gebhart/patrepeval huggingface dataset:
Evaluation of wound healing process based on texture analysis (2012)

Wound healing rate, remains an interesting and important issue, in which modern imaging techniques have not yet given a definitive answer. In order to guide better therapeutic interventions, a better understanding of the fundamental mechanisms driving tissue repair are required. The wound healing rate is primarily quantified by the rate of change of the wound's surface area. The objective of this study was to establish a standardised and objective technique to asses the progress of wound healing in foot by means of texture analysis. The methods of image pre-processing, segmentation and texture analysis together with visual expert's evaluation were used to assess the wound healing process. A total of 40 digital images from ten different subjects with food wounds were taken every third day, for 12 days, by an inexpensive digital camera under variable lighting conditions. The images were intensity normalized, and wounds were automatic segmented using a snake's segmentation system. From the segmented wounds 15 different texture characteristics and 4 different geometrical features were extracted in order to identify features that quantify the rate of wound healing. We found texture characteristics that may indicate the progression of wound healing process. More specifically, some texture features increase (mean, contrast), while some other texture features decrease (entropy, sum of squares variance, sum average, sum variance) with the progression of the wound healing process. Some of these features were found to be significantly different in a specific time point and this could be used to indicate the rate of wound healing. No significant differences were found for all geometrical measures. The results of this study suggest that some texture features might be used to monitor the wound healing process, thus reducing the workload of experts, provide standardization, reduce costs, and improve the quality for patients. The simplicity of the method also suggests that it may be a valuable tool in clinical wound evaluation. Future work will incorporate additional texture and geometrical features for assessing the wound healing process in order to be used in the real clinical praxis.
Contact-controlled sensing properties of flowerlike ZnO nanostructures (2005)

Contact-controlled sensing is realized from flowerlike ZnO structures composed of rods. The rods are around 150 nm in diameter and up to a few micrometers in length. When they are exposed to air, a depletion region formed below the surface of the rods arising from the adsorption of oxygen. Surface depletion does not greatly reduce either the carrier density or the mobility in the rods but significantly modify the potential barrier of the contacts between the rods. Both the large diameter and the long length result in a low sensor resistance down to 104kΩ in air at 300 °C. The exponential increase of the tunneling rate with the thickness and height of the contact barrier leads to a high sensitivity up to 14.6 for 100 ppm ethanol. These results indicate that contact-controlled sensing can be used to fabricate high-performance sensors with both high sensitivity and low resistance.
Simultaneous Dual‐Gene Diagnosis of SARS‐CoV‐2 Based on CRISPR/Cas9‐Mediated Lateral Flow Assay (2020)

Abstract Few methods for the detection of SARS‐CoV‐2 currently have the capability to simultaneously detect two genes in a single test, which is a key measure to improve detection accuracy, as adopted by the gold standard RT‐qPCR method. Developed here is a CRISPR/Cas9‐mediated triple‐line lateral flow assay (TL‐LFA) combined with multiplex reverse transcription‐recombinase polymerase amplification (RT‐RPA) for rapid and simultaneous dual‐gene detection of SARS‐CoV‐2 in a single strip test. This assay is characterized by the detection of envelope (E) and open reading frame 1ab (Orf1ab) genes from cell‐cultured SARS‐CoV‐2 and SARS‐CoV‐2 viral RNA standards, showing a sensitivity of 100 RNA copies per reaction (25 μL). Furthermore, dual‐gene analysis of 64 nasopharyngeal swab samples showed 100 % negative predictive agreement and 97.14 % positive predictive agreement. This platform will provide a more accurate and convenient pathway for diagnosis of COVID‐19 or other infectious diseases in low‐resource regions.
Metal–Oxide RRAM (2012)

