LLukas22/scidocs huggingface dataset:
The software and information services sector in Argentina: the pros and cons of an inward-oriented development strategy

This paper analyzes the evolution, present situation, and prospects for the Argentine software and information services (SIS) sector. Argentina has some advantages to exploit in order to make significant inroads in this sector. It has a relative abundance of well-educated people, a sizeable domestic market, and a cultural influence in Spanish-speaking Latin America. The currency devaluation of 2002 dramatically reduced costs measured in U.S. dollars. Nonetheless, SIS firms in Argentina have focused primarily on the domestic accountancy and management market, where they enjoy advantages derived from the specific requirements of the domestic regulations and their knowledge of the business culture and the needs of their local clients. This concentration in the domestic market has caused SIS firms to pay insufficient attention to some key issues for competitiveness in this sector. Hence, it is no surprise to find that they lack marketing and management capabilities and that the diffusion of quality certifications is almost null. The domestic environment also poses some obstacles, since firms often have difficulties accessing investment and working capital. Business networking mechanisms are weak, both among SIS firms as well as between them and their customers, R&D institutions, etc. Increasing the competitiveness of this sector requires intelligent public policies and actions aimed at improving the SIS firms’ capabilities and endowments. C © 2005Wiley Periodicals, Inc.
Mutations affecting the secretory COPII coat component SEC23B cause congenital dyserythropoietic anemia type II

Congenital dyserythropoietic anemias (CDAs) are phenotypically and genotypically heterogeneous diseases. CDA type II (CDAII) is the most frequent CDA. It is characterized by ineffective erythropoiesis and by the presence of bi- and multinucleated erythroblasts in bone marrow, with nuclei of equal size and DNA content, suggesting a cytokinesis disturbance. Other features of the peripheral red blood cells are protein and lipid dysglycosylation and endoplasmic reticulum double-membrane remnants. Development of other hematopoietic lineages is normal. Individuals with CDAII show progressive splenomegaly, gallstones and iron overload potentially with liver cirrhosis or cardiac failure. Here we show that the gene encoding the secretory COPII component SEC23B is mutated in CDAII. Short hairpin RNA (shRNA)-mediated suppression of SEC23B expression recapitulates the cytokinesis defect. Knockdown of zebrafish sec23b also leads to aberrant erythrocyte development. Our results provide in vivo evidence for SEC23B selectivity in erythroid differentiation and show that SEC23A and SEC23B, although highly related paralogous secretory COPII components, are nonredundant in erythrocyte maturation.
Neonatal neurobehavioral abnormalities and MRI brain injury in encephalopathic newborns treated with hypothermia.

BACKGROUND
Neonatal Encephalopathy (NE) is a prominent cause of infant mortality and neurodevelopmental disability. Hypothermia is an effective neuroprotective therapy for newborns with encephalopathy. Post-hypothermia functional-anatomical correlation between neonatal neurobehavioral abnormalities and brain injury findings on MRI in encephalopathic newborns has not been previously described.


AIM
To evaluate the relationship between neonatal neurobehavioral abnormalities and brain injury on magnetic resonance imaging (MRI) in encephalopathic newborns treated with therapeutic hypothermia.


STUDY DESIGN
Neonates with hypoxic ischemic encephalopathy (HIE) referred for therapeutic hypothermia were prospectively enrolled in this observational study. Neurobehavioral functioning was assessed with the NICU network neurobehavioral scale (NNNS) performed at target age 14 days. Brain injury was assessed by MRI at target age 7-10 days. NNNS scores were compared between infants with and without severe MRI injury.


SUBJECTS & OUTCOME MEASURES
Sixty-eight term newborns (62% males) with moderate to severe encephalopathy underwent MRI at median 8 days (range 5-16) and NNNS at median 12 days of life (range 5-20). Fifteen (22%) had severe injury on MRI.


