Miracle-dz/UniFAR-FTUs huggingface dataset:
MPLS-BASED MOBILITY MANAGEMENT FOR WIRELESS CELLULAR NETWORKS

Acknowledgments First of all, I would like to thank my supervisor, Professor Victor Leung for his guidance, advice and support my graduate studies. I feel very lucky that Professor Victor Leung offered me an opportunity to study here. It has also been a privilege and an honor to work under the guidance of my co-supervisor, Professor Vincent Wong. It is through his comments, thoughts and opinions that my research has gradually been crafted and refined. I wish to express my sincere apologies to my parents, Hehua Song and Shuihai Xie, who live in the remote countryside of China. I could not stay with you during this time, and could not support you as before. Sorry, Dad and Mom. Last but not least, many thanks to my wife, Lingzhi Liang, for her love, understanding, encouragement and patience, which helped me through this difficult and rewarding time.
Electrophysiological properties of human β-cell lines EndoC-βH1 and -βH2 conform with human β-cells

The electrophysiological and secretory properties of the human β-cell lines EndoC-βH1 and EndoC-βH2 were investigated. Both cell lines respond to glucose (6-20mM) with 2-to 3-fold stimulation of insulin secretion, an effect that was mimicked by tolbutamide (0.2mM) and reversed by diazoxide (0.5mM). Glucose-induced insulin release correlated with an elevation of [Ca2+]i, membrane depolarization and increased action potential firing. KATP channel activity at 1mM glucose is low and increasing glucose to 6 or 20mM reduced KATP channel activity to the same extent as application of the KATP channel blocker tolbutamide (0.2mM). The upstroke of the action potentials in EndoC-βH1 and −βH2 cells observed at high glucose principally reflects activation of L- and P/Q-type Ca2+ channels with some small contribution of TTX-sensitive Na+ channels. Action potential repolarization involves activation of voltage-gated Kv2.2 channels and large-conductance Ca2+-activated K+ channels. Exocytosis (measured by measurements of membrane capacitance) was triggered by membrane depolarizations >10ms to membrane potentials above -30mV. Both cell lines were well-granulated (6,000-15,000 granules/cell) and granules consisted of a central insulin core surrounded by a clear halo. We conclude that the EndoC-βH1 and -βH2 cells share many features of primary human β-cells and that they represent a useful experimental model.
Using ESTIMATE and CONTRAST Statements for Customized Hypothesis Tests

ESTIMATE and CONTRAST statements in a number of SAS procedures permit customized hypothesis tests and make special statistical comparisons easy to perform. The key to using these two statements is to determine the proper weights, which can be very challenging in complicated cases. Using PROC GLM and ANOVA model, this paper discusses a process for obtaining the weights appropriate for the intended customized comparison. Examples using the process are also provided. INTRODUCTION PROC GLM is a powerful procedure for data analysis. The LSMEAN statement of PROC GLM allows the user to obtain the least square means or LS-means for different effects in the model. By specifying the PDIFF option in the LSMEAN statement, the user can also obtain p-values for the differences of the LS-means. By default, the PDIFF option causes p-values for all pairwise comparisons to be produced. The user can certainly specify that all comparisons will be made against the control. The user needs to be aware that the LSMEAN statement of PROC GLM does not provide the magnitude of the differences for the comparisons involved. In addition, the LSMEAN statement doesn't perform complex or customized comparisons. To request what the LSMEAN statement doesn't provide, the user can turn to the ESTIMATE and the CONTRAST statements. These two statements permit a spectrum of customized comparisons. The key to using the ESTIMATE and the CONTRAST statements is to have the right weights. For simple comparisons, the weights are fairly easy to obtain. For complicated comparisons, determining appropriate weights can be challenging. This paper will describe a process for selecting the weights for the ESTIMATE and the CONTRAST statements and illustrate the process by examples. The framework will be the ANOVA model using PROC GLM in SAS Release 9.1. 3 and the scope will be comparison of means.
Integrative analysis of RNA, translation and protein levels reveals distinct regulatory variation across humans