In this paper, recent progress of binary metal–oxide resistive switching random access memory (RRAM) is reviewed. The physical mechanism, material properties, and electrical characteristics of a variety of binary metal–oxide RRAM are discussed, with a focus on the use of RRAM for nonvolatile memory application. A review of recent development of large-scale RRAM arrays is given. Issues such as uniformity, endurance, retention, multibit operation, and scaling trends are discussed.
β1-Adrenergic receptor polymorphisms influence the response to metoprolol monotherapy in patients with essential hypertension (2006)

beta(1)-Adrenergic receptor polymorphism was associated with different blood pressure responses to metoprolol therapy in patients with essential hypertension. 49Ser389Arg/49Ser389Arg and 49Ser389Arg/49Gly389Arg patients were good responders to metoprolol therapy; 49Ser389Arg/49Ser389Arg patients had a larger systolic blood pressure reduction than 49Ser389Arg/49Gly389Arg patients did. 49Ser389Gly/49Gly389Arg and 49Ser389Gly/49Ser389Gly patients were nonresponders to metoprolol antihypertensive therapy.
Phase i study of ata188, an off-the-shelf, allogeneic epstein-barr virus-targeted t-cell immunotherapy for progressive forms of multiple sclerosis (2020)

Background: Epstein-Barr virus (EBV) is a necessary risk factor for the development of multiple sclerosis (MS) [Abrahamyan S et al. JNNP 2020; Pakpoor J et al. Mult Scler 2012]. Early experience with autologous EBV-specific T-cell adoptive immunotherapy proved safe and may offer clinical benefit [Pender MP et al. JCI Insight 2018].\n\nObjectives: This Phase I study evaluated the safety and potential efficacy of off-the-shelf, allogeneic EBV-targeted T-cell therapy (ATA188) in adults with progressive forms of MS (NCT03283826).\n\nMethods: In part 1, four cohorts received escalating doses of ATA188 to determine the recommended part 2 dose (RP2D). Patients (pts) were followed for 1-year and given the option to participate in a 4-year open label extension (OLE) at the RP2D (cohort 3 dose). In addition to safety, sustained disability improvement (SDI) was assessed, defined as improvement in Expanded Disability Status Scale (EDSS) or Timed 25-Foot Walk (T25FW) at ⩾2 consecutive time points [Pender MP et al. EAN 2020; LB130]. Other measures evaluated include Fatigue Severity Scale (FSS), 12-item MS Walking Scale (MSWS-12), MS Impact Scale-29 (physical; MSIS-29), and whole brain volume (via magnetic resonance imaging [MRI]). As of August 2020, we expect 12-month (m) data for all 4 cohorts, which marks the end of the dose finding portion of this study, will be available for presentation.\n\nResults: As of April 2020, 25 pts had received ⩾1 dose of ATA188. No grade >3 events, dose-limiting toxicities, cytokine release syndrome, graft vs host disease, or infusion reactions were observed. Two treatment-emergent serious adverse events were reported: muscle spasticity (grade 2; not treatment related) and MS relapse (grade 3; possibly treatment related). Efficacy endpoints were assessed in cohorts 1–4 (n=24) at 6m and in cohorts 1–3 (n=17) at 12m. Six pts met SDI criteria at 6m and 5 pts met it at 12m, which was driven by EDSS in all but 2 pts at both 6 and 12m. At both timepoints, a higher proportion of pts showed SDI with increasing dose. In cohorts 1–3, all pts with SDI at 6m maintained it through 12m. Pts with SDI (vs those without) tended to have greater improvements in FSS, MSWS-12, and MSIS-29 (physical) scores, as well as less reduction in whole brain volume on MRI, from baseline to 12m. As of June 2020, OLE data from the 15m timepoint were available for 4 pts; 3 had SDI at 6m and 12m which was maintained at 15m.\n\nConclusions: Preliminary data indicate ATA188 is well tolerated. A higher proportion of pts showed sustained disability improvement (SDI) with increasing dose. Pts who achieved SDI at any timepoint maintained it at all future timepoints and tended to show improvements in fatigue, physical function, and MRI whole brain volume at 12m. Based on these data, part 2 of the study (randomized placebo-controlled portion) has been initiated using the cohort 3 dose.
Multivariate Outlier Detection and Robust Covariance Matrix Estimation (2001)

In this article, we present a simple multivariate outlier-detection procedure and a robust estimator for the covariance matrix, based on the use of information obtained from projections onto the directions that maximize and minimize the kurtosis coefficient of the projected data. The properties of this estimator (computational cost, bias) are analyzed and compared with those of other robust estimators described in the literature through simulation studies. The performance of the outlier-detection procedure is analyzed by applying it to a set of well-known examples.
“Won’t Somebody Think of the Children?” Examining COPPA Compliance at Scale (2018)

