gebhart/patrepeval huggingface dataset:
From Protein Sequence to Protein Function via Multi-Label Linear Discriminant Analysis (2016)

Sequence describes the primary structure of a protein, which contains important structural, characteristic, and genetic information and thereby motivates many sequence-based computational approaches to infer protein function. Among them, feature-base approaches attract increased attention because they make prediction from a set of transformed and more biologically meaningful sequence features. However, original features extracted from sequence are usually of high dimensionality and often compromised by irrelevant patterns, therefore dimension reduction is necessary prior to classification for efficient and effective protein function prediction. A protein usually performs several different functions within an organism, which makes protein function prediction a multi-label classification problem. In machine learning, multi-label classification deals with problems where each object may belong to more than one class. As a well-known feature reduction method, linear discriminant analysis (LDA) has been successfully applied in many practical applications. It, however, by nature is designed for single-label classification, in which each object can belong to exactly one class. Because directly applying LDA in multi-label classification causes ambiguity when computing scatters matrices, we apply a new Multi-label Linear Discriminant Analysis (MLDA) approach to address this problem and meanwhile preserve powerful classification capability inherited from classical LDA. We further extend MLDA by l<sub>1</sub>-normalization to overcome the problem of over-counting data points with multiple labels. In addition, we incorporate biological network data using Laplacian embedding into our method, and assess the reliability of predicted putative functions. Extensive empirical evaluations demonstrate promising results of our methods.
Comparison of Hemoglobins from Various Subjects Living in Hypoxia (2013)

The aim of this research was to obtain the different characteristics of haemoglobin molecules in subjects under hypoxic condition, namely eel, catfish, suckermouth fish, green sea turtle using an electrophoresis technique. We used human umbilical cord blood and thalassemia patient blood, as well as a normal adult-human blood as controls. The proteins obtained after electrophoresis process were stained with two different colouring techniques, each based on different principles. Both staining techniques gave practically identical results. Subject that live in hypoxic condition has a different haemoglobin in comparison to the one found in adult human live in normal oxygen condition (normoxia). These hypoxia-adapted or -needed hemoglobin migrate slower than adult human hemoglobin from normoxia. This observation suggests that hemoglobin which is needed to live in hypoxic condition or environment is a different molecule. Whether this hemoglobin from hypoxic condition has a higher affinity to oxygen is not yet known.
Loop Heat Pipes for Cooling Systems of Servers (2010)

<para xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> Loop heat pipes (LHPs) are exceptionally efficient heat-transfer devices that employ a closed loop evaporation-condensation cycle that can be used to cool densely packed electronic systems that reject large quantities of heat, including computers and their central processing units (CPUs). Tests were carried out on miniature ammonia LHPs with a CPU thermal simulator using different ways of condenser cooling. The possibility of maintaining the cooled object temperatures between 40<formula formulatype="inline"><tex Notation="TeX">$^\circ{\rm C}$</tex></formula> and 70<formula formulatype="inline"><tex Notation="TeX">$^\circ{\rm C}$</tex></formula> with heat load changing from 100 to 320 W was demonstrated. Subsequent tests of these devices in a 1U computer with dual core advanced micro devices Opteron CPUs, dissipating between 95 and 120 W, have confirmed the advantages and heat transfer efficiency of LHP-based cooling systems used to cool CPU in 1U chassis. </para>
Educación multiprofesional como estrategia para la atención primaria de salud:: Aprendiendo juntos para trabajar en equipo (2007)

El trabajo en equipo multidisciplinario constituye una estrategia primordial en el actual escenario de salud, no obstante en gran parte de las universidades tradicionales, no existen estrategias y modelos que permitan hacer efectivo dicho proposito.

