Miracle-dz/UniFAR-FTUs huggingface dataset:
Adaptive entropy coded subband coding of images

The authors describe a design approach, called 2-D entropy-constrained subband coding (ECSBC), based upon recently developed 2-D entropy-constrained vector quantization (ECVQ) schemes. The output indexes of the embedded quantizers are further compressed by use of noiseless entropy coding schemes, such as Huffman or arithmetic codes, resulting in variable-rate outputs. Depending upon the specific configurations of the ECVQ and the ECPVQ over the subbands, many different types of SBC schemes can be derived within the generic 2-D ECSBC framework. Among these, the authors concentrate on three representative types of 2-D ECSBC schemes and provide relative performance evaluations. They also describe an adaptive buffer instrumented version of 2-D ECSBC, called 2-D ECSBC/AEC, for use with fixed-rate channels which completely eliminates buffer overflow/underflow problems. This adaptive scheme achieves performance quite close to the corresponding ideal 2-D ECSBC system.
The Main Coronary Artery (LMCA) Thrombus Presented as an ST Elevation Myocardial Infarction in a Hypercoagulable Patient

Left main coronary artery (LMCA) thrombus is a clinically rare event and is thought to be secondary to plaque rupture with subsequent thrombus formation, persistent hypercoagulable state, cocaine use, or vasospasm. (Klein et al., 2008) here we present a case of LMCA thrombus that presented as an ST elevation myocardial infarction (STEMI) in a hypercoagulable patient.
IAD : Cough , Poor Performance , Mucus in the Airways — What Is So Important About That ?

The lower respiratory tract responds to a variety of inhaled irritants in a stereotypical way by coughing, increasing mucus secretion, and bronchospasm. The purpose of such response is to limit further inhalation of irritants and to accelerate their removal from the respiratory tract. Additional defense mechanisms involve alveolar macrophages, airway-associated lymphoid tissue, and systemic immunity. Substances irritant to the airways may be infectious agents (viruses, bacteria, mycoplasma, fungi), parasites, endotoxins, molds, dust, noxious gases, or pollutants. Airway inflammation may result if exposure to the irritant is of sufficient magnitude. Lower airway inflammatory diseases include infectious and parasitic diseases, interstitial pneumonia, recurrent airway obstruction (RAO) or heaves, and inflammatory airway disease (IAD). Inflammatory airway disease is an incompletely characterized pulmonary disorder that is most commonly observed in young, athletic horses. Contrary to other lower airway inflammatory diseases, clinical signs of IAD are subtle and include chronic cough, excess mucus in the trachea, and poor performance; otherwise, horses have a normal attitude and appetite, are not febrile, and do not exhibit increased respiratory effort at rest. Recently, a panel of international experts recommended using the term IAD instead of small-airway inflammatory disease, small-airway disease, and bronchitis/bronchiolitis, which have been used in the past to describe the disease. In addition to terminology issues, confusion may result from horses with IAD being included in broader disease categories such as undifferentiated pulmonary disorders, chronic obstructive pulmonary disease, and lower airway disease. The purpose of the following discussion is to clarify our current understanding of IAD focusing on clinical characteristics.
ETHICAL CHALLENGES THAT ARISE AT THE COMMUNITY INTERFACE OF HEALTH RESEARCH: VILLAGE REPORTERS' EXPERIENCES IN WESTERN KENYA

