Miracle-dz/UniFAR-FTUs huggingface dataset:
Outlining a Model of a Release Management Process

One of the major concerns of any maintenance organization is to deliver software releases with maximal functionality and quality within the boundaries of the resource constraints. Hence, there is a great deal of merit in establishing a well thought-out end-to-end release management process. Unfortunately, there are no detailed models encompassing the overall activities involved in such a process. To remedy this, in this paper, we outline a preliminary release management process model integrating two sides: vendor and acceptor side.
How Much Is Our Fairness Worth? The Effect of Raising Stakes on Offers by Proposers and Minimum Acceptable Offers in Dictator and Ultimatum Games

Background The aim of this study was to determine whether people respond differently to low and high stakes in Dictator and Ultimatum Games. We assumed that if we raised the stakes high enough, we would observe more self-orientated behavior because fairness would become too costly, in spite of a possible risk of a higher punishment. Methods A questionnaire was completed by a sample of 524 university students of biology. A mixed linear model was used to test the relation between the amount at stake (CZK 20, 200, 2,000, 20,000 and 200,000, i.e., approximately $1–$10,000) and the shares, as well as the subjects’ gender and the design of the study (single vs. multiple games for different amounts). Results We have discovered a significant relationship between the amount at stake and the minimum acceptable offer in the Ultimatum Game and the proposed shares in both Ultimatum and Dictator Games (p = 0.001, p<0.001, p = 0.0034). The difference between playing a single game or more games with several amounts at stake did not influence the relation between the stakes and the offered and minimum acceptable shares. Women proved significantly more generous than men in their offers in the Dictator Game (p = 0.007). Conclusion Our results suggest that people’s behavior in the Dictator and Ultimatum Games depends on the amount at stake. The players tended to lower their relative proposed shares, as well as their relative minimum acceptable offers. We propose that the Responders’ sense of equity and fair play depends on the stakes because of the costs of maintaining fairness. However, our results also suggest that the price of fairness is very high and that it is very difficult, probably even impossible, to buy the transition of Homo sociologicus into Homo economicus.
The chicken c-erbA proto-oncogene is preferentially expressed in erythrocytic cells during late stages of differentiation

We analyzed the expression of the c-erbA proto-oncogene in different tissues of chicken embryos. c-erbA transcripts were found at low levels in the lung, kidney, liver, and heart and in high amounts in embryonic blood cells. Nuclease mapping assays proved that these transcripts were true c-erbA transcripts. In situ hybridization on fractionated embryonic blood cells showed that c-erbA transcripts were predominantly found in erythroblasts, particularly during the final step of differentiation. Life span analysis of c-erbA mRNAs revealed their relative instability, demonstrating that the high level of c-erbA transcripts in embryonic erythroblasts was not the result of passive accumulation. These results suggest that the c-erbA genes play some role in erythrocyte differentiation.
Translational bioinformatics and data science for biomarker discovery in mental health: an analytical review

Abstract Translational bioinformatics and data science play a crucial role in biomarker discovery as it enables translational research and helps to bridge the gap between the bench research and the bedside clinical applications. Thanks to newer and faster molecular profiling technologies and reducing costs, there are many opportunities for researchers to explore the molecular and physiological mechanisms of diseases. Biomarker discovery enables researchers to better characterize patients, enables early detection and intervention/prevention and predicts treatment responses. Due to increasing prevalence and rising treatment costs, mental health (MH) disorders have become an important venue for biomarker discovery with the goal of improved patient diagnostics, treatment and care. Exploration of underlying biological mechanisms is the key to the understanding of pathogenesis and pathophysiology of MH disorders. In an effort to better understand the underlying mechanisms of MH disorders, we reviewed the major accomplishments in the MH space from a bioinformatics and data science perspective, summarized existing knowledge derived from molecular and cellular data and described challenges and areas of opportunities in this space.
Multi-GeV Wakefield Acceleration in a Plasma-Modulated Plasma Accelerator

We investigate the accelerator stage of a Plasma-Modulated Plasma Accelerator (P-MoPA) [Phys. Rev. Lett. 127, 184801 (2021)] using both the paraxial wave equation and particle-in-cell (PIC) simulations. We show that adjusting the laser and plasma parameters of the modulator stage of a P-MoPA allows the temporal profile of pulses within the pulse train to be controlled, which in turn allows the wake amplitude in the accelerator stage to be as much as 72% larger than that generated by a plasma beat-wave accelerator with the same total drive laser energy. Our analysis shows that Rosenbluth-Liu detuning is unimportant in a P-MoPA if the number of pulses in the train is less than $\sim$ 30, and that this detuning is also partially counteracted by increased red-shifting, and hence increased pulse spacing, towards the back of the train. An analysis of transverse mode oscillations of the driving pulse train is found to be in good agreement with 2D PIC simulations. PIC simulations demonstrating energy gains of $\sim$ 1.5 GeV ($\sim$ 2.5 GeV) for drive pulse energies of 2.4 J (5.0 J) are presented. Our results suggest that P-MoPAs driven by few-joule, picosecond pulses, such as those provided by high-repetition-rate thin-disk lasers, could accelerate electron bunches to multi-GeV energies at pulse repetition rates in the kilohertz range.
Evidence That Rice and Other Cereals Are Ancient Aneuploids Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.014019.

