Miracle-dz/UniFAR-FTUs huggingface dataset:
Functional evolution of jumping in frogs: Interspecific differences in take‐off and landing

Ancestral frogs underwent anatomical shifts including elongation of the hindlimbs and pelvis and reduction of the tail and vertebral column that heralded the transition to jumping as a primary mode of locomotion. Jumping has been hypothesized to have evolved in a step‐wise fashion with basal frogs taking‐off with synchronous hindlimb extension and crash‐landing on their bodies, and then their limbs move forward. Subsequently, frogs began to recycle the forelimbs forward earlier in the jump to control landing. Frogs with forelimb landing radiated into many forms, locomotor modes, habitats, and niches with controlled landing thought to improve escape behavior. While the biology of take‐off behavior has seen considerable study, interspecific comparisons of take‐off and landing behavior are limited. In order to understand the evolution of jumping and controlled landing in frogs, data are needed on the movements of the limbs and body across an array of taxa. Here, we present the first description and comparison of kinematics of the hindlimbs, forelimbs and body during take‐off and landing in relation to ground reaction forces in four frog species spanning the frog phylogeny. The goal of this study is to understand what interspecific differences reveal about the evolution of take‐off and controlled landing in frogs. We provide the first comparative description of the entire process of jumping in frogs. Statistical comparisons identify both homologous behaviors and significant differences among species that are used to map patterns of trait evolution and generate hypotheses regarding the functional evolution of take‐off and landing in frogs. J. Morphol. 277:379–393, 2016. © 2015 Wiley Periodicals, Inc.
One-time screening for colorectal cancer with combined fecal occult-blood testing and examination of the distal colon.

BACKGROUND Fecal occult-blood testing and sigmoidoscopy have been recommended for screening for colorectal cancer, but the sensitivity of such combined testing for detecting neoplasia is uncertain. At 13 Veterans Affairs medical centers, we performed colonoscopy to determine the prevalence of neoplasia and the sensitivity of one-time screening with a fecal occult-blood test plus sigmoidoscopy. METHODS Asymptomatic subjects (age range, 50 to 75 years) provided stool specimens on cards from three consecutive days for fecal occult-blood testing, which were rehydrated for interpretation. They then underwent colonoscopy. Sigmoidoscopy was defined in this study as examination of the rectum and sigmoid colon during colonoscopy, and sensitivity was estimated by determining how many patients with advanced neoplasia had an adenoma in the rectum or sigmoid colon. Advanced colonic neoplasia was defined as an adenoma 10 mm or more in diameter, a villous adenoma, an adenoma with high-grade dysplasia, or invasive cancer. Classification of subjects according to the findings was based on the most advanced lesion. RESULTS A total of 2885 subjects returned the three specimen cards for fecal occult-blood testing and underwent a complete colonoscopic examination. A total of 23.9 percent of subjects with advanced neoplasia had a positive test for fecal occult blood. As compared with subjects who had a negative test for fecal occult blood, the relative risk of advanced neoplasia in subjects who had a positive test was 3.47 (95 percent confidence interval, 2.76 to 4.35). Sigmoidoscopy identified 70.3 percent of all subjects with advanced neoplasia. Combined one-time screening with a fecal occult-blood test and sigmoidoscopy identified 75.8 percent of subjects with advanced neoplasia. CONCLUSIONS One-time screening with both a fecal occult-blood test with rehydration and sigmoidoscopy fails to detect advanced colonic neoplasia in 24 percent of subjects with the condition.
Social presence in online learning communities: the role of personal profiles

Online communication is increasingly used in education, but it is not without problems. One significant difficulty is a lack of social presence. Social presence relates to the need for users of technology-based communication to perceive each other as real people. Low social presence can be a particular issue in text-based, asynchronous systems such as discussion forums, leading to feelings of impersonality and disengagement from online learning. Features of online communication systems have the potential to increase social presence. One possibility, advocated in the literature on online learning, is the use of personal profiles and photos to help participants to learn something about each other and feel more connected. This paper discusses the question: To what extent do personal profiles enhance social presence in online learning communities? It presents research findings from two studies which investigated learners’ use and perceptions of personal profiles in online forums. The findings suggest that personal profiles and photos help some online learners to feel in touch with each other. Other learners, however, do not feel the need for these facilities, have privacy concerns or prefer to focus on the forum postings. Keywords: personal profile; online community; learning community; social presence; distance learning (Published: 7 August 2014) Citation : Research in Learning Technology 2014, 22 : 19710 - http://dx.doi. org/10.3402/rlt.v22. 19710
Splicing-independent recruitment of U1 snRNP to a transcription unit in living cells