RESULTS
Overall Total Motor Abnormality Score and individual summary scores for Non-optimal Reflexes and Asymmetry were higher, while Total NNNS Z-score across cognitive/behavioral domains was lower (reflecting poorer performance) in infants with severe MRI injury compared to those without (p < 0.05).


CONCLUSIONS
Neonatal neurobehavioral abnormalities identified by the NNNS are associated with MRI brain injury in encephalopathic newborns post-hypothermia. The NNNS can provide an early functional assessment of structural brain injury in newborns, which may guide rehabilitative therapies in infants after perinatal brain injury.
Dermal damage promoted by repeated low-level UV-A1 exposure despite tanning response in human skin.

IMPORTANCE
Solar UV irradiation causes photoaging, characterized by fragmentation and reduced production of type I collagen fibrils that provide strength to skin. Exposure to UV-B irradiation (280-320 nm) causes these changes by inducing matrix metalloproteinase 1 and suppressing type I collagen synthesis. The role of UV-A irradiation (320-400 nm) in promoting similar molecular alterations is less clear yet important to consider because it is 10 to 100 times more abundant in natural sunlight than UV-B irradiation and penetrates deeper into the dermis than UV-B irradiation. Most (approximately 75%) of solar UV-A irradiation is composed of UV-A1 irradiation (340-400 nm), which is also the primary component of tanning beds.


OBJECTIVE
To evaluate the effects of low levels of UV-A1 irradiation, as might be encountered in daily life, on expression of matrix metalloproteinase 1 and type I procollagen (the precursor of type I collagen).


DESIGN, SETTING, AND PARTICIPANTS
In vivo biochemical analyses were conducted after UV-A1 irradiation of normal human skin at an academic referral center. Participants included 22 healthy individuals without skin disease.


MAIN OUTCOMES AND MEASURES
Skin pigmentation was measured by a color meter (chromometer) under the L* variable (luminescence), which ranges from 0 (black) to 100 (white). Gene expression in skin samples was assessed by real-time polymerase chain reaction.


RESULTS
Lightly pigmented human skin (L* >65) was exposed up to 4 times (1 exposure/d) to UV-A1 irradiation at a low dose (20 J/cm2), mimicking UV-A levels from strong sun exposure lasting approximately 2 hours. A single exposure to low-dose UV-A1 irradiation darkened skin slightly and did not alter matrix metalloproteinase 1 or type I procollagen gene expression. With repeated low-dose UV-A1 irradiation, skin darkened incrementally with each exposure. Despite this darkening, 2 or more exposures to low-dose UV-A1 irradiation significantly induced matrix metalloproteinase 1 gene expression, which increased progressively with successive exposures. Repeated UV-A1 exposures did not suppress type I procollagen expression.


CONCLUSIONS AND RELEVANCE
A limited number of low-dose UV-A1 exposures, as commonly experienced in daily life, potentially promotes photoaging by affecting breakdown, rather than synthesis, of collagen. Progressive skin darkening in response to repeated low-dose UV-A1 exposures in lightly pigmented individuals does not prevent UV-A1-induced collagenolytic changes. Therefore, for optimal protection against skin damage, sunscreen formulations should filter all UV wavelengths, including UV-A1 irradiation.
A LITERATURE REVIEW ON IMMERSIVE VIRTUAL REALITY IN EDUCATION: STATE OF THE ART AND PERSPECTIVES