Community Engagement (CE) has been presented by bio-ethicists and scientists as a straightforward and unequivocal good which can minimize the risks of exploitation and ensure a fair distribution of research benefits in developing countries. By means of ethnographic fieldwork undertaken in Kenya between 2007 and 2009 we explored how CE is understood and enacted in paediatric vaccine trials conducted by the Kenyan Medical Research Institute and the US Centers for Disease Control (KEMRI/CDC). In this paper we focus on the role of paid volunteers who act as an interface between villagers KEMRI/CDC. Village Reporters’ (VRs) position of being both with the community and with KEMRI/CDC is advantageous for the conduct of trials. However it is also problematic in terms of exercising trust, balancing allegiances and representing community views. VRs role is shaped by ambiguities related to their employment status and their dual accountability to researchers and their villages. VRs are understandably careful to stress their commitment to self-less community service since it augments their respectability at community level and opens up opportunities for financial gain and self-development. Simultaneously VRs association with KEMRI/CDC and proximity to trial participants requires them to negotiate implicit and explicit expectations for material and medical assistance in a cultural setting in which much importance is placed on sharing and mutuality. To ensure continuity of productive interactions between VRs, and similar community intermediaries, and researchers, open discussion is needed about the problematic aspects of relational ethics, issues concerning undue influence, power relations and negotiating expectations.
The 67gallium pulmonary leak index in assessing the severity and course of the adult respiratory distress syndrome.

OBJECTIVE To establish the value of the 67Gallium (Ga) pulmonary leak index, a marker of increased permeability edema of the lungs, in assessing the severity and course of the adult respiratory distress syndrome (ARDS). DESIGN Prospective observational study. SETTING Medical intensive care unit of a university hospital. PATIENTS Seventeen consecutive, mechanically-ventilated ARDS patients. Eleven patients (recovering from ARDS) improved, as defined by the ability to taper the level of positive end-expiratory pressure (PEEP) to 0 cm H2O at a median of 7 days after admission. Ten patients survived. Six patients did not recover and died a median of 3.5 days after admission. INTERVENTIONS None. MEASUREMENTS AND MAIN RESULTS The pulmonary leak index (i.e., upper limit of normal 14.1 x 10(-3)/min) was measured within 72 hrs after admission, and repeated within 48 hrs at the time of recovery in recovering patients. At admission and recovery, respiratory variables were recorded and a lung injury score was calculated. At admission, the pulmonary leak index was increased in each patient to 32.3 (range 15.6 to 52.4) and 28.7 (range 26.0 to 40.8) x 10(-3)/min in recovering and nonrecovering patients, respectively (NS). Groups did not differ with respect to the oxygenation ratio, the level of PEEP, radiographic abnormalities, and the lung injury score. At recovery, the pulmonary leak index in recovering patients had decreased in each patient and had normalized in four patients, averaging 15.2 (range 5.6 to 25.9) x 10(-3)/min, concomitantly with an increased oxygenation ratio, less radiographic abnormalities, and a decreased lung injury score (p < .01 vs. admission). For pooled recovering and nonrecovering patient data, the pulmonary leak index directly related to the lung injury score (p < .005). CONCLUSIONS The 67Ga pulmonary leak index may be a clinically useful tool to quantify the severity and course of ARDS, since clinical recovery from the syndrome may be characterized by amelioration of increased microvascular permeability.
Efficacy of individual auditory training in adults: a systematic review of the evidence.

A systematic review of the literature was conducted addressing the following question, "Is there evidence of improvement in communication skills through individual auditory training in an adult hearing-impaired population? " Keywords and authors were used as search terms in eight major indexes, and seven textbooks were reviewed for related references. The level of evidence that was accepted included randomized controlled trials, nonrandomized controlled trials, cohort, and before/after designs with or without control groups. Two hundred thirteen articles were identified during the preliminary search with 171 of these eliminated by review of abstracts because they did not meet the search criteria. Forty-two manuscripts were reviewed, with six meeting the evidence and search criteria. The strengths and weaknesses of these studies are high-lighted, and the systematic review question is answered in light of these studies. In addition, elements critical to the future of auditory training research and clinical practice are offered.
Effect of Glucose‐Insulin‐Potassium Infusion on Myocardial Infarction following Experimental Coronary Artery Occlusion