El proposito del presente ensayo es presentar un marco teorico y relatar una experiencia piloto de Educacion Multiprofesional (EMP) realizada en Atencion Primaria de Salud, con academicos de cuatro carreras de la salud, de la Facultad de Medicina de la Universidad de Chile.
Online Support Vector Machine Applicationfor Model Based Fault Detection and Isolationof HVAC System (2011)

Preventive maintenance plays an important role in Heating, Ventilation and Air Conditioning (HVAC) system. One cost effective strategy is the development of analytic fault detection and isolation (FDI) module by online monitoring the key variables of HAVC systems. This paper investigates realtime FDI for HAVC system by using online Support Vector Machine (SVM), by which we are able to train a FDI system with manageable complexity under real time working conditions. It is also proposed a new approach which allows us to detect unknown faults and updating the classifier by using these previously unknown faults. Based on the proposed approach, a semi unsupervised fault detection methodology has been developed for HVAC systems
A fast bicycle detector based on a geometric model for single side-view image (2016)

Researchers gave the vehicle and pedestrian detection lots of attention to alarm the drivers for improving the safety of transportation systems. However, bicycles are also the significant factor of the safety on road. In this paper, a bicycle detector for side-view image is proposed based on the observation that a bicycle consists of two wheels in the form of ellipse shapes and a frame in the form of two triangles. Through the design of geometric constrains between the triangles and ellipses, the computation is fast comparing to the feature-based classifiers. Besides, the training process is unnecessary and only single image is required for our algorithm. Preliminary experimental result is also given in this paper to show the practicability and the performance of the proposed bicycle model and bicycle detection algorithm.
Tmem79/Matt is the matted mouse gene and is a predisposing gene for atopic dermatitis in human subjects (2013)

In mice mutations in Matt cause a defective skin barrier and spontaneous dermatitis and atopy. A common SNP in MATT has an association with AD in human subjects.
Using the dynamic capabilities perspective to analyse CRM adoption: a multiple case study in portuguese organisations (2009)

Customer Relationship Management (CRM) adoption is both a relevant research topic in academia and a challenge for practitioners. We understand CRM as a complex concept that includes technology, strategy and philosophy. In this research, we propose an analysis of CRM organisational competences and capabilities. The main goals are: to observe organisational competences and capabilities in order to find ways in which companies obtain success with their CRM initiatives; and to apply a dynamic capabilities perspective as the main theoretical point to analyse how companies can improve their competences related to customer relationship management. In order to achieve the purpose of this study a qualitative, interpretative, case-based research strategy was implemented. We first conducted an exploratory case study in a Brazilian Telecommunications company in order to define the focus of the research and research questions. Afterwards, we conducted a main case study in a Portuguese Telecommunications company for one year, and finally, we conducted four more case studies in Portuguese organisations to develop the research findings. These multiple case studies were based on semi-structured interviews and document analysis. We used qualitative techniques to analyse the collected data and ground our interpretation in two theoretical approaches: value focus thinking and dynamic capabilities. We propose a theoretical framework related to CRM dynamic capability that is corroborated with empirical evidence. We believe that because organisations which adopt a CRM strategy are in a competitive environment, a dynamic model needs to be used to analyse and explain how they can improve their CRM strategy in order to achieve success. As a second contribution we identify a set of competences that need to be developed in order to manage customer relationships effectively.
A rapid plate assay for screening <scp>l</scp> ‐asparaginase producing micro‐organisms (1997)

A pH and dye-based fast procedure for screening L-asparaginase producing micro-organisms is reported. The procedure is suitable for bacterial and fungal screening. The results are obtained within 24 and 48 h for bacteria and fungi, respectively. The results correlate with quantitative estimations in culture broths.
Synthesis and SAR Studies of Fused Oxadiazines as γ-Secretase Modulators for Treatment of Alzheimer's Disease (2012)

