Miracle-dz/UniFAR-FTUs huggingface dataset:
The leading edge of the Greater Himalayan Crystalline complex revealed in the NW Indian Himalaya: Implications for the evolution of the Himalayan orogen

The three Himalayan lithologic units, the Lesser Himalayan Sequence, the Greater Himalayan Crystalline complex, and the Tethyan Himalayan Sequence, have a specific structural correlation with the Main Central thrust and South Tibet detachment in the central Himalaya. There, the Main Central thrust places the Greater Himalayan Crystalline complex over the Lesser Himalayan Sequence, and the South Tibet detachment places the Tethyan Himalayan Sequence over the Greater Himalayan Crystallines. Although this division has formed the basis for all Himalayan tectonic models, it fails to explain aspects of the geology of the western Himalaya where the Main Central thrust places the Tethyan Himalayan Sequence directly above the Lesser Himalayan Sequence. Our mapping in NW India shows that this relationship results from southward merging of the Main Central thrust and South Tibet detachment. This finding, in conjunction with observed alternating shear senses on the South Tibet detachment, is inconsistent with the wedge-extrusion and erosion-induced channel-flow models (both require only top-to-the-N motion on the South Tibet detachment) but is consistent with a tectonic-wedging model.
Tumor infiltrating lymphocytes need LFA-1 to adhere to target cells

The lymphocyte function–associated antigen-1 (LFA-1) (also CD11a/CD18 and αLβ2), is just one of many integrins in the human body, but its significance derives from its exclusive presence in leukocytes. In this review, we summarize the studies relating LFA-1 and its major ligand ICAM-1 (CD54) with cancer, through the function of lymphocytes and myeloid cells on tumor cells. We consider how LFA-1 mediates the interaction of leukocytes with tumors and the role of ICAM-1 in tumor dynamics, which can be independent of its interaction with LFA-1. A more detailed examination of LFA’s role within B-cell chronic lymphocytic leukemia is made. Finally, we discuss the role of LFA-1-harboring exosomes in tumor growth and metastasis.
Strategy-based robotic item picking from shelves

Automating item picking in the e-commerce warehouse is pressing but challenging, due to a massive variety of items, tight environmental constraints and item location uncertainty. In this paper, we present an effective and efficient strategy-based planning approach to implement the robotic picking from shelves for e-commerce. Making full advantage of a gripper with multiple securing methods, differentiated strategies are modeled as picking primitives with different securing methods. A strategy generator is proposed to produce feasible potential pickings as quickly and as successfully as possible. A strategy evaluator considering reachability, collision, object-bias preference and the securing performance is also presented for ranking the picking strategies. Experiments were conducted to validate that the robotic picker is able to plan a picking strategy within 2 ms and pick daily items from the shelves with an average success rate of 68%.
Prevalence of Salmonella and Yersinia in Free-Living Pied Flycatchers (Ficedula hypoleuca) in Central Spain

Abstract: Salmonella and Yersinia are important enteropathogens in poultry and can affect birds of all ages, including embryos. These food-borne zoonotic enteropathogens are of great economic and medical concern worldwide and are intensely studied in poultry. Information regarding the prevalence of these bacteria in wild birds is scarce and biased toward avian species ecologically linked to humans, which have often been incriminated as both reservoirs and disseminators of these enteropathogens. The prevalence of Salmonella and Yersinia recovered from both the feces and eggs in a population of female pied flycatchers (Ficedula hypoleuca) breeding in nest-boxes in central Spain was evaluated. Salmonella arizonae was recovered from the feces of one female but was not recovered from eggs. Yersinia was not detected in either the feces or eggs. These results may suggest that Salmonella and Yersinia may be uncommon in this population studied and may indicate that these birds are unlikely reservoirs of Salmonella and Yersinia.
Evidence-Based Mapping between the Theory of Multiple Intelligences and Game Mechanics for the Purpose of Player-Centered Serious Game Design