Elucidating the consequences of genetic differences between humans is essential for understanding phenotypic diversity and personalized medicine. Although variation in RNA levels, transcription factor binding and chromatin have been explored, little is known about global variation in translation and its genetic determinants. We used ribosome profiling, RNA sequencing, and mass spectrometry to perform an integrated analysis in lymphoblastoid cell lines from a diverse group of individuals. We find significant differences in RNA, translation, and protein levels suggesting diverse mechanisms of personalized gene expression control. Combined analysis of RNA expression and ribosome occupancy improves the identification of individual protein level differences. Finally, we identify genetic differences that specifically modulate ribosome occupancy - many of these differences lie close to start codons and upstream ORFs. Our results reveal a new level of gene expression variation among humans and indicate that genetic variants can cause changes in protein levels through effects on translation.
Data-driven detection of latent atrophy factors related to phenotypical variants of posterior cortical atrophy

Posterior cortical atrophy is a clinical-radiological syndrome characterized by visual processing deficits and atrophy in posterior parts of the brain, most often caused by Alzheimer’s disease pathology. Recent consensus criteria describe four distinct phenotypical variants of posterior cortical atrophy defined by clinical and radiological features; i) object perception/occipitotemporal (ventral), ii) space perception/temporoparietal (dorsal), iii) non-visual/dominant parietal and iv) primary visual (caudal). We employed a data-driven approach to identify atrophy factors related to these proposed variants in a multi-center cohort of 119 individuals with posterior cortical atrophy (age: 64 SD 7, 38% male, MMSE: 21 SD 5, 71% amyloid-β positive, 29% amyloid-β status unknown). A Bayesian modelling framework based on latent Dirichlet allocation was used to compute four latent atrophy factors in accordance with the four proposed variants. The model uses standardized gray matter density images as input (adjusted for age, sex, intracranial volume, field strength and whole-brain gray matter volume) and provides voxelwise probabilistic maps for all atrophy factors, allowing every individual to express each factor to a degree without a priori classification. The model revealed four distinct yet partially overlapping atrophy factors; right-dorsal, right-ventral, left-ventral, and limbic. Individual participant profiles revealed that the vast majority of participants expressed multiple factors, rather than predominantly expressing a single factor. To assess the relationship between atrophy factors and cognition, neuropsychological test scores covering four posterior cortical atrophy-specific cognitive domains were assessed (object perception, space perception, non-visual parietal functions and primary visual processing) and we used general linear models to examine the association between atrophy factor expression and cognition. We found that object perception and primary visual processing were associated with atrophy that predominantly reflects the right-ventral factor. Furthermore, space perception was associated with atrophy that predominantly represents the right-ventral and right-dorsal factors. Similar to the atrophy factors, most participants had mixed clinical profiles with impairments across multiple domains. However, when selecting four participants with an isolated impairment, we observed atrophy patterns and factor expressions that were largely in accordance with the hypothesized variants. Taken together, our results indicate that variants of posterior cortical atrophy exist but these constitute phenotypical extremes and most individuals fall along a broad clinical-radiological spectrum, indicating that classification into four mutually exclusive variants is unlikely to be clinically useful.
Aequorea victoria’s secrets

Using mRNA-Seq and de novo transcriptome assembly, we identified, cloned and characterized nine previously undiscovered fluorescent protein (FP) homologs from Aequorea victoria and a related Aequorea species, with most sequences highly divergent from avGFP. Among these FPs are the brightest GFP homolog yet characterized and a reversibly photochromic FP that responds to UV and blue light. Beyond green emitters, Aequorea species express purple- and blue-pigmented chromoproteins (CPs) with absorbances ranging from green to far-red, including two that are photoconvertible. X-ray crystallography revealed that Aequorea CPs contain a chemically novel chromophore with an unexpected crosslink to the main polypeptide chain. Because of the unique attributes of several of these newly discovered FPs, we expect that Aequorea will, once again, give rise to an entirely new generation of useful probes for bioimaging and biosensing.
Molecular cloning and characterization of SOCS2 from the mealworm beetle Tenebrio molitor

