Miracle-dz/UniFAR-FTUs huggingface dataset:
Profiling tumour heterogeneity through circulating tumour DNA in patients with pancreatic cancer

The majority of pancreatic ductal adenocarcinomas (PDAC) are diagnosed late so that surgery is rarely curative. Earlier detection could significantly increase the likelihood of successful treatment and improve survival. The aim of the study was to provide proof of principle that point mutations in key cancer genes can be identified by sequencing circulating free DNA (cfDNA) and that this could be used to detect early PDACs and potentially, premalignant lesions, to help target early effective treatment. Targeted next generation sequencing (tNGS) analysis of mutation hotspots in 50 cancer genes was conducted in 26 patients with PDAC, 14 patients with chronic pancreatitis (CP) and 12 healthy controls with KRAS status validated by digital droplet PCR. A higher median level of total cfDNA was observed in patients with PDAC (585 ng/ml) compared to either patients with CP (300 ng/ml) or healthy controls (175 ng/ml). PDAC tissue showed wide mutational heterogeneity, whereas KRAS was the most commonly mutated gene in cfDNA of patients with PDAC and was significantly associated with a poor disease specific survival (p=0.018). This study demonstrates that tNGS of cfDNA is feasible to characterise the circulating genomic profile in PDAC and that driver mutations in KRAS have prognostic value but cannot currently be used to detect early emergence of disease. Importantly, monitoring total cfDNA levels may have utility in individuals “at risk” and warrants further investigation.
Contesting energy transitions: wind power and conflicts in the Isthmus of Tehuantepec

Abstract This article studies the expansion of large-scale wind energy projects on the Isthmus of Tehuantepec (Mexico) and local socio-environmental conflicts that have emerged in response. It explores how the neoliberal agenda in Mexico is shaping a specific way of implementing wind energy projects, and how this is leading to local resistance and the production of alternatives. The article is based on a historical analysis reconstructing the main features of wind power development, and pathways of struggle. By following a political ecology perspective, wind energy is seen as embedded in a wider frame of power relations and the uneven patterns of the Mexican economy. The struggles of indigenous groups are thus analyzed as the expression of peripheral communities against the enclosure of communal lands, the private appropriation of benefits, and the lack of democratic procedures involved in these projects. The discussion emphasizes the role of communal identities and institutions in building successful networks, while introducing new concepts (energy sovereignty) and alternative schemes in wind power production (cooperatives). The overall approach of the article is that any move towards a different energy system should be politically encouraged by social and cultural means, rather than be largely economically motivated. Keywords: wind energy, neoliberalism, socio-environmental conflicts, energy sovereignty, cooperatives, Tehuantepec
Effects of exposure of mice to hindlimb unloading on leukocyte subsets and sympathetic nervous system activity

The hindlimb unloading (HU) rodent model was developed to simulate some of the aspects of spaceflight conditions. Our previous studies showed that exposure to HU for 48 h (h) followed by bacterial challenge, reduces the ability of mice to resist infection. The purpose of this study was to investigate the physiological changes in mice during the 48 h of exposure to HU to understand the mechanisms involved in the increased susceptibility to infection observed in mice subjected to these conditions. Female Swiss Webster mice were hindlimb-unloaded during 48 h. Blood samples, spleen and peritoneal cells were removed before and after 18 or 48 h of HU-exposure. Leukocyte subset analysis was performed in spleen and peritoneal cells by flow cytometry, and catecholamine levels were measured in plasma and whole spleen by a catecholamine enzyme immunoassay. Catecholamine levels measured in plasma and spleen were significantly greater in mice exposed to HU compared to control. This increase coincided with significant reductions in spleen size in the HU group. Flow cytometric analyses showed a significant reduction of splenic CD19 + B-cells and NK1.1+ cells in mice exposed to HU with a concomitant increase in T-cells. These results suggest that exposure to HU increases the activity of the sympathetic nervous system (SNS) and induces lymphocyte sub-population changes that may contribute to the deregulation of immunity seen in mice exposed to HU and, more importantly may predispose the otherwise healthy host to the subsequent reduced ability to resist infections.
Genetic Evidence for Multifactorial Control of the Reproductive Axis in Zebrafish