Since the first time the term "Virtual Reality" (VR) has been used back in the 60s, VR has evolved in different manners becoming more and more similar to the real world. Two different kinds of VR can be identified: non-immersive and immersive. The former is a computer-based environment that can simulate places in the real or imagined worlds; the latter takes the idea even further by giving the perception of being physically present in the non-physical world. While non-immersive VR can be based on a standard computer, immersive VR is still evolving as the needed devices are becoming more user friendly and economically accessible. In the past, there was a major difficulty about using equipment such as a helmet with goggles, while now new devices are being developed to make usability better for the user. VR, which is based on three basic principles: Immersion, Interaction, and User involvement with the environment and narrative, offers a very high potential in education by making learning more motivating and engaging. Up to now, the use of immersive-VR in educational games has been limited due to high prices of the devices and their limited usability. Now new tools like the commercial "Oculus Rift", make it possible to access immersive-VR in lots of educational situations. This paper reports a survey on the scientific literature on the advantages and potentials in the use of Immersive Virtual Reality in Education in the last two years (2013-14). It shows how VR in general, and immersive VR in particular, has been used mostly for adult training in special situations or for university students. It then focuses on the possible advantages and drawbacks of its use in education with reference to different classes of users like children and some kinds of cognitive disabilities (with particular reference to the Down syndrome). It concludes outlining strategies that could be carried out to verify these ideas.
Standardised antibacterial Manuka honey in the management of persistent post-operative corneal oedema: a case series.

BACKGROUND
Corneal oedema is a common post-operative problem that delays or prevents visual recovery from ocular surgery. Honey is a supersaturated solution of sugars with an acidic pH, high osmolarity and low water content. These characteristics inhibit the growth of micro-organisms, reduce oedema and promote epithelialisation. This clinical case series describes the use of a regulatory approved Leptospermum species honey ophthalmic product, in the management of post-operative corneal oedema and bullous keratopathy.


METHODS
A retrospective review of 18 consecutive cases (30 eyes) with corneal oedema persisting beyond one month after single or multiple ocular surgical procedures (phacoemulsification cataract surgery and additional procedures) treated with Optimel Antibacterial Manuka Eye Drops twice to three times daily as an adjunctive therapy to conventional topical management with corticosteroid, aqueous suppressants, hypertonic sodium chloride five per cent, eyelid hygiene and artificial tears. Visual acuity and central corneal thickness were measured before and at the conclusion of Optimel treatment.


RESULTS
A temporary reduction in corneal epithelial oedema lasting up to several hours was observed after the initial Optimel instillation and was associated with a reduction in central corneal thickness, resolution of epithelial microcysts, collapse of epithelial bullae, improved corneal clarity, improved visualisation of the intraocular structures and improved visual acuity. Additionally, with chronic use, reduction in punctate epitheliopathy, reduction in central corneal thickness and improvement in visual acuity were achieved. Temporary stinging after Optimel instillation was experienced. No adverse infectious or inflammatory events occurred during treatment with Optimel.


CONCLUSIONS
Optimel was a safe and effective adjunctive therapeutic strategy in the management of persistent post-operative corneal oedema and warrants further investigation in clinical trials.
Beta-tricalcium phosphate shows superior absorption rate and osteoconductivity compared to hydroxyapatite in open-wedge high tibial osteotomy

The purpose of this study was to clinically and radiologically compare the utility, osteoconductivity, and absorbability of hydroxyapatite (HAp) and beta-tricalcium phosphate (TCP) spacers in medial open-wedge high tibial osteotomy (HTO). Thirty-eight patients underwent medial open-wedge HTO with a locking plate. In the first 19 knees, a HAp spacer was implanted in the opening space (HAp group). In the remaining 19 knees, a TCP spacer was implanted in the same manner (TCP group). All patients underwent clinical and radiological examinations before surgery and at 18 months after surgery. Concerning the background factors, there were no statistical differences between the two groups. Post-operatively, the knee score significantly improved in each group. Concerning the post-operative knee alignment and clinical outcome, there was no statistical difference in each parameter between the two groups. Regarding the osteoconductivity, the modified van Hemert’s score of the TCP group was significantly higher (p = 0.0009) than that of the HAp group in the most medial osteotomy zone. The absorption rate was significantly greater in the TCP group than in the HAp group (p = 0.00039). The present study demonstrated that a TCP spacer was significantly superior to a HAp spacer concerning osteoconductivity and absorbability at 18 months after medial open-wedge HTO. Retrospective comparative study, Level III.
Hepatoprotective and in vivo antioxidant effects of Byrsocarpus coccineus Schum. and Thonn. (Connaraceae).