The suppressor of cytokine signaling (SOCS) family of proteins negatively regulate cytokine receptor signaling via the Janus kinase/signal transducer and activator of transcription (STAT) pathway. In this study, we discovered the SOCS2 homolog in the mealworm beetle Tenebrio molitor (TmSOCS2). The full‐length ORF sequence of TmSOCS2 was cloned, and expression pattern in the insect's developmental stages and tissues were investigated. TmSOCS2 encodes 254 amino acid polypeptide consisting of the conserved Src homology 2 (SH2) and SOCS box domains. The amino acid sequence of TmSOCS2 showed maximum 77% identity and minimum evolutionary distance of 0.228 with SOCS2 protein of another related beetle, Tribolium castaneum (TcSOCS2). In the phylogenetic tree, TmSOCS2 and TcSOCS2 formed a separate cluster showing evolutionary relatedness with the hemipteran bug Lygus hesperus SOCS2 (LhSOCS2). TmSOCS2 mRNA was maximally expressed in the egg stage of the insect. High relative expression of TmSOCS2 was observed in the Malpighian tubules during the insect's larval and adult stages. TmSOCS2 mRNA expression was significantly (P < 0.05) upregulated by E. coli challenge in the fat body tissue of T. molitor larvae. In hemocytes, early expression (at 3–6 h) of TmSOCS2 mRNA was observed after S. aureus and C. albicans challenge. Discovery and expression analysis of the SOCS2 homolog from the mealworm beetle T. molitor support transcript's putative involvement in the insect innate immune responses.
Multiplex chromatin interaction analysis by signal processing and statistical algorithms

The single-molecule multiplex chromatin interaction data generated by emerging non-ligation-based 3D genome mapping technologies provide novel insights into high dimensional chromatin organization, yet introduce new computational challenges. We developed MIA-Sig (https://github.com/TheJacksonLaboratory/mia-sig.git), an algorithmic framework to de-noise the data, assess the statistical significance of chromatin complexes, and identify topological domains and inter-domain contacts. On chromatin immunoprecipitation (ChIP)-enriched data, MIA-Sig can clearly distinguish the protein-associated interactions from the non-specific topological domains.
Face recognition in unrestricted posture using invariant image information

In order to realize the face recognition in unrestricted posture, it is required to exclude an influence of three-dimensional face pose which cause a shape distortion and a change of a distance among face parts. Also it is required not to be influenced by the face image change on size. In this paper, the authors propose an invariant pattern on face image, which is shift-invariant and rotation-invariant in orthogonal plane to the camera and is shift-invariant toward depth. We also propose a method for detecting the face position and face pose in unknown posture. Furthermore we show an experimental result, which is performed to verity the efficacy of the method.
Scalability model for multi-GPU computation of stencil applications using regular structured meshes with explicit time integration

: A multiple-GPU scalability model is presented for large-scale stencil applications with explicit time integration running on regular structured meshes. The cost to exchange the boundary data of the decomposed domain is the major factor to degrade the scalability. The presented model predicts this prior to application development. In this model, GPU computation time and both GPU-CPU and inter-node communication times are considered as the components of elapsed times in applications. This computation time is evaluated by the number of ﬂoating-point operations and the amount of memory access in an application. The communication times are evaluated as a function of transferred data size. For the evaluation of this model, a di ﬀ usion equation and a lattice Boltzmann method are performed on the TSUBAME2.0 supercomputer and a Cray XK6m system at Tokyo Institute of Technology. This model can su ﬃ ciently predict the results of measured performance in these applications.
Methane Emissions from Ruminant Livestock in Ethiopia: Promising Forage Species to Reduce CH4 Emissions