The effects of glucose-insulin-potassium (GIK) infusion and glucose (G) infusion started 30 min after experimental coronary occlusion and the combination of GIK and propranolol (P) started 3 hours after coronary occlusion on the development of myocardial infarction were studied in 37 dogs. Fifteen minutes after the coronary occlusion, epicardial electrocardiograms were recorded at 10-15 sites; 24 hours later transmural specimens were obtained from the same sites for determination of myocardial creatine phosphokinase (CPK) activity and the evaluation of morphologic changes. In the control group (normal saline infusion) the relationship between S-T-segment elevation (mv) 15 min after occlusion and CPK activity (IU/mg of protein) 24 hours later was: log CPK = −0.064 S-T + 1.24; r = 0.81. In the GIK group, the infusion was begun 15 min following epicardial mapping, and sites with the same S-T-segment elevations showed less CPK depression than did the control group: log CPK = −0.022 S-T + 1.25. The G group also showed less CPK depletion than the control group but to a somewhat lesser extent than the GIK group (log CPK = −0.030 S-T + 1.20). The group receiving GIK and P 3 hours after occlusion also showed less CPK depression than did the control group (log CPK = −0.034 S-T + 1.26). Histologic analysis in 24-hour specimens showed that sites which exhibited S-T-segment elevation 15 min after occlusion showed normal histology in 3% of specimens obtained from control dogs, while the other 97% showed early signs of myocardial infarction. However, in the GIK group, 36% of the specimens with S-T-segment elevation prior to the infusion were histologically normal 24 hours later, while in the G group 30% were normal, and in the GIK and P group 17% were normal. Electron microscopy confirmed the morphologic changes observed by light microscopy. Thus, in the presence of experimental coronary occlusion, GIK exerts a protective effect against myocardial ischemia and reduces the extent of myocardial necrosis. G alone acts similarly but to a lesser degree, while a beneficial effect can also be demonstrated when GIK and P are started 3 hours after the onset of coronary occlusion.
Postmortem validation of MRI cortical volume measurements in MS

Grey matter (GM) atrophy is a prominent aspect of multiple sclerosis pathology and an important outcome in studies. GM atrophy measurement requires accurate GM segmentation. Several methods are used in vivo for measuring GM volumes in MS, but assessing their validity in vivo remains challenging. In this postmortem study, we evaluated the correlation between postmortem MRI cortical volume or thickness and the cortical thickness measured on histological sections. Sixteen MS brains were scanned in situ using 3DT1‐weighted MRI and these images were used to measure regional cortical volume using FSL‐SIENAX, FreeSurfer, and SPM, and regional cortical thickness using FreeSurfer. Subsequently, cortical thickness was measured histologically in 5 systematically sampled cortical areas. Linear regression analyses were used to evaluate the relation between MRI regional cortical volume or thickness and histological cortical thickness to determine which postprocessing technique was most valid. After correction for multiple comparisons, we observed a significant correlation with the histological cortical thickness for FSL‐SIENAX cortical volume with manual editing (std. β = 0.345, adjusted R2 = 0.105, P = 0.005), and FreeSurfer cortical volume with manual editing (std. β = 0.379, adjusted R2 = 0.129, P = 0.003). In addition, there was a significant correlation between FreeSurfer cortical thickness with manual editing and histological cortical thickness (std. β = 0.381, adjusted R2 = 0.130, P = 0.003). The results support the use of FSL‐SIENAX and FreeSurfer in cases of severe MS pathology. Interestingly none of the methods were significant in automated mode, which supports the use of manual editing to improve the automated segmentation. Hum Brain Mapp 37:2223–2233, 2016. © 2016 Wiley Periodicals, Inc.
A phosphatidylinositol transfer protein integrates phosphoinositide signaling with lipid droplet metabolism to regulate a developmental program of nutrient stress–induced membrane biogenesis