ETHNOPHARMACOLOGICAL RELEVANCE
The leaf decoction of Byrsocarpus coccineus (Connaraceae) is drunk for the treatment of jaundice in West African traditional medicine.


AIM OF THE STUDY
To investigate the hepatoprotective and in vivo antioxidant effects of Byrsocarpus coccineus in carbon tetrachloride (CCl(4))-induced hepatotoxicity in rats.


MATERIALS AND METHODS
Group allotment in this study included vehicle, CCl(4), Byrsocarpus coccineus 1000 mg/kg alone, Byrsocarpus coccineus 200, 400, and 1000 mg/kg+CCl(4) and Livolin((R)) 20mg/kg+CCl(4), and treatment was carried out accordingly. On the 7th day, rats were sacrificed and blood was withdrawn by cardiac puncture. The levels and activities of serum biochemical parameters and antioxidant enzymes were then assayed using standard procedures.


RESULTS
CCl(4) significantly (P<0.05) increased the levels of ALT and AST and reduced total protein. In CCl(4) treated animals, Byrsocarpus coccineus (200, 400, and 1000 mg/kg) dose-dependently and significantly decreased ALT, AST and ALP levels with peak effect produced at the highest dose. Conversely, Byrsocarpus coccineus produced significant increases in albumin and total protein levels. The standard drug produced significant effects in respect of ALT (downward arrow), albumin (upward arrow), and total protein (upward arrow). CCl(4) also produced significant (P<0.05) reductions in the activity of catalase, SOD, peroxidase and GSH, and conversely increased MDA level. Byrsocarpus coccineus produced significant and dose-dependent reversal of CCl(4)-diminished activity of the antioxidant enzymes and reduced CCl(4)-elevated level of MDA. The standard drug also significantly increased CCl(4)-diminished antioxidant enzymes activity and reduced CCl(4)-elevated MDA level. In general, the effects of the standard drug were comparable and not significantly different from those of Byrsocarpus coccineus.


CONCLUSION
The results obtained in this study suggest that the aqueous leaf extract of Byrsocarpus coccineus possesses hepatoprotective and in vivo antioxidant effects. This finding justifies the use of this preparation in West African traditional medicine for the treatment of liver disease.
Protein contact prediction by integrating joint evolutionary coupling analysis and supervised learning

MOTIVATION
Protein contact prediction is important for protein structure and functional study. Both evolutionary coupling (EC) analysis and supervised machine learning methods have been developed, making use of different information sources. However, contact prediction is still challenging especially for proteins without a large number of sequence homologs.


RESULTS
This article presents a group graphical lasso (GGL) method for contact prediction that integrates joint multi-family EC analysis and supervised learning to improve accuracy on proteins without many sequence homologs. Different from existing single-family EC analysis that uses residue coevolution information in only the target protein family, our joint EC analysis uses residue coevolution in both the target family and its related families, which may have divergent sequences but similar folds. To implement this, we model a set of related protein families using Gaussian graphical models and then coestimate their parameters by maximum-likelihood, subject to the constraint that these parameters shall be similar to some degree. Our GGL method can also integrate supervised learning methods to further improve accuracy. Experiments show that our method outperforms existing methods on proteins without thousands of sequence homologs, and that our method performs better on both conserved and family-specific contacts.


AVAILABILITY AND IMPLEMENTATION
See http://raptorx.uchicago.edu/ContactMap/ for a web server implementing the method.


