DNA, RNA, and protein are represented as strings in bioinformatics for this reason string processing is the cornerstone in the field of bioinformatics and these problems take a variety of manifestations each of which has a specific meaning. This topic will shed some light on some traditional string problems such as: local sequence alignment problem, global sequence alignment problem, exact pattern matching problem, approximate pattern matching problem, finding all maximal palindromes problem, finding all tandem repeats problem, finding all tandem arrays problem, etc. There are quite rich researches for these problems. This paper, will propose the major algorithms in this respect which implemented in BioQt.

Abstract

Purpose In this literature review, functional outcomes such as Disability of Arm, Shoulder and Hand (DASH) score and the visual analog scale (VAS) of pain along with clinical outcomes such as range of movement and grip strength of treated distal radius fractures (DRF) accompanied with ulnar styloid fractures (USF) will be compared with those with isolated DRF. Materials and Methods We analyzed articles from MEDLINE, Embase, and CINAHL that met our predetermined inclusion and exclusion criteria as per the Preferred Reporting Items for Systematic Reviews and Meta-analysis statements. This resulted in the identification of 464 articles with 18 potentially eligible studies of which 6 were included at the full-text screening stage. The primary outcomes were wrist pain, range of motion, functional outcome and satisfaction, such as VAS, and the DASH questionnaire along with radiological assessment and incidence of complications. Results These studies involved 796 participants with DRF and 806 wrists with DRF; 444 (55%) of DRF had an associated USF. Three studies did not report any statistically significant difference in DASH scores between the DRF patients with or without USF. Two studies reported worse DASH scores in the group with associated USF. Wrist pain was reported to be statistically significantly worse in patients with associated USF in two studies. Grip strength did not exhibit a statistically significant difference in any groups in four studies. On assessing the range of motion of the wrist and forearm, only one study reported a statistically significant difference in flexion at 2 years follow-up, with less flexion in patients with USF. Conclusion This review suggests that there is no significant correlation between a USF and the functional and clinical outcomes of DRF treatment, albeit wrist pain and less flexion were reported in some studies to be associated with USF. There is a need for more robust evidence from large randomized controlled trials to specifically look at the effects of fixation versus nonfixation of USF on DRF, or large prospective cohort studies assessing DRF with and without USF, with a minimum of 12 months follow-up. Level of Evidence Level II-therapeutic.

The in vitro cell culture environment can impact on cell biochemistry and cell cycle. The manifestation of such substrate-induced changes in cell cycle in the Raman microspectroscopic profiles of cell cultures is investigated at the level of nucleolus, nucleus and cytoplasm. HeLa immortalised human cervical cells and HaCaT dermal cells were cultured on three different substrates, conventional polystyrene cell culture dishes, CaF2 slides as a commonly used Raman substrate, and glass slides coated with Collagen Rat Tail, as a mimic of the extra cellular matrix (ECM) environment. A cell cycle study, based on percentage DNA content, as determined using Propidium Iodide staining and monitored by flow cytometry, was performed on cells of both types, grown on the different substrates, confirming that the in vitro cell culture environment impacts significantly on the cell cycle. Live cell in vitro Raman spectroscopic analysis of cells on the 2D CaF2 and 3D Collagen substrates was performed and data was analysed using principal components analysis (PCA). The spectroscopic analysis revealed differences in profiles which reflect the differences in cell cycle for both in vitro culture environments. In particular, the Raman spectra of cells 2 grown on CaF2 show indicators of cell stress, which are also associated with cell cycle arrest at the G0/G1 phase. This work contributes to the field of Raman spectroscopic analysis by providing a fresh look at the significance of the effect of in vitro culture environment to cell cycle and the sensitivity of Raman spectroscopy to such differences in cell metabolism. 

Study question: What are the overall estimate of the different indicators of infertility in the Middle East and North African (MENA) region? Summary answer: The overall clinical primary and total infertility rate in the MENA region are (3.8%, 95% Cl = 1.7-8.4) and (17.2%, 95% Cl = 10.6-26.7) respectively.

Infertility is a worldwide health issue with high impact on the individuals involved and the society as a whole. Estimates of infertility are very important to inform social and economic policies. The aim of this systematic literature review is to estimate the prevalence of primary and secondary infertility in Middle East and North Africa (MENA) region and produce the overall estimate of the different indicators of infertility in MENA region. A systematic search was conducted to identify publications providing data from MENA countries. All titles and abstracts retrieved using this search strategy were managed by Endnote software, duplicates were removed and studies on animals, systematic reviews, and from non-MENA region was removed from the EndNote library. Seven electronic databases and websites were searched for relevant articles and surveys with no language or date restriction on July 2017. Data of prevalence 

