gebhart/patrepeval huggingface dataset:
Adaptive bilateral filter and Bayesian threshold based image denoising (2010)

In this paper a hybrid denoising algorithm which combines adaptive bilateral Filter and Bayesian thresholding for digital images corrupted by Gaussian noise is proposed. The wavelet filter bank is used to decompose the image into approximation sub band and detail sub band. The adaptive bilateral filter is applied to approximation sub band and Bayesian thresholding is applied to detail sub band. The proposed algorithm is tested on gaussian noise corrupted images. The observation of parameters like visual quality results and quantitative performance in terms of PSNR reveals that the proposed algorithm performs better than the other existing methods in terms of noise removal and edge preservation.
A remarkably simple genome underlies highly malignant pediatric rhabdoid cancers (2012)

Cancer is principally considered a genetic disease, and numerous mutations are thought essential to drive its growth. However, the existence of genomically stable cancers and the emergence of mutations in genes that encode chromatin remodelers raise the possibility that perturbation of chromatin structure and epigenetic regulation are capable of driving cancer formation. Here we sequenced the exomes of 35 rhabdoid tumors, highly aggressive cancers of early childhood characterized by biallelic loss of SMARCB1, a subunit of the SWI/SNF chromatin remodeling complex. We identified an extremely low rate of mutation, with loss of SMARCB1 being essentially the sole recurrent event. Indeed, in 2 of the cancers there were no other identified mutations. Our results demonstrate that high mutation rates are dispensable for the genesis of cancers driven by mutation of a chromatin remodeling complex. Consequently, cancer can be a remarkably genetically simple disease.
Treatment of intrabony defects by polylactic acid matrix barrier--a one-year follow-up study. (1997)

The present investigation was conducted to evaluate the effect of a polylactic acid-citric acid softened membrane barrier during guided tissue regeneration (GTR) surgery on human intrabony defects. Eighteen patients were treated in the study and 16 patients completed the 1-year follow-up. In all, 27 intrabony defects were treated and clinical soft tissue measurements, including probing depth (PD), probing attachment level (PAL), and recession, were recorded. Results of the investigation demonstrated a significant reduction in PD (3.7 mm), a significant gain in PAL (4.2 mm), and a slight increase in recession (1.2 mm).
ChemInform Abstract: Conjugate Addition of Sodium Methanesulfinate to Vinyl Pyridines and Diazines for the Synthesis of Aliphatic Sulfones. (2009)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Network coding with periodic recomputation for minimum energy multicasting in mobile ad-hoc networks (2008)

We consider the problem of minimum-energy multicast using network coding in mobile ad hoc networks (MANETs). The optimal solution can be obtained by solving a linear program every time slot, but it leads to high computational complexity. In this paper, we consider a low-complexity approach, network coding with periodic recomputation, which recomputes an approximate solution at fixed time intervals, and uses this solution during each time interval. As the network topology changes slowly, we derive a theoretical bound on the performance gap between our suboptimal solution and the optimal solution. For complexity analysis, we assume that interior-point method is used to solve a linear program at the first time slot of each interval. Moreover, we can use the suboptimal solution in the preceding interval as a good initial solution of the linear program at each fixed interval. Based on this interior-point method with a warm start strategy, we obtain a bound on complexity. Finally, we consider an example network scenario and minimize the complexity subject to the condition that our solution achieves a given optimality gap.
Concerted conformational changes control metabotropic glutamate receptor activity (2023)

Allosteric modulators bear great potential to fine-tune neurotransmitter action. Promising targets are metabotropic glutamate (mGlu) receptors, which are associated with numerous brain diseases. Orthosteric and allosteric ligands act in synergy to control the activity of these multidomain dimeric GPCRs. Here, we analyzed the effect of such molecules on the concerted conformational changes of full-length mGlu2 at the single-molecule level. We first established FRET sensors through genetic code expansion combined with click chemistry to monitor conformational changes on live cells. We then used single-molecule FRET and show that orthosteric agonist binding leads to the stabilization of most of the glutamate binding domains in their closed state, while the reorientation of the dimer into the active state remains partial. Allosteric modulators, interacting with the transmembrane domain, are required to stabilize the fully reoriented active dimer. These results illustrate how concerted conformational changes within multidomain proteins control their activity, and how these are modulated by allosteric ligands.
Same-Day Discharge After Robotic Hysterectomy: A Resource Utilization and Quality Improvement Project. (2022)