Detailed analyses of the genomes of several model organisms revealed that large-scale gene or even entire-genome duplications have played prominent roles in the evolutionary history of many eukaryotes. Recently, strong evidence has been presented that the genomic structure of the dicotyledonous model plant species Arabidopsis is the result of multiple rounds of entire-genome duplications. Here, we analyze the genome of the monocotyledonous model plant species rice, for which a draft of the genomic sequence was published recently. We show that a substantial fraction of all rice genes (∼15%) are found in duplicated segments. Dating of these block duplications, their nonuniform distribution over the different rice chromosomes, and comparison with the duplication history of Arabidopsis suggest that rice is not an ancient polyploid, as suggested previously, but an ancient aneuploid that has experienced the duplication of one—or a large part of one—chromosome in its evolutionary past, ∼70 million years ago. This date predates the divergence of most of the cereals, and relative dating by phylogenetic analysis shows that this duplication event is shared by most if not all of them.
Hybrid Search Schemes for Unstructured Peer-to-Peer Networks IEEE Infocom 2005

We study hybrid search schemes for unstructured peer-to-peer networks. We quantify performance in terms of number of hits, network overhead, and response time. Our schemes combine flooding and random walks, look ahead and replication. We consider both regular topologies and topologies with supernodes. We introduce a general search scheme, of which flooding and random walks are special instances, and show how to use locally maintained network information to improve the performance of searching. Our main findings are: (a)A small number of supernodes in an otherwise regular topology can offer sharp savings in the performance of search, both in the case of search by flooding and search by random walk, particularly when it is combined with 1-step replication. We quantify, analytically and experimentally, that the reason of these savings is that the search is biased towards nodes that yield more information. (b)There is a generalization of search, of which flooding and random walk are special instances, which may take further advantage of locally maintained network information, and yield better performance than both flooding and random walk in clustered topologies. The method determines edge criticality and is reminiscent of fundamental heuristics from the area of approximation algorithms.
Low mass T Tauri and young brown dwarf candidates in the Chamaeleon II dark cloud found by DENIS

We define a sample designed to select low-mass T Tauri stars and young brown dwarfs using DENIS data in the Chamaeleon II molecular cloud. We use a star count method to construct an extinction map of the Chamaeleon II cloud. We select our low-mass T Tauri star and young brown dwarf candidates by their strong infrared color excess in the $I-J/J-K_{\rm s}$ color-color dereddened diagram. We retain only objects with colors $I-J \ge 2$, and spatially distributed in groups around the cloud cores. This provides a sample of 70 stars of which 4 are previously known T Tauri stars. We have carefully checked the reliability of all these objects by visual inspection of the DENIS images. Thanks to the association of the optical I band to the infra-red J and K s bands in DENIS, we can apply this selection method to all star formation regions observed in the southern hemisphere. We also identify six DENIS sources with X-ray sources detected by ROSAT . Assuming that they are reliable low-mass candidates and using the evolutionary models for low-mass stars, we estimate the age of these sources between 1 Myr and <10 Myr.
AAMU: adaptive activation area menus for improving selection in cascading pull-down menus

Selecting items in cascading pull-down menus is a frequent task in most GUIs. These selections involve two major components: steering and selection, with the steering component being the most time-consuming and error-prone. We describe a new technique, called Adaptive Activation-Area Menu (AAMU) that eliminate corner steering. AAMUs contain an enlarged activation area which dynamically resizes itself providing a broader steering path for menu navigation. We also combined AAMUs with Force-field menus, to create Force-AAMUs. We empirically demonstrate that AAMUs and Force-AAMUs outperformed the current default menu. We also compared performances of various other menus including Enlarged activation area menus (EMUs) and Gesture based selection with mouse as an input device. Overall, users show higher satisfaction rates for AAMUs over other menu designs.
In Vitro Effects of Rabeprazole on Human Pylorus Tone