In the context of games for learning, it is argued that taking individual differences among players into consideration during game design can be beneficial for the game and/or learning experience. Researchers have studied a variety of factors that can be used for taking individual differences among players into consideration. Although research work indicates that the intelligence levels according to the theory of Multiple Intelligences may be a promising direction to follow, this direction is among the least explored ones. The research presented in this paper explores the applicability of the theory of Multiple Intelligences for personalized and player-centered (serious) game design using empirical evidence. Our results show that there is a correlation between gamers' intelligences, their preference for games, and game mechanics. To release the results to the game development community, a kind of recommendation system has been developed that provides information about appropriate and non-appropriated game mechanics for different intelligence dimensions.
Association between −308 G/A TNF-α Polymorphism and Appendicular Skeletal Muscle Mass Index as a Marker of Sarcopenia in Normal Weight Obese Syndrome

Background and Aim. Normal weight obese (NWO) syndrome is characterized by normal body mass index (BMI), but high amount of fat mass and reduced lean mass. We evaluated allelic frequency of the G/A −308 TNF-α polymorphism and prevalence of sarcopenia in NWO. Methods. We enrolled 120 Italian healthy women, distinguished into 3 groups: normal weight (NW); NWO, and preobese-obese (PreOB/OB) and evaluated anthropometric parameters, body composition by dual X-ray absorptiometry, blood tests, and genotyping of G/A −308 TNF-α polymorphism. Results. We found a positive association between sarcopenic obesity and −308 TNF-α polymorphism. All obese women were sarcopenic and were no carrier of mutation (G/G). Among all G/G, NWO showed significant differences in lean mass and total body lean mass (TBLean) with respect to NW and PreOB/OB (P < 0.001). Regarding appendicular skeletal muscle mass index values, 4.21% of NW were sarcopenic (50% G/G and 50% G/A); the same percentage was observed in NWO subjects (100% G/G). Moreover, 2.10% of PreOB/OB were sarcopenic and all were G/G. Conclusion. Our study suggests that TNF-α polymorphism contributes to sarcopenic obesity susceptibility, in association with body composition. This is the first study that shows the importance of TNF-α polymorphism to determine TBLean variation in NWO syndrome.
Spatial and temporal association of Bax with mitochondrial fission sites, Drp1, and Mfn2 during apoptosis

We find that Bax, a proapoptotic member of the Bcl-2 family, translocates to discrete foci on mitochondria during the initial stages of apoptosis, which subsequently become mitochondrial scission sites. A dominant negative mutant of Drp1, Drp1K38A, inhibits apoptotic scission of mitochondria, but does not inhibit Bax translocation or coalescence into foci. However, Drp1K38A causes the accumulation of mitochondrial fission intermediates that are associated with clusters of Bax. Surprisingly, Drp1 and Mfn2, but not other proteins implicated in the regulation of mitochondrial morphology, colocalize with Bax in these foci. We suggest that Bax participates in apoptotic fragmentation of mitochondria.
Coherence based message prediction for optically interconnected chip multiprocessors

Photonic networks on chip have been proposed to reduce latency and power consumption of on-chip communication in chip multiprocessors. However, in switched photonic networks, the path setup latency can create a high overhead, particularly for the short messages generated by shared memory chip multiprocessors (CMP). This has led to proposals for networks which avoid switching using all-to-all or single writer multiple reader (SWMR) networks which dramatically increase optical component counts and hence power consumption. In this work we propose a predictor which uses information from the coherence protocol and previously transmitted messages to predict future messages and hence hide the path setup latency by speculatively setup photonic paths. We show that a directly mapped predictor can achieve prediction hit rates of up to 85% for PARSEC benchmarks in a 16-core x86 system using the MESI coherence protocol whereas a more resource efficient set associative predictor can still achieve prediction rates up to 75%.
From integrative genomics to systems genetics in the rat to link genotypes to phenotypes