It is generally believed that kisspeptin and gonadotropin-releasing hormone (GnRH) are required for reproduction in vertebrates. In this study, we generated gnrh3-null zebrafish and found that gnrh3 mutation did not impair gonad development and reproductive capacity. Moreover, zebrafish triple knockout mutant lacking gnrh3 and the 2 kiss1s genes undergo normal puberty and gonad maturation. The expression of follicle-stimulating hormone beta (fshβ) and luteinizing hormone beta (lhβ) was not significantly altered whereas the expression of neuropeptide Y (npy), tachykinin 3 (tac3), and secretogranin-II (sgII) was significantly increased in the triple knockout mutant, suggesting that compensation mechanisms exist to stimulate the reproductive axis in the absence of kiss and gnrh. Our results challenge the prevailing view that GnRH is indispensable for reproduction across species. These data provide genetic evidence that different mechanisms have evolved for the neuroendocrine control of reproduction between mammals and fish: pulsatile release of GnRH to the portal system is the final gateway to stimulate the reproductive axis in mammals, whereas multiple factors act in parallel with GnRH to stimulate the reproductive axis in certain fish species.
Representation and recognition of the movements of shapes

The problems posed by the representation and recognition of the movements of 3-D shapes are analysed. A representation is proposed for the movements of shapes that lie within the scope of the Marr & Nishihara (1978) 3-D model representation of static shapes. The basic problem is how to segment a stream of movement into pieces, each of which can be described separately. The representation proposed here is based upon segmenting a movement at moments when a component axis, e. g. an arm, starts to move relative to its local coordinate frame (here the torso). For example, walking is divided into a segment of the stationary states between each swing of the arms and legs, and the actual motions between the stationary points (relative to the torso, not the ground). This representation is called the state─motion─state (SMS) moving shape representation, and several examples of its application are given.
Bipolar scissors in facial plastic surgery.

BACKGROUND Many methods are available to the facial plastic surgeon for elevating and separating tissue, from cold steel to monopolar cautery to various laser-cutting technologies. Bipolar cautery has replaced monopolar cautery as the optimal hemostatic technique because of its decreased tissue damage and improved capabilities. Bipolar scissors concurrently offer a dissecting technique with hemostatic capability. Little exists in the otolaryngology literature on the use of bipolar scissors for soft tissue dissection. OBJECTIVE To describe our experience using bipolar scissors in a variety of facial plastic and reconstructive procedures. SETTING Tertiary care referral academic center. DESIGN We retrospectively reviewed 78 procedures performed using bipolar scissors between June 1997 and August 1999. In facial plastic cosmetic surgery, bipolar scissors were used 31 times for deep plane face-lifts and 16 times for endoscopic browlifts. In facial plastic reconstructive surgery, bipolar scissors were used in 15 radial forearm free flaps, 10 fibula osteocutaneous flaps, 3 rectus abdominis free flaps, and 3 latissimus dorsi myocutaneous free flaps. RESULTS In all procedures, bipolar scissors facilitated the dissection. By allowing for a drier field, less time was required to elevate the flap and obtain hemostasis. Complications were not increased compared with historical controls. In the harvesting of fibula osteocutaneous free flaps, use of bipolar scissors allowed harvesting without use of a tourniquet. CONCLUSION Bipolar scissors, a new technology in facial plastic surgery, allow the same control as sharp dissection and provide simultaneous hemostasis.
S100A6 (calcyclin) deficiency induces senescence‐like changes in cell cycle, morphology and functional characteristics of mouse NIH 3T3 fibroblasts