The rate of same-day discharges after hysterectomy and staging performed by gynecologic oncologists can be safely increased with a simple educational intervention, which can save significant patient care resources.
Functional activity of the H3.3 histone chaperone complex HIRA requires trimerization of the HIRA subunit (2018)

The HIRA histone chaperone complex deposits the histone variant H3.3 onto chromatin in a DNA synthesis-independent manner. It comprises three identified subunits, HIRA, UBN1 and CABIN1, however the functional oligomerization state of the complex has not been investigated. Here we use biochemical and crystallographic analysis to show that the HIRA subunit forms a stable homotrimer that binds two subunits of CABIN1 in vitro. A HIRA mutant that is defective in homotrimer formation interacts less efficiently with CABIN1, is not enriched at DNA damage sites upon UV irradiation and cannot rescue new H3.3 deposition in HIRA knockout cells. The structural homology with the homotrimeric replisome component Ctf4/AND-1 enables the drawing of parallels and discussion of the functional importance of the homotrimerization state of the HIRA subunit.
Implementing concurrent C (1992)

Abstract Concurrent C (C++) is a parallel superset of C (C++). Versions of Concurrent C have now been implemented for a variety of uniprocessors and multiprocessors. We first implemented a uniprocessor version of Concurrent C correctly anticipating that it would be relatively easy to extend the uniprocessor implementation to run on multiprocessors. Concurrent C is translated to C. The generated C code contains calls to the C library implementing the Concurrent C run‐time system. This paper describes the ‘hard core’ details of the Concurrent C implementation: the specifics of process states, the data structures used, the library functions, and the C code generated for various Concurrent C constructs. We also give an overview of the Concurrent C facilities and of the uniprocessor, distributed and shared‐memory multiprocessor implementations.
ERK5 Is a Critical Mediator of Inflammation-Driven Cancer (2015)

Chronic inflammation is a hallmark of many cancers, yet the pathogenic mechanisms that distinguish cancer-associated inflammation from benign persistent inflammation are still mainly unclear. Here, we report that the protein kinase ERK5 controls the expression of a specific subset of inflammatory mediators in the mouse epidermis, which triggers the recruitment of inflammatory cells needed to support skin carcinogenesis. Accordingly, inactivation of ERK5 in keratinocytes prevents inflammation-driven tumorigenesis in this model. In addition, we found that anti-ERK5 therapy cooperates synergistically with existing antimitotic regimens, enabling efficacy of subtherapeutic doses. Collectively, our findings identified ERK5 as a mediator of cancer-associated inflammation in the setting of epidermal carcinogenesis. Considering that ERK5 is expressed in almost all tumor types, our findings suggest that targeting tumor-associated inflammation via anti-ERK5 therapy may have broad implications for the treatment of human tumors.
Elucidation of the Cryptic Epimerase Activity of Redox-Inactive Ketoreductase Domains from Modular Polyketide Synthases by Tandem Equilibrium Isotope Exchange (2014)

Many modular polyketide synthases harbor one or more redox-inactive domains of unknown function that are highly homologous to ketoreductase (KR) domains. A newly developed tandem equilibrium isotope exchange (EIX) assay has now established that such "KR(0)" domains catalyze the biosynthetically essential epimerization of transient (2R)-2-methyl-3-ketoacyl-ACP intermediates to the corresponding (2S)-2-methyl-3-ketoacyl-ACP diastereomers. Incubation of [2-(2)H]-(2R,3S)-2-methyl-3-hydroxypentanoyl-SACP ([2-(2)H]-3b) with the EryKR3(0) domain from module 3 of the 6-deoxyerythronolide B synthase, and the redox-active, nonepimerizing EryKR6 domain and NADP(+) resulted in time- and cofactor-dependent washout of deuterium from 3b, as a result of EryKR3(0)-catalyzed epimerization of transiently generated [2-(2)H]-2-methyl-3-ketopentanoyl-ACP (4). Similar results were obtained with redox-inactive PicKR3(0) from module 3 of the picromycin synthase. Four redox-inactive mutants of epimerase-active EryKR1 were engineered by mutagenesis of the NADPH binding site of this enzyme. Tandem EIX established that these EryKR1(0) mutants retained the intrinsic epimerase activity of the parent EryKR1 domain. These results establish the intrinsic epimerase activity of redox-inactive KR(0) domains, rule out any role for the NADPH cofactor in epimerization, and provide a general experimental basis for decoupling the epimerase and reductase activities of a large class of PKS domains.
Strategies for High-Throughput FPGA-based QC-LDPC Decoder Architecture (2015)

