Partial DNA Assembly: A Rate-Distortion Perspective

Earlier formulations of the DNA assembly problem were all in the context of perfect assembly; i.e., given a set of reads from a long genome sequence, is it possible to perfectly reconstruct the original sequence? In practice, however, it is very often the case that the read data is not sufficiently rich to permit unambiguous reconstruction of the original sequence. While a natural generalization of the perfect assembly formulation to these cases would be to consider a rate-distortion framework, partial assemblies are usually represented in terms of an assembly graph, making the definition of a distortion measure challenging. In this work, we introduce a distortion function for assembly graphs that can be understood as the logarithm of the number of Eulerian cycles in the assembly graph, each of which correspond to a candidate assembly that could have generated the observed reads. We also introduce an algorithm for the construction of an assembly graph and analyze its performance on real genomes.Comment: To be published at ISIT-2016. 11 pages, 10 figure

Near-Infrared and Optical Studies of the fast nova V4643 Sgr (Nova Sagittarii 2001)

V4643 Sagittarii or Nova Sagittarii 2001 was discovered in outburst at 7.7 mag. on 2001 February 24. Here, we present near-infrared results of this fast classical nova obtained in the early decline phase in 2001 March followed by optical observations about one month later. Subsequently we also present near-infrared spectra taken later in the nova's evolution, about four months after the outburst, when V4643 Sgr had entered the coronal phase. The spectra in the early decline phase are dominated by emission lines of the HI Brackett series and also the Paschen beta and gamma lines. We study the cause of the excitation of the the OI line at 1.128 micron and discuss the variation in its strength with time after outburst. We discuss the role of optical depth effects on the observed strengths of the hydrogen Brackett and Paschen lines and discuss possible reasons for the puzzling behavior of the Br gamma line strength and whether it is correlated with the OI 1.128 micron line behavior. An optical spectrum is presented which shows that HeII lines are the most prominent features - after HI - to be seen in early 2001 April. We present and also discuss spectra taken in 2001 June and August which prominently show coronal lines of [Si VI] and [Si VII] at 1.9641 micron and 2.4807 micron respectively.Comment: Accepted in MNRA

Cost variation analysis study of oral anti-depressant drugs available in India

Background: Depression is a disorder of major public health importance, in terms of its prevalence and the suffering, dysfunction, morbidity and economic burden. In India, the overall prevalence of depression is reported to be 15.9%. Antidepressant drugs are available in many different brands and costs of all brands are different. Patients of depression have to take the antidepressant drug for a long duration, so cost of the antidepressant drug influence the patient adherence to treatment and it is one of the important part of rational prescription.Methods: The cost of a particular drug being manufactured by different companies in the same strength and dosage forms was obtained from “Current Index of Medical Specialties” July-October, 2015, and “DrugsUpadate.com”. The cost ratio and percentage cost variation was calculated.Results: The prices of a total of 28 drugs (22 single and 6 combination preparations) available in 64 different formulations were analyzed. In single drug therapy, among Tri cyclic antidepressants (TCAs), Reboxetine (2 mg) showed the maximum price variation of 900%. In SSRIs, Dapoxetine (30 mg) showed the maximum price variation of 2360%. In SNRIs, Venlafaxine (75 mg) showed the maximum price variation of 109%. In Atypical antidepressants, Bupropion (150 mg) showed the maximum price variation of 515.38%. In RIMAs, Moclobemide (150 mg) showed the maximum price variation of 246.15% and in combination therapies, Amitriptyline with Chlordiazepoxide showed the maximum price variation of 129.35%.Conclusions: This study shows a wide variation in the prices of oral Anti-depressant drugs available in India. Psychiatrist/ Physician should consider the cost while prescribing antidepressant drugs. India being developing country most of the people belong to poor socioeconomic status, so prescribing same generic drug with low cost reduces economic burden and improves patient adherence to treatment which results in better outcome