Hadoop has been developed as a platform solution for processing a large scale of data in parallel for different applications in Cloud com-puting. A Hadoop system can be characterized based on three main factors: cluster, workload, and user. Each of these factors can be described in heterogeneous environment, which reflects the heterogeneity degree of the Hadoop system. This paper investigates the effect of heterogeneity in each of these factors on the performance of Hadoop for different schedulers. Three schedulers which consider differ-ent levels of Hadoop heterogeneity are used for the analysis: FIFO, Fair sharing, and COSHH (Classification and Optimization based Scheduler for Heterogeneous Hadoop). Performance issues are introduced for Hadoop schedulers and comparative performance analysis between different cases of jobs submission. These jobs are processed in heterogeneous data environments and, under fixed or reconfigu-rable slot between map and reduce tasks for Hadoop MapReduce java programming clustering model. The results showed that when assigning tunable knob between map and reduce tasks under certain scheduler like FIFO algorithm, the performance enhanced about 81.42% especially in cases of heterogeneity environment where the workload is decreased significantly and the utilization of computa-tional resources in increased obviously.

Hadoop is a Java-based programming framework that supports the storing and processing of large data sets in a distributed computing environment and it is very much appropriate for high volume of data. It uses HDFS for data storing and uses MapReduce for processing that data. MapReduce is a popular programming model to support data-intensive applications using shared-nothing clusters. The main objective of MapReduce programming model is to parallelize the job execution across multiple nodes for execution. Nowadays, all focus of the researchers and companies toward to Hadoop. Due to this, many scheduling algorithms have been proposed in the past decades. There are three important scheduling issues in MapReduce such as locality, synchronization and fairness. The most common objective of scheduling algorithms is to minimize the completion time of a parallel application and also achieve to these issues. Performance issues are introduced for Hadoop schedulers, and comparative performance analysis between different cases of jobs submission. These jobs are processed in different homogenous data environment and, under fixed or reconfigurable slot between map and reduce tasks for Hadoop MapReduce java programming clustering model. The results showed that when assigning tunable knob between map and reduce tasks under certain scheduler like FIFO algorithm, the performance enhanced 16.66% in inverted index, 55.55% in word count and 11.76% in classification process.

Consanguinity constitutes one of the major health problems worldwide,

in which consanguineous marriages are associated with an increased risk for

congenital malformations and autosomal recessive diseases. Although the

advancement in modern biomedicine and forensic laboratories techniques continue

to guide scientists to move forward to unravel many life sciences secrets, it is still

ambiguous to investigate the full picture of milk kinship and its related

consanguinity. Theoretically, it is possible to see such consanguinity developed

from early sufficient breast-milk feeding. Thus, scientists should cooperate to

investigate the problem practically to find a proper solution. This review article

focuses on the alleged consanguinity that evolves from milk breastfeeding or

beyond through wet nursing or milk formula feeding. Additionally, this article

proposes the idea of removing milk genetic components to establish a new safe

genetically free formula as a promising solution.

In this study, the cellular viability and function of immortalized human cervical and dermal cells are monitored and compared in conventional 2D and two commercial 3D membranes, Collagen and Geltrex, of varying working concentration and volume. Viability was monitored with the aid of the Alamar Blue assay, cellular morphology was monitored with confocal microscopy, and cell cycle studies and cell death mechanism studies were performed with flow cytometry. The viability studies showed apparent differences between the 2D and 3D culture systems, the differences attributed in part to the physical transition from 2D to 3D environment causing alterations to effective resazurin concentration, uptake and conversion rates, which was dependent on exposure time, but also due to the effect of the membrane itself on cellular function. These effects were verified by flow cytometry, in which no significant differences in viable cell numbers between 2D and 3D systems were observed after 24 h culture. The results showed the observed effect was different after shorter exposure periods, was also dependent on working concentration of the 3D system and could be mediated by altering the culture vessel size. Cell cycle analysis revealed cellular function could be altered by growth on the 3D substrates and the alterations were noted to be dependent on 3D membrane concentration. The use of 3D culture matrices has been widely interpreted to result in “improved viability levels” or “reduced” toxicity or cellular “resistance” compared to cells cultured on traditional 2D systems. The results of this study show that cellular health and viability levels are not altered by culture in 3D environments, but their normal cycle can be altered as indicated in the cell cycle studies performed and such variations must be accounted for in studies employing 3D membranes for in vitro cellular screening.

Bacterial infections are one of the most dangerous infections that threaten the existence and continuity of life.

Despite the discovery and manufacturing of effective antibiotics to tackle these menaces, bacteria have developed

resistance against such treatments and transformed into new mutant resistant strains. Bacteriophages, or phages, are

regarded as effective alternative antibacterial agents. Recently, scientists have been taking a closer look at the variety of

different phages that attack bacteria. This review primarily focuses on the potential of phage therapy as an alternative

treatment to overcome a wide spectrum of resistant bacterial infections, as well as current phage therapy advancement. It

also proposes the idea of engineering “broad-spectrum phage” to overcome a wide range of resistant bacterial infections,

and its advantages over antibiotics, individual phage, and phage cocktails.