The Sec14-like phosphatidylinositol transfer protein Sfh3 associates with bulk LDs in vegetative cells but targets to a neutral lipid hydrolase-rich LD pool during sporulation. Sfh3 inhibits LD utilization by a PtdIns-4-phosphate–dependent mechanism, and this inhibition prevents prospore membrane biogenesis in sporulating cells.
Synthesis of 2-Phenylazonaphtho[1,8-ef][1,4]diazepines and 9-(3-Arylhydrazono)pyrrolo[1,2-a]perimidines as Antitumor Agents

Two series of naphtho[1,8-ef][1,4]diazepines and pyrrolo[1,2-a]perimidines were prepared starting from 1,8-diaminonaphthalene and hydrazonoyl chlorides. The structures of the products were determined on the basis of their spectral data and elemental analyses. The mechanism of formation of such products was also discussed. The prepared compounds were screened for their antitumor activity against three cell lines, namely, MCF-7, TK-10 and UACC-62, and some derivatives showed promising activity.
Analysis of sample set enrichment scores: assaying the enrichment of sets of genes for individual samples in genome-wide expression profiles

MOTIVATION Gene expression profiling experiments in cell lines and animal models characterized by specific genetic or molecular perturbations have yielded sets of genes annotated by the perturbation. These gene sets can serve as a reference base for interrogating other expression datasets. For example, a new dataset in which a specific pathway gene set appears to be enriched, in terms of multiple genes in that set evidencing expression changes, can then be annotated by that reference pathway. We introduce in this paper a formal statistical method to measure the enrichment of each sample in an expression dataset. This allows us to assay the natural variation of pathway activity in observed gene expression data sets from clinical cancer and other studies. RESULTS Validation of the method and illustrations of biological insights gleaned are demonstrated on cell line data, mouse models, and cancer-related datasets. Using oncogenic pathway signatures, we show that gene sets built from a model system are indeed enriched in the model system. We employ ASSESS for the use of molecular classification by pathways. This provides an accurate classifier that can be interpreted at the level of pathways instead of individual genes. Finally, ASSESS can be used for cross-platform expression models where data on the same type of cancer are integrated over different platforms into a space of enrichment scores. AVAILABILITY Versions are available in Octave and Java (with a graphical user interface). Software can be downloaded at http://people.genome. duke.edu/assess.
New stratigraphic and genetic model for the dolomitic Cretaceous Pinda reservoirs in Angola Part II – Compelling arguments against early dolomitization and early leaching

This is the second contribution to the stratigraphic and genetic model of the Pinda Group. The mid-Cretaceous Pinda Group of the Congo basin in the northern Angolan offshore is a transgressive supersequence. Its lower part is made of Bufalo and Pacassa facies that correspond respectively to mixed and calcareous-dolomitic grain-dominated fabrics. Both facies were strongly diagenetically altered, mostly by dolomitic replacement and leaching. Contrary to opinions expressed by other authors that both styles of alteration are early diagenetic phenomena, there is substantial evidence for a burial origin with dolomitic replacement and leaching of calcite having started at depths not less than 150 m and 400 m, respectively.
Modelling Early Language Acquisition Skills: Towards a General Statistical Learning Mechanism

This paper reports the on-going research of a thesis project investigating a computational model of early language acquisition. The model discovers word-like units from cross-modal input data and builds continuously evolving internal representations within a cognitive model of memory. Current cognitive theories suggest that young infants employ general statistical mechanisms that exploit the statistical regularities within their environment to acquire language skills. The discovery of lexical units is modelled on this behaviour as the system detects repeating patterns from the speech signal and associates them to discrete abstract semantic tags. In its current state, the algorithm is a novel approach for segmenting speech directly from the acoustic signal in an unsupervised manner, therefore liberating it from a pre-defined lexicon. By the end of the project, it is planned to have an architecture that is capable of acquiring language and communicative skills in an online manner, and carry out robust speech recognition. Preliminary results already show that this method is capable of segmenting and building accurate internal representations of important lexical units as 'emergent' properties from cross-modal data.
Direct Imaging of DNA in Living Cells Reveals the Dynamics of Chromosome Formation