Fused oxadiazines (3) were discovered as selective and orally bioavailable γ-secretase modulators (GSMs) based on the structural framework of oxadiazoline GSMs. Although structurally related, initial modifications showed that structure-activity relationships (SARs) did not translate from the oxadiazoline to the oxadiazine series. Subsequent SAR studies on modifications at the C3 and C4 positions of the fused oxadiazine core helped to identify GSMs such as compounds 8r and 8s that were highly efficacious in vitro and in vivo in a number of animal models with highly desirable physical and pharmacological properties. Further improvements of in vitro activity and selectivity were achieved by the preparation of fused morpholine oxadiazines. The shift in specificity of APP cleavage rather than a reduction in overall γ-secretase activity and the lack of changes in substrate accumulation and Notch processing as observed in the animal studies of compound 8s confirm that the oxadiazine series of compounds are potent GSMs.
Full waveform inversion of reflection data (1989)

The theory of a direct inversion method to obtain the P and S wave seismic velocities and the density of a horizontally, finely layered elastic medium from vertical and horizontal component plane wave seismograms in the tau‐ p (slant stacked) domain has been developed. The method is based on the downward continuation method of Bube and Burridge (1983), but plane wave seismograms with a range of ray parameters are used simultaneously to obtain the velocity and density profiles. A corrected acoustic approximation of the elastic case has also been developed with which one may obtain a model of the P wave velocity and density from vertical component seismic recordings. However, it requires the S wave velocity to be estimated a priori, for instance as a fixed fraction of the P wave velocity. Many direct inverse methods, including the Bube and Burridge procedure followed here, may lack stability when implemented numerically, specially when they are applied to real data which necessarily are band limited at both low and high frequencies. The possibility of a stable implementation of our methods has been investigated, firstly by using synthetic data for layered acoustic media containing a full range of low frequencies. In this case, the inverted velocity and density profiles are in good agreement with the test models. Secondly, the indeterminacy associated with the lack, in practice, of low frequencies has been studied, and a method has been devised to estimate the missing low‐frequency data from travel time information. Finally, the inversion algorithm has then been applied to high‐quality marine seismic reflection data obtained by the North Atlantic Transect (NAT) group in the deep ocean using an expanding spread profile (ESP). In this test, only the P wave velocity profile was estimated independently, because the move‐out data cannot provide low‐frequency information about density. Also, the “source wavelet” of the seismic system had to be estimated from the seismic recordings. A stable and plausible estimate of the velocity variation was obtained. Unfortunately, no independent measurement of this velocity structure is available with which to verify the method's accuracy.
Tobacco-Related Cancers in Utah Compared to the United States: Quantifying the Benefits of the Word of Wisdom (1999)

And again, tobacco is not for the body, neither for the bell, and is not good for man, but is an herb for bruises and all sick cattle, to be used with judgment and skill. (D&C 89:8)
Genetic dissection of<i>nodal</i>function in patterning the mouse embryo (2001)

Loss-of-function analysis has shown that the transforming growth factor-like signaling molecule nodal is essential for mouse mesoderm development. However, definitive proof of nodal function in other developmental processes in the mouse embryo has been lacking because the null mutation blocks gastrulation. We describe the generation and analysis of a hypomorphic nodal allele. Mouse embryos heterozygous for the hypomorphic allele and a null allele undergo gastrulation but then display abnormalities that fall into three distinct mutant phenotypic classes, which may result from expression levels falling below critical thresholds in one or more domains of nodal expression. Our analysis of each of these classes provides conclusive evidence for nodal-mediated regulation of several developmental processes in the mouse embryo, beyond its role in mesoderm formation. We find that nodal signaling is required for correct positioning of the anteroposterior axis, normal anterior and midline patterning, and the left-right asymmetric development of the heart, vasculature, lungs and stomach.
Muscle angiogenic growth factor gene responses to exercise in chronic renal failure (2001)