A practical multi-spectrum Hadamard Transform Spectrometer

A Hadamard Transform Spectrometer (HTS) which simultaneously obtains fifteen infrared spectra, each having 255 spectral elements was constructed. Spectra are obtained essentially in real time through use of a minicomputer with 8K words of memory and a CRT display. This permits operation of the instrument in the field

Solution decomposition of the layered double hydroxide of Co with Fe: Phase segregation of normal and inverse spinels

The nitrate-intercalated layered double hydroxide of Co with Fe decomposes on hydrothermal treatment to yield an oxide residue at a temperature as low as 180 °C. The oxide product is phase segregated into a Co3O4-type normal spinel and a CoFe2O4-type inverse spinel. Phase segregation is facilitated as decomposition in a solution medium takes place by dissolution of the precursor hydroxide followed by reprecipitation of the oxide phases. In contrast, thermal decomposition takes place at 400 °C. This temperature is inadequate to induce diffusion in the solid state whereby phase segregation into the thermodynamically stable individual spinels is suppressed. The result is a single-phase metastable mixed spinel oxide. This is rather uncommon in that a hydrothermal treatment yields thermodynamically stable products where as thermal decomposition yields a metastable product. © 2008 Elsevier Inc. All rights reserved

A study of drug utilisation pattern in patients of chronic kidney disease at a tertiary care hospital

Background: Chronic kidney disease (CKD) is a major public health issue and widely prevalent non-communicable disease in India. CKD has a complex pharmacotherapy and it inevitably requires poly-pharmacy. CKD patients require to take medications for a lifelong period, which makes it very important to study the prescribing trends on a regular basis. The main objective of the study was to analyse current prescribing trends in the management of CKD patients and to know whether the prescribing rationality was maintained.Methods: After Institutional Ethics Committee approval, a prospective         Cross-sectional study was carried out at Nephrology department of a tertiary care hospital for a period of six months from 1st June 2017 to 30th November 2017. Patients diagnosed with CKD by treating Nephrologist were included and their prescriptions were analysed to study the prescribing patterns.Results: A total of 120 cases were analysed during the study, of which 81.7% were males and 18.3% were females. Analysis of WHO core drug prescribing indicators showed that the average number of drugs prescribed per patient was 5.13, percentage of drugs prescribed by generic name was 30.03%, percentage of patients with an injection prescribed was 16.6%, percentage of drugs prescribed from essential medicine list was 65.8% and percentage of patients prescribed with an antibiotic was 10.8%. Antihypertensive drugs (39.9%) were the most commonly used drugs, followed by, calcium salts (12.01%), multi-vitamins (7.6%), oral iron supplements (6.8%), erythropoietin (6.3%) and ulcer protectives (6.1%).Conclusions: Maximum number of drugs were prescribed from cardiovascular class of drugs. Calcium channel blockers and diuretics were the commonest group of antihypertensives prescribed. The principle of rational prescribing was followed

A green Hibiscus cannabinus oil emollient cream for potential topical applications

A green emollient cream with Hibiscus cannabinus seed oil and an alkyl polyglucoside surfactant has been formulated. It can serve as biological alternatives to synthetic formulations that normally incorporate chemical constituents as surfactants and stabilizers mainly to increase consumer compliance in terms of textural and visual aesthetics. FAME analysis of the oil showed the presence octanoic and decanoic acids. The cream after formulation and ultrasonication, presented a smooth and soft appearance with visual and textural appeal. It showed a mean particle size of 138 nm with a zeta potential of -59.2 mV and an electrophoretic mobility of -0.000459 cm2/Vs. Its SEM image projected well dispersed oil globules in water. FTIR spectrum showed extensive hydrogen bonding. Accelerated stability tests under conditions of freeze thawing, heating cooling and centrifugation revealed no cracking, creaming or phase separation. Similar results were observed during the shelf life studies. It is concluded that this Hibiscus cannabinus cream can be utilized as an emollient base for loading cosmopharmaceutic ingredients for their topical delivery, without any toxicity concerns, as it is formulated from completely natural constituents