Background/Aims It has been reported that proton pump inhibitors induce relaxation in different types of smooth muscles. The aim of this study is to investigate in vitro effects of proton pump inhibitors on human pylorus muscle. Methods Pyloric sphincters were studied in 10 patients who were operated for stomach cancer. In isolated organ bath, control and response to rabeprazole were recorded following contraction with carbachol. During the treatment experiment, while distilled water was applied during the control experiment in every 5 minutes, rabeprazole was administered in every 5 minutes at doses of 10−6, 10−5, 10−4, and 10−3 M respectively. Contraction frequencies, maximum contraction values and muscle tones were measured. Results The contraction frequencies in the control group were greater than the rabeprazole group in the second, third and fourth intervals while the maximum contraction values in the rabeprazole group were lower in the fourth interval. Even though muscles tones were not different in both groups during all intervals, it was remarkable that the muscle tone was significantly decreased in the rabeprazole group during the fourth interval compared to the first and second intervals. Conclusions In the present study, high doses of rabeprazole reduced contraction frequencies, maximum contraction values, and muscle tone of human pylorus.
Exploring peptide/MHC detachment processes using hierarchical natural move Monte Carlo

Motivation: The binding between a peptide and a major histocompatibility complex (MHC) is one of the most important processes for the induction of an adaptive immune response. Many algorithms have been developed to predict peptide/MHC (pMHC) binding. However, no approach has yet been able to give structural insight into how peptides detach from the MHC. Results: In this study, we used a combination of coarse graining, hierarchical natural move Monte Carlo and stochastic conformational optimization to explore the detachment processes of 32 different peptides from HLA-A*02:01. We performed 100 independent repeats of each stochastic simulation and found that the presence of experimentally known anchor amino acids affects the detachment trajectories of our peptides. Comparison with experimental binding affinity data indicates the reliability of our approach (area under the receiver operating characteristic curve 0.85). We also compared to a 1000 ns molecular dynamics simulation of a non-binding peptide (AAAKTPVIV) and HLA-A*02:01. Even in this simulation, the longest published for pMHC, the peptide does not fully detach. Our approach is orders of magnitude faster and as such allows us to explore pMHC detachment processes in a way not possible with all-atom molecular dynamics simulations. Availability and implementation: The source code is freely available for download at http://www.cs. ox.ac.uk/mosaics/. Contact: bernhard.knapp@stats.ox.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online.
Characterization of tension decline in different types of fatigue-resistant skeletal muscle fibres of the frog. Low extracellular calcium effects.

Twitch and tetanic tension have been measured in single skeletal muscle fibres (m.ileofibularis, Rana esculenta and Rana temporaria). On the basis of resistance to fatigue produced by repetitive tetanic stable frequency stimulation with various numbers of stimulation trains, twitch fibers were subdivided in three groups (resembling those as described by Westerblad and Lännergren 1986 in Xenopus), that is fatigue-resistant (FR), moderately fatigued (MF) and easily fatiguing (EF). It was found further that the fibres differ in tetanic tension decline resistance i.e. fatiguability relating to some basic contractile parameters including the amplitude, the rates parameters of twitch and tetanus tension as well as the tetanus/twitch tension ratio. The main differences observed concern: 1) The inability to maintain the maximum tetanic tension plateau (IMT) during single tetanus. IMT was 18 times higher in EF fibres and 4 times higher in MF fibres, respectively, in comparison with FR fibres. IMT is the first parameter to change significantly during repetitive tetanic stimulation. 2) The different fibre types show pronounced differences in twitch contraction and tetanus tension during repetitive tetanic stimulation. There is a conspicuous facilitation of twitch tension during and after cessation of repetitive stimulation in FR fibres; the MF and EF fibres show, on the contrary, a depression of twitches. 3) Recovery to original (prefatigue) values is rapid in FR fibres, but slow, however, in EF fibres. 4) Removal of extracellular Ca2+ intensified the inability to maintain the maximum tetanic tension (IMT) and the tetanic tension decline, especially in fibres with an initial high fatigue-resistance. We assume that the results might be explained by a different refractoriness of transmission between the T-tubules and the sarcoplasmic reticulum in examined fibres and/or by a different dependency of the T-SR transmission on the extracellular calcium ions. A possible cause of the failure may be an intensification of the inactivation process.
A bidirectional neural interface IC with high voltage compliance and spectral separation

This paper presents a fully integrated, bidirectional, neural interface, which is composed of a high voltage (HV) stimulator and a low voltage (LV) neural front-end with active, spectral separation. The stimulator uses a supply of ±9V in order to achieve a high voltage compliance (VC), whereas the recorder has a supply voltage of 3 V for high power efficiency. By using a HV transistor to separate the two parts, a safe operation of stimulator and recorder with different supply voltages can be guaranteed. Thereby the presented architecture can deliver a maximum stimulation current of ±10mA with a dynamic range of 50 dB and a VC of ±8.2 V. The implemented recording part consumes 52 μW and achieves a simulated input referred noise of 2. 5μVrms in the low frequency band from 0.1 Hz to 200 Hz and 3.1 μVrms in the high frequency band from 200 Hz to 7.5 kHz. The combined recorder/stimulator requires 0.378 mm2 per channel. A prototype of the interface has been implemented and manufactured in a standard 0.18 μm HV CMOS technology.
The relationship between it outsourcing and business and it alignment: An explorative study

