Sparse multitask regression for identifying common mechanism of response to therapeutic targets

Motivation: Molecular association of phenotypic responses is an important step in hypothesis generation and for initiating design of new experiments. Current practices for associating gene expression data with multidimensional phenotypic data are typically (i) performed one-to-one, i.e. each gene is examined independently with a phenotypic index and (ii) tested with one stress condition at a time, i.e. different perturbations are analyzed separately. As a result, the complex coordination among the genes responsible for a phenotypic profile is potentially lost. More importantly, univariate analysis can potentially hide new insights into common mechanism of response

Baby Skyrme models for a class of potentials

We consider a class of (2+1) dimensional baby Skyrme models with potentials that have more than one vacum. These potentials are generalisation of old and new baby Skyrme models;they involve more complicated dependence on phi_3.We find that when the potential is invariant under phi_3 -> -phi_3 the configuration corresponding to the baby skyrmions lying "on top of each other" are the minima of the energy. However when the potential breaks this symmetry the lowest field configurations correspond to separated baby skyrmions. We compute the energy distributions for skyrmions of degrees between one and eight and discuss their geometrical shapes and binding energies. We also compare the 2-skyrmion states for these potentials. Most of our work has been performed numerically with the model being formulated in terms of three real scalar fields (satisfying one constraint).Comment: LaTeX, 14 pages, 10 figure

Prevalence of co-morbid depression in out-patients with type 2 diabetes in Bangladesh

Background Little is known about the prevalence of depression in people with diabetes in Bangladesh. This study examined the prevalence and factors associated with depression in out-patients with Type 2 diabetes in Bangladesh. Methods In this cross-sectional study a random sample of 483 diabetes out-patients from three diabetes clinics in Bangladesh was invited to participate. Of them 417 patients took part. Depressive symptoms were measured using previously developed and culturally standardized Bengali and Sylheti versions of the World HealthOrganization-5 Well Being Index (WHO-5) and the Patient Health Questionairre-9 (PHQ-9) with predefined cut-off scores. Data was collected using two different modes; e.g. standard assisted collection and audio questionnaire methods. Associations between depression and patient characteristics were explored using regression analysis. Results The prevalence depressive symptoms was 34% (PHQ-9 score ≥ 5) and 36% (WHO-5 score < 52) with audio questionnaire delivery method. The prevalence rates were similar regardless of the type (PHQ-9 vs. WHO-5) and language (Sylheti vs. Bengali) of the questionnaires, and methods of delivery (standard assisted vs. audio methods). The significant predictors of depressive symptoms using either the PHQ-9 or WHO-5 questionnaires were; age, income, gender, treatment intensity, and co-morbid cardiovascular disease. Further, depression was strongly associated with poor glycaemic control and number of co-morbid conditions. Conclusions This study demonstrated that depression prevalence is common in out-patients with type 2 diabetes in Bangladesh. In a setting where recognition, screening and treatment levels remain low, health care providers need to focus their efforts on diagnosing, referring and effectively treating this important disease in order to improve service delivery

Role of LIS Professionals to provide authentic information sources during COVID-19 a Pandemic crisis

During the national crisis, caused by a novel pandemic such as COVID-19 virus infections, people need authentic information to face such a virus. Libraries need to come forward in such a situation as primary sources of trustworthy information by providing rapid and easy access to those seeking authentic information sources. In this crisis, giving Remote Access, Virtual Library, e-resources, Ask the Librarian reference services to the user in real-time and at scale for a range of scientific- and policy-related responses can be very significant to the academic and research community. The present study has collected data from authentic information sources, mainly Government official portals of Indian states such as the MyGov COVID-19, UTs, and National/International agencies, etc. After analyzing and studying the data, the authentic information sources served to the research community are listed out. This paper also highlights the ratio of COVID-19 publications and highly cited publication of the same, using the Scopus abstracting databases. This study is an original research work focused on the roles and responsibilities and actions taken by the Library and librarians in crisis situations. Hence this study will help Librarians, Information Providers, Practitioners, Policy Makers, Researchers, and development activity in this field

Effect of buffer gases on the performance of SO2 trace measurement based on photoacoustic spectroscopy

In this experimental work a laser photoacoustic spectrometer designed and fabricated. System sensitivity for detection of SO2 and NO 2 was measured. Resonance frequency variation versus pressure increase of Nitrogen, Argon, Helium and Air buffer gases was studied. Results show that, sensitivity of system for SO2 and NO2 are 353 ppb and 963 ppb respectively. It was shown that resonance frequency for Nitrogen, Argon, and Air buffer gases was not noticeably varied by buffer gas pressure increasing, but for Helium, resonance frequency not only is not in range of three other gases, but also grows by pressure increasing. The system noises were damped preparing two buffer chambers. © 2014 Elsevier B.V. All rights reserved

Nuclei Detection Using Mixture Density Networks

Nuclei detection is an important task in the histology domain as it is a main step toward further analysis such as cell counting, cell segmentation, study of cell connections, etc. This is a challenging task due to the complex texture of histology image, variation in shape, and touching cells. To tackle these hurdles, many approaches have been proposed in the literature where deep learning methods stand on top in terms of performance. Hence, in this paper, we propose a novel framework for nuclei detection based on Mixture Density Networks (MDNs). These networks are suitable to map a single input to several possible outputs and we utilize this property to detect multiple seeds in a single image patch. A new modified form of a cost function is proposed for training and handling patches with missing nuclei. The probability maps of the nuclei in the individual patches are next combined to generate the final image-wide result. The experimental results show the state-of-the-art performance on complex colorectal adenocarcinoma dataset.Comment: 8 pages, 3 figure

RNAI MEDIATED GENE SILENCING OF EIF3A: A POSSIBLE SOLUTION TO CONTROL BREAST CANCER

Objective: The eukaryotic translational initiation factor 3A (eIF3A) is reported to be over expressed in most breast cancer cells. In the present study, our aim is to suppress the over expression of eIF3A in human breast cancer MCF-7 cell line using gene silencing technique (RNA interference (RNAi)).Methods: The artificial microRNA (amiRNA) targeting eIF3A gene was constructed by incorporating short interference RNA (siRNA) sequences against eIF3A gene into endogenous microRNA30 (miR-30) and cloned into pcDNA3.1 vector. The amiRNA containing plasmid was then transfected into MCF-7 cell line and the expression of eIF3A was examined by RT-PCR. The cytotoxicity of plasmid with amiRNA targeting eIF3A on MCF–7 cells was evaluated by MTT assay.Results: The amiRNA construct significantly inhibited eIF3A gene expression and reduce the cell viability of MCF-7 cell line.Conclusion: The usage of modified endogenous amiRNA in vector based expression system with significant gene silencing efficiency suggests that RNAi based gene silencing method can be considered as one of the effective means to control cancer.Â