ABSTRACT Complementary to traditional gene mapping approaches used to identify the hereditary components of complex diseases, integrative genomics and systems genetics have emerged as powerful strategies to decipher the key genetic drivers of molecular pathways that underlie disease. Broadly speaking, integrative genomics aims to link cellular-level traits (such as mRNA expression) to the genome to identify their genetic determinants. With the characterization of several cellular-level traits within the same system, the integrative genomics approach evolved into a more comprehensive study design, called systems genetics, which aims to unravel the complex biological networks and pathways involved in disease, and in turn map their genetic control points. The first fully integrated systems genetics study was carried out in rats, and the results, which revealed conserved trans-acting genetic regulation of a pro-inflammatory network relevant to type 1 diabetes, were translated to humans. Many studies using different organisms subsequently stemmed from this example. The aim of this Review is to describe the most recent advances in the fields of integrative genomics and systems genetics applied in the rat, with a focus on studies of complex diseases ranging from inflammatory to cardiometabolic disorders. We aim to provide the genetics community with a comprehensive insight into how the systems genetics approach came to life, starting from the first integrative genomics strategies [such as expression quantitative trait loci (eQTLs) mapping] and concluding with the most sophisticated gene network-based analyses in multiple systems and disease states. Although not limited to studies that have been directly translated to humans, we will focus particularly on the successful investigations in the rat that have led to primary discoveries of genes and pathways relevant to human disease. Summary: This Review describes the most recent advances in the field of systems genetics, focusing on the rat. We cover from the first integrative genomics strategies (such as mapping of expression QTLs or eQTLs) and conclude with the most sophisticated gene network-based analyses in multiple systems and disease states.
Perceived Size and Spatial Coding

Images of the same physical dimensions on the retina can appear to represent different-sized objects. One reason for this is that the human visual system can take viewing distance into account when judging apparent size. Sequentially presented images can also prompt spatial coding interactions. Here we show, using a spatial coding phenomenon (the tilt aftereffect) in tandem with viewing distance cues, that the tuning of such interactions is not simply determined by the physical dimensions of retinal input. Rather, we find that they are contingent on apparent size. Our data therefore reveal that spatial coding interactions in human vision are modulated by processes involved in the determination of apparent size.
Use of Intraarticular Hyaluronic Acid in the Management of Knee Osteoarthritis in Clinical Practice

This review emphasizes the safety profile of intra-articular hyaluronic acid treatment of knee osteoarthritis, as well as its moderate but real efficacy on symptoms, which is in the same range than other pharmacological modalities used in this indication. Effectiveness of intra-articular hyaluronic acid has also been highlighted based on ‘real-life' data, together with the clinical benefit of systematic repeated treatment cycles, and the influence of the molecular weight of hyaluronic acid on treatment outcome. These aspects should be particularly helpful to clinicians when making personalized care decisions.
Photosynthetic Bradyrhizobium Sp. strain ORS285 synthesizes 2-O-methylfucosylated lipochitooligosaccharides for nod gene-dependent interaction with Aeschynomene plants.

Bradyrhizobium sp. strain ORS285 is a photosynthetic bacterium that forms nitrogen-fixing nodules on the roots and stems of tropical aquatic legumes of the Aeschynomene genus. The symbiotic interaction of Bradyrhizobium sp. strain ORS285 with certain Aeschynomene spp. depends on the presence of nodulation (nod) genes whereas the interaction with other species is nod gene independent. To study the nod gene-dependent molecular dialogue between Bradyrhizobium sp. strain ORS285 and Aeschynomene spp. , we used a nodB-lacZ reporter strain to monitor the nod gene expression with various flavonoids. The flavanones liquiritigenin and naringenin were found to be the strongest inducers of nod gene expression. Chemical analysis of the culture supernatant of cells grown in the presence of naringenin showed that the major Nod factor produced by Bradyrhizobium sp. strain ORS285 is a modified chitin pentasaccharide molecule with a terminal N-C(18:1)-glucosamine and with a 2-O-methyl fucose linked to C-6 of the reducing glucosamine. In this respect, the Bradyrhizobium sp. strain ORS285 Nod factor is the same as the major Nod factor produced by the nonphotosynthetic Bradyrhizobium japonicum USDA110 that nodulates the roots of soybean. This suggests a classic nod gene-dependent molecular dialogue between Bradyrhizobium sp. strain ORS285 and certain Aeschynomene spp. This is supported by the fact that B. japonicum USDA110 is able to form N(2)-fixing nodules on both the roots and stems of Aeschynomene afraspera.
Intravenous Thrombolysis and Endovascular Therapy for Acute Ischemic Stroke With Internal Carotid Artery Occlusion: A Systematic Review of Clinical Outcomes