Patients with chronic renal failure (CRF) have impaired exercise capacity even after erythropoietin treatment. We recently showed that although this is explained in part by reduced convective O(2) delivery to muscles, there is also an impairment of O(2) transport from muscle capillaries to the mitochondria. Given the importance of the capillary surface area for capillary mitochondrial O(2) transport and reports of reduced capillarity in CRF, we hypothesized that the angiogenic gene response to exercise is impaired in such patients. Six patients with CRF and six control subjects matched for age, size, and sedentary lifestyle exercised on a single occasion for 1 h at similar work intensities averaging 50% of maximal capacity. Exercise was confined to the knee extensors of a single leg by means of a specially designed leg-kick ergometer. A percutaneous biopsy of the quadriceps was taken within 30 min of cessation of exercise and compared with a similar biopsy done at different times without any prior exercise for 24 h. Conventional Northern blots were prepared and probed for vascular endothelial growth factor (VEGF; the major putative angiogenic growth factor for muscle), basic fibroblast growth factor (bFGF), and transforming growth factor (TGF)-beta(1). Data during both rest and exercise were successfully obtained in four subjects of each group. We also assessed muscle capillarity and mitochondrial oxidative capacity to relate to these changes. Mitochondrial oxidative capacity was normal, whereas capillary number per fiber was 12% lower than in normal subjects. VEGF mRNA abundance was increased after exercise by about one order of magnitude, with no reduction in response in CRF. For bFGF and TGF-beta(1), exercise elicited no response in either group. Reduced muscle capillarity in CRF does not, therefore, stem from reduced transcription of VEGF. To the extent that VEGF is important to exercise-induced angiogenesis in muscle, we suspect a posttranscriptional aberration in this response occurs in CRF to explain reduced capillarity.
Friction — Its Influence in Rotary Magnetic Tape Recorders (1989)

The density of information recorded on magnetic tape has increased remarkably within the last decade. Smaller tracks and shorter recorded wavelength have made it possible to use smaller tapes or to convert to digital recording. In further development the limits will be set not least by mechanical issues, that is, friction. The phenomena of friction are to a large extent related to the molecular resonance frequency of the materials in contact. Resulting cognition will be underlined by analysis of experiments with tapes of different formulas. Surface structure of tape and drum and its interface is an important parameter. Results of friction analysis lead to appropriate tolerance considerations in the design of rotary recorders as well as in the standardization of footprints of recorded signals that can be realized in daily operation.
Retinol Inhibits the Growth of <i>All-Trans</i>-Retinoic Acid–Sensitive and <i>All-Trans</i>-Retinoic Acid–Resistant Colon Cancer Cells through a Retinoic Acid Receptor–Independent Mechanism (2005)

Retinol (vitamin A) is thought to exert its effects through the actions of its metabolite, all-trans-retinoic acid (ATRA), on gene transcription mediated by retinoic acid receptors (RAR) and retinoic acid response elements (RARE). However, retinoic acid resistance limits the chemotherapeutic potential of ATRA. We examined the ability of retinol to inhibit the growth of ATRA-sensitive (HCT-15) and ATRA-resistant (HCT-116, SW620, and WiDR) human colon cancer cell lines. Retinol inhibited cell growth in a dose-responsive manner. Retinol was not metabolized to ATRA or any bioactive retinoid in two of the cell lines examined. HCT-116 and WiDR cells converted a small amount of retinol to ATRA; however, this amount of ATRA was unable to inhibit cell growth. To show that retinol was not inducing RARE-mediated transcription, each cell line was transfected with pRARE-chloramphenicol acetyltransferase (CAT) and treated with ATRA and retinol. Although treatment with ATRA increased CAT activity 5-fold in ATRA-sensitive cells, retinol treatment did not increase CAT activity in any cell line examined. To show that growth inhibition due to retinol was ATRA, RAR, and RARE independent, a pan-RAR antagonist was used to block RAR signaling. Retinol-induced growth inhibition was not alleviated by the RAR antagonist in any cell line, but the antagonist alleviated ATRA-induced growth inhibition of HCT-15 cells. Retinol did not induce apoptosis, differentiation or necrosis, but affected cell cycle progression. Our data show that retinol acts through a novel, RAR-independent mechanism to inhibit colon cancer cell growth.
Athlete's foot : wound and skin care (2014)