Abstract We present a scalable dynamic analysis framework that allows for the automatic evaluation of the privacy behaviors of Android apps. We use our system to analyze mobile apps’ compliance with the Children’s Online Privacy Protection Act (COPPA), one of the few stringent privacy laws in the U.S. Based on our automated analysis of 5,855 of the most popular free children’s apps, we found that a majority are potentially in violation of COPPA, mainly due to their use of thirdparty SDKs. While many of these SDKs offer configuration options to respect COPPA by disabling tracking and behavioral advertising, our data suggest that a majority of apps either do not make use of these options or incorrectly propagate them across mediation SDKs. Worse, we observed that 19% of children’s apps collect identifiers or other personally identifiable information (PII) via SDKs whose terms of service outright prohibit their use in child-directed apps. Finally, we show that efforts by Google to limit tracking through the use of a resettable advertising ID have had little success: of the 3,454 apps that share the resettable ID with advertisers, 66% transmit other, non-resettable, persistent identifiers as well, negating any intended privacy-preserving properties of the advertising ID.
Detection of money laundering groups using supervised learning in networks (2016)

Money laundering is a major global problem, enabling criminal organisations to hide their ill-gotten gains and to finance further operations. Prevention of money laundering is seen as a high priority by many governments, however detection of money laundering without prior knowledge of predicate crimes remains a significant challenge. Previous detection systems have tended to focus on individuals, considering transaction histories and applying anomaly detection to identify suspicious behaviour. However, money laundering involves groups of collaborating individuals, and evidence of money laundering may only be apparent when the collective behaviour of these groups is considered. In this paper we describe a detection system that is capable of analysing group behaviour, using a combination of network analysis and supervised learning. This system is designed for real-world application and operates on networks consisting of millions of interacting parties. Evaluation of the system using real-world data indicates that suspicious activity is successfully detected. Importantly, the system exhibits a low rate of false positives, and is therefore suitable for use in a live intelligence environment.
Faster, Quantitative, and Accurate Precursor Acquisition Independent From Ion Count (2011)

Data-dependent precursor ion selection is widely used in shotgun proteomics to profile the protein components of complex samples. Although very popular, this bottom-up method presents major drawbacks in terms of detectable dynamic range. Recently, we demonstrated the superior performance of a data-independent method we termed precursor acquisition independent from ion count (PAcIFIC). Here, we report a faster, accurate, multiplexed, and quantitative PAcIFIC method. Our results show that the time needed to perform such analysis can be decreased by 33% to 66% using modern ion trap instruments and that high mass accuracy can be applied to such a strategy. Quantification capability is demonstrated on protein standards and a whole bacterial cell lysate using isobaric tagging. Finally, we confirm in yeast the dynamic range capabilities of such a method where proteins down to less than 50 copies per cell can be monitored without sample prefractionation.
In situ kidney preservation for transplantation with use of profound hypothermia (5 to 20 degrees C.) with an intact circulation. (1976)

Twenty-seven anesthetized dogs were surface cooled at 4 to 6 degrees C. or 15 to 20 degrees C. Circulation was provided by the mechanical ventricular assist in 23 dogs. After 24 or 48 hours of in situ preservation, the kidneys were transplanted into the necks or iliac fossas of anephric recipients. Renal function was preserved in the cadaver for up to 48 hours at 15 to 20 degrees C. by maintaining a pulsatile circulation. Further cooling to 4 to 6 degrees C. caused progressive deterioration in renal function. The nonperfused kidneys kept in situ at 4 to 6 degrees C. did not produce any urine after transplantation. If the practical problems of total body cooling are solved, in situ preservation of multiple organs in the cadaver would increase the number of available organs for transplantation.
High performance affinity chromatography of Bacillus neutral proteases (1991)

Bacillus neutral proteases were purified using bacitracin-silica as an affinity medium. Several chromatographic procedures were investigated, including high speed runs on columns with 40- to 60-microns silica particles. The high speed procedure enabled the purification of 4.9 mg of B. subtilis neutral protease directly from 165-ml culture supernatant within 1.5 h. The neutral proteases of B. polymyxa and B. stearothermophilus were also purified. The latter enzyme was further concentrated by a second affinity chromatography step, using Sepharose with glycyl-D-phenylalanine as a ligand. During the purification procedures isopropanol was used to prevent autodigestion of the enzymes.
A New Mouse Gene, <i>SRG3,</i> Related to the <i>SWI3</i> of <i>Saccharomyces cerevisiae,</i> Is Required for Apoptosis Induced by Glucocorticoids in a Thymoma Cell Line (1997)