Numerous non-coding RNAs are known to be involved in the regulation of gene expression. In this work, we analyzed RNAs that co-immunoprecipitated with human RNA polymerase II from mitotic cell extracts and identified U1 small nuclear RNA (snRNA) as a major species. To investigate a possible splicing-independent recruitment of U1 snRNA to transcription units, we established cell lines having integrated a reporter gene containing a functional intron or a splicing-deficient construction. Recruitment of U snRNAs and some splicing factors to transcription sites was evaluated using fluorescence in situ hybridization (FISH) and immunofluorescence. To analyze imaging data, we developed a quantitative procedure, ‘radial analysis’, based on averaging data from multiple fluorescence images. The major splicing snRNAs (U2, U4 and U6 snRNAs) as well as the U2AF65 and SC35 splicing factors were found to be recruited only to transcription units containing a functional intron. By contrast, U1 snRNA, the U1-70K (also known as snRNP70) U1-associated protein as well as the ASF/SF2 (also known as SFRS1) serine/arginine-rich (SR) protein were efficiently recruited both to normally spliced and splicing-deficient transcription units. The constitutive association of U1 small nuclear ribonucleoprotein (snRNP) with the transcription machinery might play a role in coupling transcription with pre-mRNA maturation.
Unmanned Aerial Vehicle Systems for Remote Estimation of Flooded Areas Based on Complex Image Processing

Floods are natural disasters which cause the most economic damage at the global level. Therefore, flood monitoring and damage estimation are very important for the population, authorities and insurance companies. The paper proposes an original solution, based on a hybrid network and complex image processing, to this problem. As first novelty, a multilevel system, with two components, terrestrial and aerial, was proposed and designed by the authors as support for image acquisition from a delimited region. The terrestrial component contains a Ground Control Station, as a coordinator at distance, which communicates via the internet with more Ground Data Terminals, as a fixed nodes network for data acquisition and communication. The aerial component contains mobile nodes—fixed wing type UAVs. In order to evaluate flood damage, two tasks must be accomplished by the network: area coverage and image processing. The second novelty of the paper consists of texture analysis in a deep neural network, taking into account new criteria for feature selection and patch classification. Color and spatial information extracted from chromatic co-occurrence matrix and mass fractal dimension were used as well. Finally, the experimental results in a real mission demonstrate the validity of the proposed methodologies and the performances of the algorithms.
Developing professional learning for staff working with children with speech, language and communication needs combined with moderate-to-severe learning difficulties

This article presents research undertaken as part of a PhD by Carolyn Anderson who is a senior lecturer on the BSc (Hons) in Speech and Language Pathology at the University of Strathclyde. The study explores the professional learning experiences of 49 teachers working in eight schools and units for children with additional support needs in Scotland. In particular, she examines the professional learning experiences of teachers working with children with speech, language and communication needs (SLCN) combined with moderate-to-severe learning difficulties. While the teachers under study predominantly engaged with informal professional learning, she observes that they often expressed a lack of confidence in this form of professional development, tending to value formal learning regardless of impact. In response she raises a number of important questions about the role of Initial Teacher and Postgraduate Education and the ways in which schools understand reflective practice.
Contribution of working memory in multiplication fact network in children may shift from verbal to visuo-spatial: a longitudinal investigation

Number facts are commonly assumed to be verbally stored in an associative multiplication fact retrieval network. Prominent evidence for this assumption comes from so-called operand-related errors (e.g., 4 × 6 = 28). However, little is known about the development of this network in children and its relation to verbal and non-verbal memories. In a longitudinal design, we explored elementary school children from grades 3 and 4 in a multiplication verification task with the operand-related and -unrelated distractors. We examined the contribution of multiplicative fact retrieval by verbal and visuo-spatial short-term and working memory (WM). Children in grade 4 showed smaller reaction times in all conditions. However, there was no significant difference in errors between grades. Contribution of verbal and visuo-spatial WM also changed with grade. Multiplication correlated with verbal WM and performance in grade 3 but with visuo-spatial WM and performance in grade 4. We suggest that the relation to verbal WM in grade 3 indicates primary linguistic learning of and access to multiplication in grade 3 which is probably based on verbal repetition of the multiplication table heavily practiced in grades 2 and 3. However, the relation to visuo-spatial semantic WM in grade 4 suggests that there is a shift from verbal to visual and semantic learning in grade 4. This shifting may be induced because later in elementary school, multiplication problems are rather carried out via more written, i.e., visual tasks, which also involve executive functions. More generally, the current data indicates that mathematical development is not generally characterized by a steady progress in performance; rather verbal and non-verbal memory contributions of performance shift over time, probably due to different learning contents.
Resiliency and Social Support Networks in a Population of Mexican American Intimate Partner Violence Survivors