This paper assesses the ability of fodder plants to reduce methane (CH4) emissions while simultaneously improving animal productivity in Ethiopia. Enteric CH4 emissions from ruminants in Ethiopia increased by 12% or ≈ 6197 Gg CO2-eq. in 2017 compared to the year 2011. In this study, six tropical multipurpose forages (Leucaena leucocephala (Lam.) de Wit, Moringa stenopetala (Bak.f.) Cuf. , Sesbania sesban (L.) Merr. , Cajanus cajan (L.) Millsp. , Crotalaria juncea L. , and Lablab purpureus L. (Sweet)) and maize stover were characterized in terms of chemical composition, in vitro CH4 production, and CH4 concentration (%). The objective was to identify forages with low CH4 production potential but with adequate forage quality. The forages differed significantly in chemical composition and in enteric CH4 emission. The dry matter (DM), ash, crude protein (CP), neutral detergent fibre (NDF), acid detergent fibre (ADF), and acid detergent lignin (ADL) ranged between 89.4–95.4%, 6.08–12.5%, 3.3–30.7%, 20.4–76.0%, 10.8–44.8, and 2.9–14.1%, respectively. All forage plants, except maize stover, contained high CP content above a threshold value (i.e., 7%). Cajanus c. generates the lowest amount of CH4 (32.83 mL/0.2 g DM incubated). CH4 concentration (%) was used as a potential indicator to determine the capacity of a plant to lower CH4 production. Among the studied species, L. purpureus showed the highest CH4 reduction potential (16%) followed by C. juncea (23.45%), M. stenopetala (24.2%), and L. leucocephala (25.5%). Moringa s. was the most frequently preferred by the farmers followed by C. juncea and L. leucocephala. We concluded that M. stenopetala, C. juncea, and L. leucocephala can be promoted as valuable feed resources for ruminants while simultaneously reducing CH4 emissions.
Towards a Historical Ecology of Intertidal Foraging in the Mafia Archipelago: Archaeomalacology and Implications for Marine Resource Management

Understanding the timing and nature of human influence on coastal and island ecosystems is becoming a central concern in archaeological research, particularly when investigated within a historical ecology framework. Unfortunately, the coast and islands of eastern Africa have not figured significantly within this growing body of literature, but are important given their historically contingent environmental, social, and political contexts, as well as the considerable threats now posed to marine ecosystems. Here, we begin developing a longer-term understanding of past marine resource use in the Mafia Archipelago (eastern Africa), an area of high ecological importance containing the Mafia Island Marine Park. Focusing on the comparatively less researched marine invertebrates provides a means for initiating discussion on potential past marine ecosystem structure, human foraging and environmental shifts, and the implications for contemporary marine resource management. The available evidence suggests that human-environment interactions over the last 2000 years were complex and dynamic; however, these data raise more questions than answers regarding the specific drivers of changes observed in the archaeomalacological record. This is encouraging as a baseline investigation and emphasizes the need for further engagement with historical ecology by a range of cognate disciplines to enhance our understanding of these complex issues.
Central Exogenous Neuropeptide‐S Ameliorates Stress‐induced Impaired Gastric Emptying through Orexin‐mediated Pathway in Rats

Stress is widely believed to play a major role in developing functional gastrointestinal (GI) disorders. Acute restraint stress (ARS) stimulates corticotrophin releasing factor (CRF) in the amygdala and paraventricular nucleus (PVN) of the hypothalamus which in turn plays a dominant role to delay gastric emptying (GE) via peripheral autonomic neural pathways in rats. Neuropeptide‐S (NPS), composed of 20 amino acids, is the endogenous ligand for the NPS receptor (NPSR) which is highly conserved in vertebrates including human. Within central nervous system (CNS), the NPS‐producing neurons are found mainly in locus coeruleus (LC) and amygdala which is involved in coping with fear and stress. Activation of the hypothalamus by stress is likely to be mediated in part by amygdala, the key limbic structure involved in the stress‐induced effects on the GI functions. Furthermore, CRF has been shown to excite NPS neurons in LC through the CRF‐1 receptor. In rodents, centrally administered NPS has been shown to inhibit anxiety, stress behaviors and stress‐stimulated fecal output in the rats. Orexin‐A (OXA), a hypothalamic neuropeptide, regulates feeding activity, energy homeostasis and arousal. Orexin receptor type‐1 (OXR1) is highly expressed in the dorsal vagal motor nucleus and OXA was shown to stimulate postprandial gastric motor functions via central vagal pathways. On the other hand, it has been shown that centrally administered NPS activates orexin‐containing neurons in hypothalamus in rats suggesting that OXA may contribute to the NPS‐mediated alterations in gastric motor functions under stressed conditions. To perform neuropeptide microdialysis, a microdialysis probe with large pore membrane was unilaterally placed into the central amygdala and LC. Central administrations of the drugs were performed through an injection cannula stereotaxically placed in the right lateral ventricle. NPS concentrations in microdialysates were assayed using EIA method. Solid GE was measured following an overnight fasting. Compared to their basal levels, ARS significantly reduced the NPS concentrations both in LC (5564.8 ± 186.8 ng/ml vs 562.9 ± 86.8 ng/ml, p<0.01) and amygdala (5197.7 ± 217.1 ng/ml vs 91.8 ± 12.18 ng/ml, p<0.01). In control rats, GE was 61.2 ± 3.4%. ARS significantly delayed gastric emptying 24.4 ± 3.2%; whereas, central administration of NPS (8 nmol, icv) completely restored the delayed GE induced by ARS (62.5 ± 5.7%, p<0.01). Pretreatment of selective OXA antagonist SB‐334867 (40 μg, icv) significantly (p<0.05) abolished the NPS‐induced restoration of delayed GE (38.9 ± 2.7%, p<0.05). It is suggested that stress may alter NPS expression within CNS. Exogenous administration of NPS restores stress‐induced gastric dysmotility which was abolished by OXA antagonist, suggesting that the effect of NPS on stress‐induced gastric motility is partly OXA‐dependent. Central NPS may be a novel candidate for the treatment of stress‐induced gastric motility disorders.
Molecular characterization and phylogenetic analysis of Bovine and Human Rotavirus