We propose without loss of generality strategies to achieve a high-throughput FPGA-based architecture for a QC-LDPC code based on a circulant-1 identity matrix construction. We present a novel representation of the parity-check matrix (PCM) providing a multi-fold throughput gain. Splitting of the node processing algorithm enables us to achieve pipelining of blocks and hence layers. By partitioning the PCM into not only layers but superlayers we derive an upper bound on the pipelining depth for the compact representation. To validate the architecture, a decoder for the IEEE 802.11n (2012) QC-LDPC is implemented on the Xilinx Kintex-7 FPGA with the help of the FPGA IP compiler [2] available in the NI LabVIEW Communication System Design Suite (CSDS) which offers an automated and systematic compilation flow where an optimized hardware implementation from the LDPC algorithm was generated in approximately 3 minutes, achieving an overall throughput of 608Mb/s (at 260MHz). As per our knowledge this is the fastest implementation of the IEEE 802.11n QC-LDPC decoder using an algorithmic compiler.
Preparation of novel capsosome with liposomal core by layer-by-Layer self-assembly of sodium hyaluronate and chitosan B Biointerfaces (2016)

Multi-compartmentalized capsosomes are polyelectrolyte capsules with liposomes as cargo, and are prepared by combining liposomes and polymer capsules. They offer additional functionality while maintaining the advantages and compensating for the weak points of both systems. In this study, a polyelectrolyte multilayered liposome was prepared by alternating adsorption of negatively charged sodium hyaluronate (HA) and positively charged chitosan (CH) on the surface of a cationic core liposome (CL) via layer-by-layer (LbL) deposition. Then, smaller sized liposomes (L) were coated onto the multilayered liposome. Lastly, the particle surfaces were coated with HA as a capping layer to obtain a novel type of capsosome with a liposomal core. The amount of adsorbed liposome was measured for different pH values (pH 2–10) and with liposome solutions of different concentrations (1–3%). The highest liposome adsorption occurred at pH 10 in the 3% solution, respectively. Finally, capsosomes in the size range of 500nm to 2μm were observed and the attached liposomes were located both on the surface and within the polymer shell. In conclusion, the cell-mimicking, liposome-based capsosomes could have infinite applications in the field of medicine, pharmaceuticals, and cosmetics as compartmentalized microreactors, multi-drug delivery systems with controlled release, or functional artificial cells in the future.
Effects of mixing on the composition and morphology of tissue‐engineered cartilage (1996)

Abstract Cartilage constructs were grown using isolated chondrocytes and biodegradable polymer scaffolds made of fibrous polyglycolic acid in the form of 1‐cm‐dia × 5‐mm‐thick discs. The scaffolds were seeded in a mixed cell suspension and cultured for up to 8 weeks under static or mixed tissue culture conditions in petri dishes and spinner flasks. Turbulent mixing significantly improved the biochemical compositions and altered morphologies of the cartilage constructs, which were the thickest ones cultured to date in vitro. Constructs from mixed cultures were more regular in shape and contained up to 70% more cells, 60% more sulfated glycosaminoglycan, and 125% more total collagen when compared to constructs from static cultures. Mixing also induced the formation of an outer capsule with multiple layers of elongated cells and collagen fibrils around the inner tissue phase, while statically grown constructs consisted of round cells embedded in cartilaginous matrix. Mixing during cell seeding and tissue culture is thus an important parameter for the cultivation of tissue‐engineered cartilage in a range of sizes, shapes and compositions for a variety of clinical applications (e.g., fibrous cartilage for reconstructive surgery or articular cartilage for joint resurfacing).
Computed Tomography Analysis of Castings (1992)