We isolated a new mouse gene that is highly expressed in thymocytes, testis, and brain. This gene, SRG3, showed a significant sequence homology to SWI3, a yeast transcriptional activator, and its human homolog BAF155. SRG3 encodes 1,100 amino acids and has 33-47% identity with SWI3 protein over three regions. The SRG3 protein contains an acidic NH2 terminus, a myb-like DNA binding domain, a leucine-zipper motif, and a proline- and glutamine-rich region at its COOH terminus. Rabbit antiserum raised against a COOH-terminal polypeptide of the SRG3 recognized a protein with an apparent molecular mass of 155 kD. The serum also detected a 170-kD protein that seems to be a mouse homologue of human BAF170. Immunoprecipitation of cell extract with the antiserum against the mouse SRG3 also brought down a 195-kD protein that could be recognized by an antiserum raised against human SWI2 protein. The results suggest that the SRG3 protein associates with a mouse SWI2. The SRG3 protein is expressed about three times higher in thymocytes than in peripheral lymphocytes. The expression of anti-sense RNA to SRG3 mRNA in a thymoma cell line, S49.1, reduced the expression level of the SRG3 protein, and decreased the apoptotic cell death induced by glucocorticoids. These results suggest that the SRG3 protein is involved in the glucocorticoid-induced apoptosis in the thymoma cell line. This implicates that the SRG3 may play an important regulatory role during T cell development in thymus.
Single-Cell Isolation and Gene Analysis: Pitfalls and Possibilities (2015)

During the last two decades single-cell analysis (SCA) has revealed extensive phenotypic differences within homogenous cell populations. These phenotypic differences are reflected in the stochastic nature of gene regulation, which is often masked by qualitatively and quantitatively averaging in whole tissue analyses. The ability to isolate transcripts and investigate how genes are regulated at the single cell level requires highly sensitive and refined methods. This paper reviews different strategies currently used for SCA, including harvesting, reverse transcription, and amplification of the RNA, followed by methods for transcript quantification. The review provides the historical background to SCA, discusses limitations, and current and future possibilities in this exciting field of research.
Randomized trial comparing epirubicin, cisplatin, and fluorouracil versus fluorouracil, doxorubicin, and methotrexate in advanced esophagogastric cancer. (1997)

The ECF regimen results in a survival and response advantage, tolerable toxicity, better QL and cost-effectiveness compared with FAMTX chemotherapy. This regimen should now be considered the standard treatment for advanced esophagogastric cancer.
Differences between Phthaleins and Sulfonphthaleins (1997)

Differences in color and molecular structure between phthalein-pigments and sulfonphthalein-pigments were investigated using X-ray crystallography and absorption spectrophotometry of their aqueous solutions. The molecular structure of sulfonefluorescein (H2+SF-) was determined as a zwitter ion, 2-(3-hydroxonio-6-hydroxy-3H-xanthen-9-yl)benzenesulfonate. The absorption spectra of H2+SF- demonstrated the dissociation profile of a dibasic acid, while those of fluorescein (H2FL) indicated a tribasic acid and further, at pH > 10, SF2- and FL2-, while at pH < 0, H2+SF- and H3+FL to be dominant. The spectra of H2+SF- were analyzed to obtain the values of pK1 and pK2 together with the spectrum of HSF-. Similarly, from the spectra of H3+FL the values of pK1, pK2 and pK3 together with the spectra of HFL- and H2FL were obtained. Further by adding 1/5 of the H3+FL spectrum to 2/15 of HFL- spectrum, an indicated spectrum as that of H2FL was obtained. From these results, the features of dissociation of H2SF- and H3+FL were estimated. The molecular structure of phenolsulfonphtalein (H2PS-) was determined as a zwitter-ion, alpha-(4-hydroxonio-2,5-cyclohexadiene-1-ylidene)-alpha- (4-hydroxyphenyl)-2-toluenesulfonate. The absorption spectra of H2PS- demonstrated that H2PS-, HPS- and PS2- became dominant at pH << 0, pH = 4 and pH > 11, respectively. On the contrary, phenolphthalein (H2PP) displayed only one type of absorption spectrum in the visual region, the shape of which was similar to that of PS2- while the molar extinction coefficient was smaller. The spectra were analyzed to obtain the values of pK1 = 9.05 and pK2 = 9.50. The spectra also demonstrated a slow addition reaction of OH- to PP2- and pK3 = 12 was obtained by measuring the absorbance after equilibration. From these results, the features of dissociation and coloration of H2+PS- and H2PP were estimated.
Electromagnetic field analysis of capacitive touch panels (2014)