CONTACT
j3xu@ttic.edu


SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
MLBCD: a machine learning tool for big clinical data

BACKGROUND
Predictive modeling is fundamental for extracting value from large clinical data sets, or "big clinical data," advancing clinical research, and improving healthcare. Machine learning is a powerful approach to predictive modeling. Two factors make machine learning challenging for healthcare researchers. First, before training a machine learning model, the values of one or more model parameters called hyper-parameters must typically be specified. Due to their inexperience with machine learning, it is hard for healthcare researchers to choose an appropriate algorithm and hyper-parameter values. Second, many clinical data are stored in a special format. These data must be iteratively transformed into the relational table format before conducting predictive modeling. This transformation is time-consuming and requires computing expertise.


METHODS
This paper presents our vision for and design of MLBCD (Machine Learning for Big Clinical Data), a new software system aiming to address these challenges and facilitate building machine learning predictive models using big clinical data.


RESULTS
The paper describes MLBCD's design in detail.


CONCLUSIONS
By making machine learning accessible to healthcare researchers, MLBCD will open the use of big clinical data and increase the ability to foster biomedical discovery and improve care.
Optimization of a z-source DC circuit breaker

DC faults may cause severe disruptions in continuity of service to vital loads in a shipboard integrated power system, hence detection, isolation, and protection against such faults must be incorporated in both medium-voltage DC (MVDC) and low-voltage DC (LVDC) systems. Here we consider the effectiveness of existing z-source breakers and propose several new designs more appropriate for fault detection in MVDC and LVDC systems. In particular, we perform an optimization study that aims to minimize dissipation and weight and we identify the key parameters for use in MVDC and LVDC systems. Preliminary verification and validation studies are also included.
An Algorithmic Framework to Control Bias in Bandit-based Personalization

Personalization is pervasive in the online space as it leads to higher efficiency and revenue by allowing the most relevant content to be served to each user. However, recent studies suggest that personalization methods can propagate societal or systemic biases and polarize opinions; this has led to calls for regulatory mechanisms and algorithms to combat bias and inequality. Algorithmically, bandit optimization has enjoyed great success in learning user preferences and personalizing content or feeds accordingly. We propose an algorithmic framework that allows for the possibility to control bias or discrimination in such bandit-based personalization. Our model allows for the specification of general fairness constraints on the sensitive types of the content that can be displayed to a user. The challenge, however, is to come up with a scalable and low regret algorithm for the constrained optimization problem that arises. Our main technical contribution is a provably fast and low-regret algorithm for the fairness-constrained bandit optimization problem. Our proofs crucially leverage the special structure of our problem. Experiments on synthetic and real-world data sets show that our algorithmic framework can control bias with only a minor loss to revenue. ∗A short version of this paper appeared in the FAT/ML 2017 workshop (https://arxiv.org/abs/1707.02260) 1 ar X iv :1 80 2. 08 67 4v 1 [ cs .L G ] 2 3 Fe b 20 18
Step-by-step design and simulation of a simple CPU architecture

This paper describes a sequence of assignments, each building upon the next, leading students to a working simulation of a simple 8-bit CPU (Central Processing Unit). The design features a classic Von Neumann architecture comprising a simple data path with a few registers, a simple ALU (Arithmetic Logic Unit), and a microprogram to direct all the control signals. The first step involves the design of the ALU which is capable of eight basic operations. The second step guides students to construct a datapath complete with several 8-bit registers. The third step involves the design and implementation of a control unit which uses a microprogram to implement machine code instructions. The microprogram implements nine basic machine language instructions which are sufficient for writing many simple programs. The final step involves adding program memory and an input and output device to form a simple working simulation of a computer. At this point, students may hand-assemble code for their CPU and simulate its execution. All simulations are performed using a free and open source simulator called Logisim which performs digital logic simulations with the ability to build larger circuits from smaller subcircuits. Students can set an adjustable clock rate and observe the internal CPU state and registers as it retrieves instructions and steps through the microcode. The basic CPU architecture provides many opportunities for more advanced exercises, such as adding an instruction fetch unit, adding pipelining, or adding more machine language instructions. The assignments were introduced in a second year course on computer organization, providing an effective hands-on approach to understanding how a CPU actually operates.