Background and Purpose— Strokes secondary to acute internal carotid artery (ICA) occlusion are associated with extremely poor prognosis. The best treatment approach to acute stroke in this setting is unknown. We sought to determine clinical outcomes in patients with acute ischemic stroke attributable to ICA occlusion treated with intravenous (IV) systemic thrombolysis or intra-arterial endovascular therapy. Methods— Using the PubMed database, we searched for studies that included patients with acute ischemic stroke attributable to ICA occlusion who received treatment with IV thrombolysis or intra-arterial endovascular interventions. Studies providing data on functional outcomes beyond 30 days and mortality and symptomatic intracerebral hemorrhage (sICH) rates were included in our analysis. We compared the proportions of patients with favorable functional outcomes, sICH, and mortality rates in the 2 treatment groups by calculating &khgr;2 and confidence intervals for odds ratios. Results— We identified 28 studies with 385 patients in the IV thrombolysis group and 584 in the endovascular group. Rates of favorable outcomes and sICH were significantly higher in the endovascular group than the IV thrombolysis-only group (33.6% vs 24.9%, P=0.004 and 11.1% vs 4.9%, P=0.001, respectively). No significant difference in mortality rate was found between the groups (27.3% in the IV thrombolysis group vs 32.0% in the endovascular group; P=0.12). Conclusions— According to our systematic review, endovascular treatment of acute ICA occlusion results in improved clinical outcomes. A higher rate of sICH after endovascular treatment does not result in increased overall mortality rate.
Use Case: Ontology with Rules for identifying brain anatomical structures

The proposed use case focuses on interoperating between a rule base and a brain cortex anatomy ontology, in order to assist the labeling of the brain cortex structures - sulci and gyri - involved in MRI images. The use case documents the ontology and the rules so as to clarify the added value and needs of rules, and the language expressiveness required. The expected result is to get candidate languages extending OWL DL with rules that allow representing all the knowledge required (ontology and rules), joint with the properties of reasoning that are guaranteed. 1. Presentation of the application Our group is interested in image processing in the context of neuroimaging, applied both to medical practice, i.e. decision support in neurology and neurosurgery, and to research about neurological pathology such as epilepsy, dementia, etc. The considered application aims at developing new methods for assisting the labeling of the brain cortex structures - sulci and gyri - in MRI images. Indeed, nowadays the brain cortex can be automatically segmented but the problem remains to identify its various parts. Numerical tools previously developed at IDM provide a list of items corresponding to the gyrus parts and sulcus segments recognized in the images. Each item is associated with a set of features: (1) attributes depicting intrinsic properties, such as the length and depth of a sulcus segment, or the surface of a gyrus part, (2) binary relationships, such as the neighborhood of two gyrus parts, the connection of two sulcus segments, (3) n-ary relationships such as the separation of two gyrus parts by a sulcus segment. But such items are unlabelled, since generated by numerical techniques without being identified. The approach proposed to assist the labeling of such items relies on a rule base describing the dependencies between the relations of the brain cortex structures, and a brain ontology storing the a priori "canonical" knowledge (9) about the most important sulci and gyri. In order to reuse this labeling functionality in several applications, we propose to implement it as a web service. The use case focuses on the brain anatomy ontology and on the rules required for identifying the gyri parts and sulci segments included in a particular brain region. The ontology and the rule base are documented by annexes so as to clarify the added value of rules, and the language expressiveness required. The expected result is to gather candidate languages that allow reasoning on the ontology combined with the rules of this application, joint with the guaranteed properties of their inference process.
Abstraction for Solving Large Incomplete-Information Games

