PROSPERO.
RESULTS: The search yielded 5110 results, for which 79 articles were included, with data on 11,529 children from 18 Asian countries. The pooled proportion of nonpostinfectious hydrocephalus was 29.0% (95% CI 22.9-35.5); postinfectious hydrocephalus was 10.7% (95% CI 7.7-14.1); and hydrocephalus secondary to dysraphism was 7.6% (95% CI 5.1-10.5). The pooled proportion of postinfectious hydrocephalus was greatest in lower-middle-income countries (19.2% [95% CI 12.8-26.3]). There was a negative association between the proportion of postinfectious hydrocephalus and Human Development Index (-1.45 [95% CI -2.21 to -0.69]; p < 0.001); urbanization of the country (-0.008 [95% CI -0.012 to -0.004]; p < 0.001); and increasing distance from the equator (-0.016 [95% CI -0.026 to -0.006]; p = 0.002). The pooled proportion of nonpostinfectious hydrocephalus was greatest in high-income countries (36.7% [95% CI 27.6-46.3]). Certain etiologies of pediatric hydrocephalus were more common in different cultural regions, with postinfectious hydrocephalus most common in South Asia (23.2% [95% CI 15.8-31.5]); nonpostinfectious in East Asia (38.3% [95% CI 26.6-50.7]); and dysraphism in West Asia (11.9% [95% CI 6.4-18.8]).
CONCLUSIONS: Geographic and economic characteristics are associated with the etiological distribution of pediatric hydrocephalus in Asia, with implications for prevention and management strategies. The large proportion of hydrocephalus cases in which the etiology was unclear highlights the need for both improved diagnostics as well as clear and strict universal guidelines on the etiological classification of hydrocephalus.

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