Rotavirus infection is a viral disease, caused by Rotavirus belonging from Reoviridae family. Young ones of animals and human are most susceptible to this disease. However, adult animals and human with infection may also show similar signs at some extent. The disease is infectious-communicable among buffalo and human, there is a wide range of morbidity and mortality. In the present study, 49 faecal samples from buffalo and 55 stool samples from human, showing the signs and symptoms related to Rotavirus infection were collected. It was observed that out of 49 faecal samples from buffalos, 10 samples and out of 55 human stool samples, 21 samples were found positive for RNA-PAGE. Representative PAGE positive fecal and stool samples, 6 each were selected for RT-PCR and out of 6 fecal samples, 3 samples were found positive and out of six stool samples, 3 samples were confirmed positive for Rotavirus infection. One sample from buffalo and one from human were sent for sequencing. The phylogenetic analysis was carried out and it was confirmed that the positive samples were showing relatedness with the Rotavirus sequences taken from GenBank. As per the sequences brought, it was confirmed that the virus was originating from the eastern part of India (West Bengal). Therefore it is indicative of circulation of virus from state to state in India can be possible. The buffalo sample was showing relatedness with human rotavirus sequence, which is indicative of sharing of Rotavirus between human and animal.
«Методы Прогнозирования С Использованием Больших Массивов Данных» (Forecasting Using Large Data Sets)

Russian Abstract: В работе описаны основные подходы к прогнозированию макроэкономических показателей с использованием больших массивов данных, а также приведен обзор эмпирических работ в этой области. English Abstract: The paper describes main approaches to forecasting of macroeconpmic time series by way of using large data sets. The authors also provide a review of theoretical and empirical wokrs in this field.
Efficient pan-cancer whole-slide image classification and outlier detection using convolutional neural networks

Visual analysis of solid tissue mounted on glass slides is currently the primary method used by pathologists for determining the stage, type and subtypes of cancer. Although whole slide images are usually large (10s to 100s thousands pixels wide), an exhaustive though time-consuming assessment is necessary to reduce the risk of misdiagnosis. In an effort to address the many diagnostic challenges faced by trained experts, recent research has been focused on developing automatic prediction systems for this multi-class classification problem. Typically, complex convolutional neural network (CNN) architectures, such as Google’s Inception, are used to tackle this problem. Here, we introduce a greatly simplified CNN architecture, PathCNN, which allows for more efficient use of computational resources and better classification performance. Using this improved architecture, we trained simultaneously on whole-slide images from multiple tumor sites and corresponding non-neoplastic tissue. Dimensionality reduction analysis of the weights of the last layer of the network capture groups of images that faithfully represent the different types of cancer, highlighting at the same time differences in staining and capturing outliers, artifacts and misclassification errors. Our code is available online at: https://github.com/sedab/PathCNN.