The characteristics of capacitive touch panels were examined via electromagnetic field numerical analysis, with focus on the comparison between self- and mutual-capacitive panels. The results indicate the need for an AC-voltage-applied shield electrode and a high-sensitivity self-capacitive panel. The results also highlight a spatial resolution issue and the electrical role of dummy electrodes in the mutual-capacitive panel.
Muscarinic Acetylcholine Receptors (2006)

Muscarinic acetylcholine receptors mediate diverse physiological functions. At present, five receptor subtypes (M(1) - M(5)) have been identified. The odd-numbered receptors (M(1), M(3), and M(5)) are preferentially coupled to G(q/11) and activate phospholipase C, which initiates the phosphatidylinositol trisphosphate cascade leading to intracellular Ca(2+) mobilization and activation of protein kinase C. On the other hand, the even-numbered receptors (M(2) and M(4)) are coupled to G(i/o), and inhibit adenylyl cyclase activity. They also activate G protein-gated potassium channels, which leads to hyperpolarization of the plasma membrane in different excitable cells. Individual members of the family are expressed in an overlapping fashion in various tissues and cell types. Recent gene targeting approaches have unraveled the specific function of these muscarinic receptor subtypes, which were not able to be fully elucidated with pharmacological approaches because of the non-selective effects of the available ligands. Based on these findings, muscarinic receptors have been emerging as an important therapeutic target for various diseases, including dry mouth, incontinence and chronic obstructive pulmonary disease. Here we review the latest advances in the structural and functional characterization of muscarinic acetylcholine receptors and the pharmaceutical development of muscarinic receptor ligands.
Empowering smartphone users with sensor node for air quality measurement (2013)

We present an architecture of a sensor node developed for use with smartphones for participatory sensing of air quality in urban environments. Our solution features inexpensive metal-oxide semiconductor gas sensors (MOX) for measurement of CO, O3, NO2 and VOC, along with sensors for ambient temperature and humidity. We focus on our design of sensor interface consisting of power-regulated heater temperature control, and the design of resistance sensing circuit. Accuracy of the sensor interface is characterized. Power consumption of the sensor node is analysed. Preliminary data obtained from the CO gas sensors in laboratory conditions and during the outdoor field-test is shown.
Synthesis, Antibacterial Activity, and Toxicity of 7‐(Isoindolin‐5‐yl)‐4‐oxoquinoline‐3‐carboxylic Acids. (2003)

Abstract For Abstract see ChemInform Abstract in Full Text.
Heterogeneously catalyzed lignin depolymerization (2016)

Biomass offers a unique resource for the sustainable production of bio-derived chemical and fuels as drop-in replacements for the current fossil fuel products. Lignin represents a major component of lignocellulosic biomass, but is particularly recalcitrant for valorization by existing chemical technologies due to its complex cross-linking polymeric network. Here, we highlight a range of catalytic approaches to lignin depolymerisation for the production of aromatic bio-oil and monomeric oxygenates.
Design and engineering of low-cost centimeter-scale repeatable and accurate kinematic fixtures for nanomanufacturing equipment using magnetic preload and potting (2011)

Thesis (S.M.)--Massachusetts Institute of Technology, Dept. of Mechanical Engineering, February 2011.
Effect of Cell Structure on Regeneration Failure of Ceramic Honeycomb Diesel Particulate Filter (1987)

<div class="htmlview paragraph">In applying ceramic honeycomb wall flow type filters to the after-treatment systems of diesel particulate from engines, the melting and thermal shock failures of ceramic diesel particulate filters (DPF) have been considered as one of the most significant issues during regeneration.</div> <div class="htmlview paragraph">This paper gives the results of experiments on the effects of cell structure i.e., wall thickness and cell density, on the melting and thermal shock regeneration failure of DPF and proposes an optimized cell structure for DPF in terms of the regeneration failure and the pressure drop which is also considered to be one of the especially important issues in fuel economy for heavy duty vehicle application.</div>