S100A6 (calcyclin) is a calcium binding protein with two EF‐hand structures expressed mostly in fibroblasts and epithelial cells. We have established a NIH 3T3 fibroblast cell line stably transfected with siRNA against S100A6 to examine the effect of S100A6 deficiency on non‐transformed cell physiology. We found that NIH 3T3 fibroblasts with decreased level of S100A6 manifested altered cell morphology and proliferated at a much slower pace than the control cells. Cell cycle analysis showed that a large population of these cells lost the ability to respond to serum and persisted in the G0/G1 phase. Furthermore, fibroblasts with diminished S100A6 level exhibited morphological changes and biochemical features of cellular senescence as revealed by β‐galactosidase and gelatinase assays. Also, S100A6 deficiency induced changes in the actin cytoskeleton and had a profound impact on cell adhesion and migration. Thus, we have shown that the S100A6 protein is involved in multiple aspects of fibroblast physiology and that its presence ensures normal fibroblast proliferation and function. J. Cell. Biochem. 109: 576–584, 2010. © 2009 Wiley‐Liss, Inc.
Transtheoretical model-based passive smoking prevention programme among pregnant women and mothers of young children.

BACKGROUND We evaluated the effectiveness of a transtheoretical model (TTM)-based passive smoking prevention programme developed to enhance passive smoking avoidance among pregnant women and women with young children in Taiwan. METHODS Subjects were pregnant women recruited from the obstetrics/gynaecology department and women with children younger than age 3 recruited from the paediatrics department of four hospitals in Taiwan. Participants were randomly assigned to a group receiving a TTM-based intervention programme or a comparison group receiving routine care. The intervention programme consisted of educational materials and phone counselling. Baseline assessment and post-test data were collected from both groups using a self-reported questionnaire developed based on stages of change related to readiness for passive smoking avoidance. RESULTS Determinants of change, post-test scores of knowledge, experiential and behavioural processes and self-efficacy were significantly different between the intervention group and comparison group among both pregnant women and mothers. Among pregnant women, the intervention group had significantly higher post-test scores than the comparison group. The distribution of percentages in three stages of change (Precontemplation, Contemplation/Preparation and Action/Maintenance) was significantly different between the two groups among both pregnant women and mothers. However, a higher percentage of mothers made progress in stages of change compared with pregnant women. CONCLUSION A TTM-based intervention programme was potentially effective in passive smoking prevention by improving knowledge, experiential and behavioural processes and self-efficacy among pregnant women and women with young children. A higher percentage of mothers with young children had progressed in stages of change post-intervention compared with pregnant women.
Does women’s empowerment affect the health of children? The case of Mozambique

In developing countries, women’s decisions concerning their children’s health depend on ‘empowerment’ concerning decision-making, husband/partner’s use of violence, woman’s attitude towards this violence, available information, and resources. We derive an empowerment indicator using the ‘fuzzy sets’ and Alkire and Foster approaches to multidimensional poverty measurement. The health of children is a latent variable; their height and weight are observed health indicators. We apply the ‘MIMIC’ approach to the 2009 Mozambique Demographic and Health Survey. Children’s health is better when the woman opposes her partner’s violence, the higher her education and body mass index, among female children, and in urban areas.
Serum amyloid A and pairing formyl peptide receptor 2 are expressed in corneas and involved in inflammation-mediated neovascularization.