Athlete's foot is a common fungal infection of the skin on the feet. Fungal germs (fungi) often occur in small numbers on human skin where they usually do no harm. However, under certain conditions, they can invade the skin, multiply and cause infection. Medically known as tinea pedis, athlete's foot is caused by a group of fungi called dermatophytes that are responsible for a superficial infection on the skin and nails.
The Parkinson's disease genes <i>pink1</i> and <i>parkin</i> promote mitochondrial fission and/or inhibit fusion in <i>Drosophila</i> (2008)

Mutations in PTEN-induced kinase 1 (pink1) or parkin cause autosomal-recessive and some sporadic forms of Parkinson's disease. pink1 acts upstream of parkin in a common genetic pathway to regulate mitochondrial integrity in Drosophila. Mitochondrial morphology is maintained by a dynamic balance between the opposing actions of mitochondrial fusion, controlled by Mitofusin (mfn) and Optic atrophy 1 (opa1), and mitochondrial fission, controlled by drp1. Here, we explore interactions between pink1/parkin and the mitochondrial fusion/fission machinery. Muscle-specific knockdown of the fly homologue of Mfn (Marf) or opa1, or overexpression of drp1, results in significant mitochondrial fragmentation. Mfn-knockdown flies also display altered cristae morphology. Interestingly, knockdown of Mfn or opa1 or overexpression of drp1, rescues the phenotypes of muscle degeneration, cell death, and mitochondrial abnormalities in pink1 or parkin mutants. In the male germline, we also observe genetic interactions between pink1 and the testes-specific mfn homologue fuzzy onion, and between pink1 and drp1. Our data suggest that the pink1/parkin pathway promotes mitochondrial fission and/or inhibits fusion by negatively regulating mfn and opa1 function, and/or positively regulating drp1. However, pink1 and parkin mutant flies show distinct mitochondrial phenotypes from drp1 mutant flies, and flies carrying a heterozygous mutation in drp1 enhance the pink1-null phenotype, resulting in lethality. These results suggest that pink1 and parkin are likely not core components of the drp1-mediated mitochondrial fission machinery. Modification of fusion and fission may represent a novel therapeutic strategy for Parkinson's disease.
Neutralizing and binding anti‐interferon‐β (IFN‐β) antibodies. A comparison between IFN‐β‐1a and IFN‐β‐1b treatment in multiple sclerosis (2000)

Interferon-beta (IFN-beta) is currently the most commonly used treatment of relapsing-remitting multiple sclerosis (MS). At the time of this study, two preparations of IFN-beta were available, IFN-beta-1a (Avonextrade mark) and IFN-beta-1b (Betaferon(R)), which both can elicit an immune response with the development of anti-IFN-beta antibodies. Direct comparisons between these two preparations regarding antibody frequencies have, however, been difficult to perform, because two different analysis methods measuring partly different biological effects of IFN-beta have been employed. In the present study, binding and neutralizing anti-IFN-beta-1a and -1b antibodies were detected in parallel by an independent, well-acknowledged, interferon research laboratory using an immunoassay and a cytopathic virus inhibition assay. Five per cent of patients treated with IFN-beta-1a intramuscularly (n = 20) had neutralizing antibodies (NABs) compared with 44% of patients treated with IFN-beta-1b subcutaneously (n = 48). A high degree of cross-reactivity between neutralizing anti-IFN-beta-1a and -1b antibodies was observed. No effect of NABs on clinical outcome could be detected in this limited material. Binding anti-IFN-beta antibodies were observed in 20% of IFN-beta-1a treated patients compared with 81% of patients treated with IFN-beta-1b. Only one of 17 patients examined (6%) had detectable titres of binding anti-IFN-beta-1b antibodies in the cerebrospinal fluid (CSF). These data are the first using identical methodology to show that IFN-beta-1a gives rise to fewer NABs than IFN-beta-1b at recommended treatment schedules.