This article discusses research conducted with Mexican American female survivors of intimate partner violence (IPV) and explores the survivors’ capacity for resiliency and the nature of their social networks. The study used a nonprobability convenience sample of survivors of IPV living in shelters in two southwestern border cities and asked these questions: How much is resiliency affected by mood? What parts of the IPV survivors’ social networks are most supportive? Dependent sample t tests demonstrated that increased resiliency is associated with decreased mood disturbance. Ordinary least squares regression indicated that perception of social support is directly related to number of friends/neighbors and size of formal network. Implications for practice are discussed.
Shaping and timing gradient pulses to reduce MRI acoustic noise

A method to reduce the acoustic noise generated by gradient systems in MRI has been recently proposed; such a method is based on the linear response theory. Since the physical cause of MRI acoustic noise is the time derivative of the gradient current, a common trapezoid current shape produces an acoustic gradient coil response mainly during the rising and falling edge. In the falling edge, the coil acoustic response presents a 180° phase difference compared to the rising edge. Therefore, by varying the width of the trapezoid and keeping the ramps constant, it is possible to suppress one selected frequency and its higher harmonics. This value is matched to one of the prominent resonance frequencies of the gradient coil system. The idea of cancelling a single frequency is extended to a second frequency, using two successive trapezoid‐shaped pulses presented at a selected interval. Overall sound pressure level reduction of 6 and 10 dB is found for the two trapezoid shapes and a single pulse shape, respectively. The acoustically optimized pulse shape proposed is additionally tested in a simulated echo planar imaging readout train, obtaining a sound pressure level reduction of 12 dB for the best case. Magn Reson Med, 2010. © 2010 Wiley‐Liss, Inc.
A Comparison of anonymization protection principles

We do a survey of some of the most important principles of anonymization present in the literature. We identify different kinds of attacks that can be thrown against an anonymized dataset and give formulas for the maximum probability of success for each. For each principle, we identify whether it is monotonous, what attacks it is suited to counter, if any, and what principles imply other principles. We end by giving a classification of anonymization principles and giving guidelines to choosing the right principle for an application. Although we could not cover all principles in the literature, this is a first step to a systematization and simplification of proposals for anonymization principles.
Unsupervised shape clustering of vertebra shapes using simulated annealing and nonlinear dimensionality reduction

Unsupervised shape clustering can facilitate the labeling of objects present in images, especially when not all the samples are already identied by humans or some mistakes can be present. Some medical imaging tasks can present these diculties. For example, vertebra shapes annotated from lateral x-ray acquisitions are relevant for prognosis and diagnosis of fracture risk and osteoporosis, but their analysis can be cumbersome. In this paper, we propose a fracture prognosis framework able to outperforms other supervised estimations, based on simulated annealing clustering and non-linear dimensionality reduction. The cohort in exam is divided into a case and control group, in which the former sustained one incident lumbar fracture and the latter maintained skeletal integrity from baseline to follow-up. All subjects are fracture-free at baseline and from a subset of a larger epidemiological population, selected matching at baseline with respect to age, height, weight, spine BMD, physical activities and smoking habits; in this way the known risk factors are isolated and the only dierence left is their shapes variations. Each vertebra is represented by 6 points on its contour. A classier is trained to separate cases and controls at baseline. Our experiments show the possibility of using unsupervised clustering for overcoming misleading human classication in challenging tasks.
The Dopamine Stabilizers (S)-(-)-(3-Methanesulfonyl-phenyl)-1-propyl-piperidine [(-)-OSU6162] and 4-(3-Methanesulfonylphenyl)-1-propyl-piperidine (ACR16) Show High in Vivo D2 Receptor Occupancy, Antipsychotic-Like Efficacy, and Low Potential for Motor Side Effects in the Rat

“Dopamine stabilizers” are a new class of compounds that have the ability to reverse both hypo- as well as hyperdopaminergia in vivo. This class, exemplified by the phenylpiperidines (S)-(-)-3-(3-methanesulfonyl-phenyl)-1-propyl-piperidine [(-)-OSU6162] and 4-(3-methanesulfonyl-phenyl)-1-propyl)-piperidine [ACR16] although lacking high in vitro binding affinity for dopamine D2 receptor [(-)-OSU6162, Ki = 447 nM; ACR16, Ki > 1 μM], shows functional actions, suggestive of their interaction. Hence, we evaluated in vivo D2 occupancy of these agents in rats and correlated it to observed effects in a series of behavioral, neurochemical, and endocrine models relevant to the dopamine system and antipsychotic effect. Both (-)-OSU6162 and ACR16 showed robust dose-dependent striatal D2 occupancy with ED50 values of 5.27 and 18.99 mg/kg s.c. , respectively, and functional assays showed no partial agonism. Over an occupancy range of 37 to 87% (3-60 mg/kg) for (-)-OSU6162 and 35 to 74% (10-60 mg/kg) for ACR16, we observed both inhibitory (amphetamine-induced locomotor activity) and stimulatory effects (in habituated rats). Haloperidol, over a similar occupancy range (33-78%), potently inhibited psychostimulant activity and induced catalepsy, but it failed to activate habituated animals. In the conditioned avoidance response assay, ACR16 was clearly more efficacious than (-)-OSU6162. In addition, both these compounds demonstrated significant preferential Fos induction in the nucleus accumbens compared with the dorsolateral striatum, a strong predictor of atypical antipsychotic efficacy. The results suggest that dopamine stabilizers exhibit locomotor stabilizing as well as antipsychotic-like effects, with low motor side effect liability, in a dose range that corresponds to high D2 in vivo occupancy.
A dynamic memory of fracture processes in ice shelves