AIM To solidify the involvement of Saa-related pathway in corneal neovascularization (CorNV). The pathogenesis of inflammatory CorNV is not fully understood yet, and our previous study implicated that serum amyloid A (Saa) 1 (Saa1) and Saa3 were among the genes up-regulated upon CorNV induction in mice. METHODS Microarray data obtained during our profiling project on CorNV were analyzed for the genes encoding the four SAA family members (Saa1-4), six reported SAA receptors (formyl peptide receptor 2, Tlr2, Tlr4, Cd36, Scarb1, P2rx7) and seven matrix metallopeptidases (Mmp) 1a, 1b, 2, 3, 9, 10, 13 reportedly to be expressed upon SAA pathway activation. The baseline expression or changes of interested genes were further confirmed in animals with CorNV using molecular or histological methods. CorNV was induced in Balb/c and C57BL/6 mice by placing either three interrupted 10-0 sutures or a 2 mm filter paper soaked with sodium hydroxide in the central area of the cornea. At desired time points, the corneas were harvested for histology examination or for extraction of mRNA and protein. The mRNA levels of Saa1, Saa3, Fpr2, Mmp2 and Mmp3 in corneas were detected using quantitative reverse transcription-PCR, and SAA3 protein in tissues detected using immunohistochemistry or western blotting. RESULTS Microarray data analysis revealed that Saa1, Saa3, Fpr2, Mmp2, Mmp3 messengers were readily detected in normal corneas and significantly up-regulated upon CorNV induction. The changes of these five genes were confirmed with real-time PCR assay. On the contrary, other SAA members (Saa2, Saa4), other SAA receptors (Tlr2, Tlr4, Cd36, P2rx7, etc), or other Mmps (Mmp1a, Mmp1b, Mmp9, Mmp10, Mmp13) did not show consistent changes. Immunohistochemistry study and western blotting further confirmed the expression of SAA3 products in normal corneas as well as their up-regulation in corneas with CorNV. CONCLUSION SAA-FPR2 pathway composing genes were expressed in normal murine corneas and, upon inflammatory stimuli challenge to the corneas, their expressions were up-regulated, suggesting their roles in pathogenesis of CorNV. The potential usefulness of SAA-FPR2 targets in future management of CorNV-related diseases deserves investigation.
Introducing Temporal Rate Coding for Speech in Cochlear Implants: A Microscopic Evaluation in Humans and Models

Standard cochlea implant (CI) speech coding strategies transmit formant information only via the place of the stimulated electrode. In acoustic hearing, however, formant frequencies are additionally coded via the temporal rate of auditory nerve firing. This study presents a novel CI coding strategy (“Formant Locking (FL)-strategy”) that varies stimulation rates in relation to extracted fundamental and formant frequencies. Simulated auditory nerve activity resulting from stimulation with the FLstrategy shows that the FL-strategy triggers spike rates that are related to the formant frequencies similar as in normal hearing, and greatly different than in a standard CI strategy. Vowel recognition in seven CI users via direct stimulation of their electrode array shows that the FL-strategy results in significantly increased scores of the vowels /u/ and /i/ compared to a standard CI strategy. However, at the same time, a decrease in scores for /o/ and /e/ occurred. A microscopic speech intelligibility model involving an automatic speech recognizer reveals good agreement between modeled and predicted confusion matrices for the FL-strategy. This suggests that microscopic models can be used to test CI strategies in the development phase, and gives indications which cues might be used by the listeners for speech recognition.
Treatment of posttransplant lymphoproliferative disease with rituximab: the remission, the relapse, and the complication.

BACKGROUND Rituximab, a humanized anti-CD20 monoclonal antibody, is a promising new tool for the treatment of posttransplant lymphoproliferative disease (PTLD), especially for patients transplanted with rejection prone transplants of vital organs, such as patients after lung transplantation. Thus far, no major complications have been described. We treated three lung transplant recipients with Rituximab because of PTLD. METHODS Patients were treated with four weekly doses of 375 mg/m2 of Rituximab. Epstein-Barr virus (EBV) DNA was monitored with quantitative-competitive polymerase chain reaction and circulating B cells with flow cytometry. RESULTS Treatment with Rituximab resulted in a complete remission in all patients without signs of or progression of bronchiolitis obliterans syndrome. Patient 1 relapsed after 2 months with a partly CD20-negative PTLD but is in stable remission after radiotherapy. Patient 2 is in complete remission 16 months after treatment, but patient 3 developed a hypogammaglobulinemia and died of invasive aspergillosis after 6 months. EBV DNA was detectable in the blood samples of patients 2 and 3 before treatment with Rituximab and became negative instantly after Rituximab. In all three patients, B cells are absent in the peripheral blood 7 months (at death), 16 months, and 16 months after treatment with Rituximab. Antiproliferating agents, such as mycophenolate mofetil (MMF), might prolong B-cell depletion. CONCLUSIONS Rituximab was effective for the treatment of PTLD without progression of transplant dysfunction in our patients. Complications were a partly CD20-negative relapse of PTLD and a hypogammaglobulinemia. Attention should be paid to immunoglobulin G (IgG) levels, especially in patients treated with antiproliferating agents such as MMF.
Standing Waves along a Microwave Generated Surface Wave Plasma