Individual chromosomes are not directly visible within the interphase nuclei of most somatic cells; they can only be seen during mitosis. We have developed a method that allows DNA strands to be observed directly in living cells, and we use it to analyze how mitotic chromosomes form. A fluorescent analogue (e.g., Cy5-dUTP) of the natural precursor, thymidine triphosphate, is introduced into cells, which are then grown on the heated stage of a confocal microscope. The analogue is incorporated by the endogenous enzymes into DNA. As the mechanisms for recognizing and removing the unusual residues do not prevent subsequent progress around the cell cycle, the now fluorescent DNA strands can be followed as they assemble into chromosomes, and segregate to daughters and granddaughters. Movies of such strands in living cells suggest that chromosome axes follow simple recognizable paths through their territories during G2 phase, and that late replicating regions maintain their relative positions as prophase chromosomes form. Quantitative analysis confirms that individual regions move little during this stage of chromosome condensation. As a result, the gross structure of an interphase chromosome territory is directly related to that of the prophase chromosome.
The JHU workshop 2006 IWSLT system

This paper describes the SMT we built during the 2006 JHU Summer Workshop for the IWSLT 2006 evaluation. Our effort focuses on two parts of the speech translation problem: 1) efficient decoding of word lattices and 2) novel applications of factored translation models to IWSLT-specific problems. In this paper, we present results from the open-track Chinese-to-English condition. Improvements of 5-10% relative BLEU are obtained over a high performing baseline. We introduce a new open-source decoder that implements the state-of-the-art in statistical machine translation.
Selectivity estimation for hybrid queries over text-rich data graphs

Many databases today are text-rich, comprising not only structured, but also textual data. Querying such databases involves predicates matching structured data combined with string predicates featuring textual constraints. Based on selectivity estimates for these predicates, query processing as well as other tasks that can be solved through such queries can be optimized. Existing work on selectivity estimation focuses either on string or on structured query predicates alone. Further, probabilistic models proposed to incorporate dependencies between predicates are focused on the relational setting. In this work, we propose a template-based probabilistic model, which enables selectivity estimation for general graph-structured data. Our probabilistic model allows dependencies between structured data and its text-rich parts to be captured. With this general probabilistic solution, BN+, selectivity estimations can be obtained for queries over text-rich graph-structured data, which may contain structured and string predicates (hybrid queries). In our experiments on real-world data, we show that capturing dependencies between structured and textual data in this way greatly improves the accuracy of selectivity estimates without compromising the efficiency.
Muddy Waters: Refining the Way Forward for the “Sustainability Science” of Socio-Hydrogeology

The trouble with groundwater is that despite its critical importance to global water supplies, it frequently attracts insufficient management attention relative to more visible surface water sources, irrespective of regional climate, socioeconomic profile, and regulatory environment. To this end, the recently defined sub-discipline of “socio-hydrogeology”, an extension of socio-hydrology, seeks to translate and exchange knowledge with and between non-expert end-users, in addition to involving non-expert opinion and experience in hydrogeological investigations, thus emphasising a “bottom-up” methodology. It is widely acknowledged that issues pertaining to groundwater quality, groundwater quantity, climate change, and a poor general awareness and understanding of groundwater occurrence and movement are global in their scope. Moreover, while effective communication and engagement represent the key tenet of socio-hydrogeology, the authors consider that multiple actors should be identified and incorporated using stakeholder network analysis and may include policymakers, media and communications experts, mobile technology developers, and social scientists, to appropriately convey demographically focused bi-directional information, with the hydrogeological community representing the communication keystone. Accordingly, this article aims to highlight past and current work, elucidate key areas of development within socio-hydrogeology, and offer recommendations to ensure global efficacy of this increasingly important and growing field going forward. The authors seek to assist in protecting our global groundwater resource for future generations via an improved framework for understanding the interaction between communities and hydrogeological systems.