Future sea-level rise has the potential to affect a large fraction of the world’s urbanized areas and many generations to come. In order to design suitable mitigation and adaptation measures, accurate sea-level projections are required. Ice dynamics within the Antarctic Ice Sheet constitutes the major uncertainty in state-of-the-art model approaches. Floating ice shelves around the Antarctic coastline play an indirect but essential role for ice-discharge estimates. In order to gain a better understanding of the Antarctic ice-sheet-shelf system and to provide physically sound estimates for future seal-level rise we have developed the Potsdam Parallel Ice Sheet Model (PISM-PIK). Many numerical issues had to be solved in order to generate a realistic representation of ice-shelf dynamics. In a dynamic equilibrium simulation of the entire Antarctic ice sheet under present day conditions, we could reproduce the characteristic pattern of ice flow, with a smooth transition between the different flow regime, in a way that is consistent with observations. PISMPIK code was merged back into PISM and is now used by many groups around the world. The position of the grounding line, which separates the grounded and floating ice, strongly influences the stress balance between ice shelves and ice sheet. In a model intercomparison I could show that, by the use of a combined shallow approximation of the stress balance, PISM features the same quality of steady-state grounding-line migration and reversibility as models using higher-order approximations. With the help of sub-grid techniques we improved PISM’s performance for coarse resolutions as well. Ice loss from the Antarctic ice shelves mainly occurs via calving of icebergs which is a highly complex process involving different spatial and temporal scales. I proposed a first-order kinematic calving parameterization which is based on the local spreading rates along the calving front which is associated with the propagation of preexisting fractures. In this simple formulation, in most cases modeled ice shelves remain within the basins where they are presently observed, mainly controlled by the confining boundary geometry via the non-local stress balances.
Ultrastructure of sea urchin calcified tissues after high-pressure freezing and freeze substitution.

The improvements brought by high-pressure freezing/freeze substitution fixation methods to the ultrastructural preservation of echinoderm mineralized tissues are investigated in developing pedicellariae and teeth of the echinoid Paracentrotus lividus. Three freeze substitution (FS) protocols were tested: one in the presence of osmium tetroxide, one in the presence of uranyl acetate, and the last in the presence of gallic acid. FS in the presence of osmium tetroxide significantly improved cell ultrastructure preservation and should especially be used for ultrastructural studies involving vesicles and the Golgi apparatus. With all protocols, multivesicular bodies, suggested to contain Ca(2+), were evident for the first time in skeleton-forming cells. FS in the presence of gallic acid allowed us to confirm the structured and insoluble character of a part of the organic matrix of mineralization in the calcification sites of the tooth, an observation which modifies the current understanding of biomineralization control in echinoderms.
TGF-β1 activates two distinct type I receptors in neurons

Transforming growth factor-βs (TGF-βs) are pleiotropic cytokines involved in development and maintenance of the nervous system. In several neural lesion paradigms, TGF-β1 exerts potent neuroprotective effects. Neurons treated with TGF-β1 activated the canonical TGF-β receptor I/activin-like kinase receptor 5 (ALK5) pathway. The transcription factor nuclear factor-κB (NF-κB) plays a fundamental role in neuroprotection. Treatment with TGF-β1 enhanced NF-κB activity in gelshift and reporter gene analyses. However, ectopic expression of a constitutively active ALK5 failed to mimic these effects. ALK1 has been described as an alternative TGF-β receptor in endothelial cells. Interestingly, we detected significant basal expression of ALK1 and its injury-induced up-regulation in neurons. Treatment with TGF-β1 also induced a pronounced increase in downstream Smad1 phosphorylation. Overexpression of a constitutively active ALK1 mimicked the effect of TGF-β1 on NF-κB activation and neuroprotection. Our data suggest that TGF-β1 simultaneously activates two distinct receptor pathways in neurons and that the ALK1 pathway mediates TGF-β1–induced NF-κB survival signaling.