Two surface wave plasma columns, generated by microwave power in argon at gas pressures of 0.05 torr to 330 torr, interact in the same discharge tube to form standing surface waves. Radial electric field Er and azimuthal magnetic field H¿ outside the discharge tube are measured to be 90° out of phase with respect to axial position and to decay exponentially with radial distance from the tube axis. Maximum light emission occurs at the position of maximum H¿, and minimum Er. Electron temperature and density are measured at low pressures with double probes inserted into the plasma at a null of Er. Measured electron densities compare well with those predicted by Gould-Trivelpiece (GT) surface wave theory. Measured electron temperatures are the same order of magnitude as temperatures predicted by positive column theory.
Improved Conductance Linearity and Conductance Ratio of 1T2R Synapse Device for Neuromorphic Systems

We report on a 1-transisor/2-resistor (1T2R) synapse device with improved conductance linearity and conductance ratio under an identical pulse condition for hardware neural networks with high pattern-recognition accuracy. Utilizing an additional series-connected resistor, the conductance linearity of a synapse device was significantly improved owing to the reduced initial voltage drop on an resistive RAM (RRAM) device during depression conditions. Moreover, to maximize the conductance ratio of a synapse device, we utilized a steep subthreshold region of an MOSFET by a parallel connection of an RRAM and a transistor. A small change in voltage on the RRAM directly controlled the gate bias of the MOSFET, which causes a large change in the drain current. Compared with a conventional RRAM synapse device, the 1T2R synapse device shows an improved conductance linearity and conductance ratio ( $> \times 100$ ). Finally, we confirmed an excellent classification accuracy by using a neural network simulation based on a multilayer perceptron.
Generic learning skills in academically-at-risk medical students: A development programme bridges the gap

Background: Widening access to medical students from diverse educational backgrounds is a global educational mandate. The impact, on students’ generic learning skills profiles, of development programmes designed for students at risk of attrition is unknown. Aims: This study investigated the impact of a 12-month Intervention Programme (IP) on the generic learning skills profile of academically-at-risk students who, after failing at the end of the first semester, completed the IP before entering the second semester of a conventional medical training programme. Methods: This prospective study surveyed medical students admitted in 2009 and 2010, on entry and on completion of first year, on their reported practice and confidence in information handling, managing own learning, technical and numeracy, computer, organisational and presentation skills. Results: Of 414 first year students, 80 (19%) entered the IP. Levels of practice and confidence for five of the six skills categories were significantly poorer at entry for IP students compared to conventional stream students. In four categories these differences were no longer statistically significant after students had completed the IP; 62 IP students (77.5%) progressed to second year. Conclusions: A 12-month development programme, the IP, effectively addressed generic learning skills deficiencies present in academically-at-risk students entering medical school.
Microsurgical approach to the abdominal thoracic duct in the rat: Considerations in the collection of lymphocytes

In experiments involving the collection of thoracic duct lymphocytes the anatomy of the abdominal thoracic duct in the rat has been further defined. In general, the abdominal thoracic duct lies posterior and to the left of the aorta between the renal arteries and the diaphragm. There are variations in the microsurgical approach to the classically described location of this organ that should be noted by investigators attempting to identify and dissect this Structure. © Wiley‐Liss, Inc.
A model predictive control approach to aircraft motion control

We consider the problem of designing a controller that is able to steer an aircraft to some target position, while satisfying a set of constraints originating from physical limitations and comfort requirements. The key idea is to use feedback linearization, and then approximate the constraints in the new state and control variables so as to make them convex. This enables the on-line usage of the model predictive control strategy to aircraft motion control.