Most real-world games and many recreational games are games of incomplete information. Over the last dozen years, abstraction has emerged as a key enabler for solving large incomplete-information games. First, the game is abstracted to generate a smaller, abstract game that is strategically similar to the original game. Second, an approximate equilibrium is computed in the abstract game. Third, the strategy from the abstract game is mapped back to the original game. In this paper, I will review key developments in the field. I present reasons for abstracting games, and point out the issue of abstraction pathology. I then review the practical algorithms for information abstraction and action abstraction. I then cover recent theoretical breakthroughs that beget bounds on the quality of the strategy from the abstract game, when measured in the original game. I then discuss how to reverse map the opponent's action into the abstraction if the opponent makes a move that is not in the abstraction. Finally, I discuss other topics of current and future research.
New Bradyrhizobium japonicum Strains That Possess High Copy Numbers of the Repeated Sequence RSα

ABSTRACT In a survey of DNA fingerprints of indigenous Bradyrhizobium japonicum with the species-specific repeated sequences RSα and RSβ, 21 isolates from three field sites showed numerous RS-specific hybridization bands. The isolates were designated highly reiterated sequence-possessing (HRS) isolates, and their DNA hybridization profiles were easily distinguished from the normal patterns. Some HRS isolates from two field sites possessed extremely high numbers of RSα copies, ranging from 86 to 175 (average, 128), and showed shifts and duplications of nif- and hup-specific hybridization bands. The HRS isolates exhibited slower growth than normal isolates, although no difference in symbiotic properties was detected between the HRS and normal isolates. Nucleotide sequence analysis of 16S rRNA genes showed that HRS isolates were strains ofB. japonicum. There was no difference in the spectra of serological and hydrogenase groupings of normal and HRS isolates. Some HRS isolates possessed a tandem repeat RSα dimer that is similar to the structure of (IS30)2, which was shown to cause a burst of transpositional rearrangements in Escherichia coli. The results suggest that HRS isolates are derived from normal isolates in individual fields by genome rearrangements that may be mediated by insertion sequences such as RSα.
Direct comparison of treatment responses, remission rates, and drug adherence in patients with rheumatoid arthritis treated with adalimumab, etanercept, or infliximab: results from eight years of surveillance of clinical practice in the nationwide Danish DANBIO registry.

OBJECTIVE To compare tumor necrosis factor alpha inhibitors directly regarding the rates of treatment response, remission, and the drug survival rate in patients with rheumatoid arthritis (RA), and to identify clinical prognostic factors for response. METHODS The nationwide DANBIO registry collects data on rheumatology patients receiving routine care. For the present study, we included patients from DANBIO who had RA (n = 2,326) in whom the first biologic treatment was initiated (29% received adalimumab, 22% received etanercept, and 49% received infliximab). Baseline predictors of treatment response were identified. The odds ratios (ORs) for clinical responses and remission and hazard ratios (HRs) for drug withdrawal were calculated, corrected for age, disease duration, the Disease Activity Score in 28 joints (DAS28), seropositivity, concomitant methotrexate and prednisolone, number of previous disease-modifying drugs, center, and functional status (Health Assessment Questionnaire score). RESULTS Seventy percent improvement according to the American College of Rheumatology criteria (an ACR70 response) was achieved in 19% of patients after 6 months. Older age, concomitant prednisolone treatment, and low functional status at baseline were negative predictors. The ORs (95% confidence intervals [95% CIs]) for an ACR70 response were 2.05 (95% CI 1.52-2.76) for adalimumab versus infliximab, 1.78 (95% CI 1.28-2.50) for etanercept versus infliximab, and 1.15 (95% CI 0.82-1.60) for adalimumab versus etanercept. Similar predictors and ORs were observed for a good response according to the European League Against Rheumatism criteria, DAS28 remission, and Clinical Disease Activity Index remission. At 48 months, the HRs for drug withdrawal were 1.98 for infliximab versus etanercept (95% 1.63-2.40), 1.35 for infliximab versus adalimumab (95% CI 1.15-1.58), and 1.47 for adalimumab versus etanercept (95% CI 1.20-1.80). CONCLUSION Older age, low functional status, and concomitant prednisolone treatment were negative predictors of a clinical response and remission. Infliximab had the lowest rates of treatment response, disease remission, and drug adherence, adalimumab had the highest rates of treatment response and disease remission, and etanercept had the longest drug survival rates. These findings were consistent after correction for confounders and sensitivity analyses and across outcome measures and followup times.