Outsourcing of business processes and information technology (IT) operations is an important trend in large and middlesized organizations. However, outsourcing could affect the organization’s ability to align its IT with business strategy and operations. This article reports a qualitative study into the relationship between IT outsourcing (ITO) and business and IT alignment. It aims to provide recommendations for outsourcers and service providers on how outsourcing relationships should develop in order to support business and IT alignment. The research question of the study is “What is the effect of IT outsourcing on the business and IT alignment of companies that have outsourced their IT? ” After a review of relevant literature and concepts, four cases are reported. The study revealed that a higher level of motivation for outsourcing paired with a higher level of the relationship between outsourcer and service provider and with a higher level of alignment maturity of the outsourcer. The study also showed that the ITO relationship is influenced by organizational turbulence on one or either side of the relationship and that the service providers tend to assess the relationship on a higher level than the outsourcers. These conclusions provide relevant directions for both outsourcers and service providers for improvement of the their relationship.
Robot Deictics: How Gesture and Context Shape Referential Communication

As robots collaborate with humans in increasingly diverse environments, they will need to effectively refer to objects of joint interest and adapt their references to various physical, environmental, and task conditions. Humans use a broad range of deictic gestures—gestures that direct attention to collocated objects, persons, or spaces—that include pointing, touching, and exhibiting to help their listeners understand their references. These gestures offer varying levels of support under different conditions, making some gestures more or less suitable for different settings. While these gestures offer a rich space for designing communicative behaviors for robots, a better understanding of how different deictic gestures affect communication under different conditions is critical for achieving effective human-robot interaction. In this paper, we seek to build such an understanding by implementing six deictic gestures on a humanlike robot and evaluating their communicative effectiveness in six diverse settings that represent physical, environmental, and task conditions under which robots are expected to employ deictic communication. Our results show that gestures which come into physical contact with the object offer the highest overall communicative accuracy and that specific settings benefit from the use of particular types of gestures. Our results highlight the rich design space for deictic gestures and inform how robots might adapt their gestures to the specific physical, environmental, and task conditions. Categories and Subject Descriptors H.1. 2 [Models and Principles]: User/Machine Systems— human factors, software psychology; H.5. 2 [Information Interfaces and Presentation]: User Interfaces— evaluation/methodology, usercentered design. General Terms Design, Human Factors
Cell Wall Polysaccharides of Candida albicans Induce Mast Cell Degranulation in the Gut

We investigated Candida albicans-induced mast cell degranulation in vitro and in vivo. Cell wall fraction but not culture supernatant and cell membrane fraction prepared from hyphally grown C. albicans induced β-hexosaminidase release in RBL-2H3 cells. Cell wall mannan and soluble β-glucan fractions also induced β-hexosaminidase release. Histological examination of mouse forestomach showed that C. albicans gut colonization induces mast cell degranulation. However, intragastric administration of cell wall fraction failed to induce mast cell degranulation. We propose that cell wall polysaccharides are responsible for mast cell degranulation in the C. albicans-colonized gut.
Peripheral Leukocytapheresis Attenuates Acute Lung Injury Induced by Lipopolysaccharide In Vivo

The mortality of acute lung injury and acute respiratory distress syndrome (ALI/ARDS) remains high and efforts for prevention and treatments have shown little improvement over the past decades. The present study investigated the efficacy and mechanism of leukocytapheresis (LCAP) to partially eliminate peripheral neutrophils and attenuate lipopolysaccharide (LPS)-induced lung injury in dogs. A total of 24 healthy male mongrel dogs were enrolled and randomly divided into LPS, LCAP and LCAP-sham groups. All animals were injected with LPS to induce endotoxemia. The serum levels of leucocytes, neutrophil elastase, arterial blood gas, nuclear factor-kappa B (NF-κB) subunit p65 in lung tissues were measured. The histopathology and parenchyma apoptosis of lung tissues were examined. We found that 7, 3, and 7 animals in the LPS, LCAP, and sham-LCAP groups, respectively, developed ALI 36 h after LPS infusion. The levels of NF-κB p65 in lung tissue, neutrophils and elastase in blood, decreased significantly following LCAP. LCAP also alleviated apoptosis, and NF-κB p65 in lung tissues. Collectively, our results show that partial removal of leucocytes from peripheral blood decreases elastase level in serum. This, in turn, attenuates lung injuries and may potentially decrease the incidence of ALI.