Under a preliminary testing task assignment of the Advanced Development of X-ray Computed Tomography Application program, computed tomography (CT) has been studied for its potential use in the analysis of castings. Because CT is quantitative, it offers a nondestructive evaluation (NDE) capability that can be used for engineering analysis, accurate dimensional measurement and for reconstructing three-dimensional models of cast components using Stereolithography. CT sensitivity to anomaly sizes has been measured by the use of image quality indicators. The sensitivity of a CT system, as a function of object size and system operating parameters, can be established and monitored. The three-dimensional location and definition of flaws, obtained from CT evaluation of castings, have been input into finite element engineering models to analyze the performance as a function of the casting condition. A significant cost savings in the manufacture of castings and their increased aerospace application is possible if CT evaluation and fitness-for-service criteria are used. Dimensional measurements with excellent accuracies and precision better than 0.050 mm (0.001 2 inch) have been demonstrated. The data sets from CT scanning have been converted to CAD/CAM files and input to a Stereolithography system to build a 3D plastic model of a part. Computed Tomography (CT), Castings, Image Quality Indicators (IQI), Defect, Defect sensitivity, Finite Element Analysis (FEA), Phantom, Stereolithography, Modulation, Noise, Dimensional measurement, Gap measurement.
Joint Power Allocation and User Association Optimization for Massive MIMO Systems (2016)

This paper investigates the joint power allocation and user association problem in multi-cell Massive MIMO (multiple-input multiple-output) downlink (DL) systems. The target is to minimize the total transmit power consumption when each user is served by an optimized subset of the base stations (BSs), using non-coherent joint transmission. We first derive a lower bound on the ergodic spectral efficiency (SE), which is applicable for any channel distribution and precoding scheme. Closed-form expressions are obtained for Rayleigh fading channels with either maximum ratio transmission (MRT) or zero forcing (ZF) precoding. From these bounds, we further formulate the DL power minimization problems with fixed SE constraints for the users. These problems are proved to be solvable as linear programs, giving the optimal power allocation and BS-user association with low complexity. Furthermore, we formulate a max-min fairness problem which maximizes the worst SE among the users, and we show that it can be solved as a quasi-linear program. Simulations manifest that the proposed methods provide good SE for the users using less transmit power than in small-scale systems and the optimal user association can effectively balance the load between BSs when needed. Even though our framework allows the joint transmission from multiple BSs, there is an overwhelming probability that only one BS is associated with each user at the optimal solution.
A bioluminescent derivative of Pseudomonas putida KT2440 for deliberate release into the environment (2000)

Recombinant derivatives of Pseudomonas putida strain KT2440 are of potential interest as microbial inoculants to be deliberately released for agricultural applications. To facilitate tracking of this strain and its derivatives after introduction into the environment, a mini-Tn5-'luxAB transposon was introduced into the chromosome of P. putida KT2440, yielding strain P. putida S1B1. Sequencing of the DNA region located upstream of the 'luxAB genes and similarity search with the P. putida KT2440 genome sequence, localized the transposon within a 3021-bp open reading frame (ORF), whose translated sequence showed significant similarity with the hypothetical YdiJ proteins from Escherichia coli and Haemophilus influenzae. A second ORF adjacent to and divergent from the ydiJ sequence was also found and showed significant homology with various LysR-type transcriptional activator proteins from several bacteria. Disruption of the ydiJ locus in P. putida S1B1 did not affect the survival of the strain in unvegetated or vegetated soils. Bioluminescent detection of P. putida S1B1 cells enriched in selective media directly from soil allowed detection of culturable cells in soil samples over a period of at least 8 months. The addition of the luxAB biomarker facilitates tracking in the root system of several plant species grown under sterile and non-sterile conditions. The correlation of the bioluminescent phenotype with the growth activity of P. putida S1B1 cells colonizing the root system of barley and corn plants was estimated by monitoring ribosomal contents using quantitative hybridization with fluorescence-labeled ribosomal RNA probes. A correlation between inoculum density, light output, and ribosomal contents was found for P. putida cells colonizing the root system of barley seedlings grown under sterile conditions. Although ribosomal contents, and therefore growth activity, of P. putida S1B1 cells extracted from the rhizosphere of corn plants grown in non-sterile soil were similar to those found in starved cells, the luminescent system permitted non-destructive in situ detection of the strain in the upper root system.
Effect of Hypertonic Saline on Cerebral Blood Flow in Poor-Grade Patients With Subarachnoid Hemorrhage (2003)

We found that 23.5% hypertonic saline increases CBF in poor-grade patients with subarachnoid hemorrhage. These effects are associated with improved indexes of blood rheology. Potential therapeutic benefits are discussed.
Table S2 from Intratumoral Plasmid IL12 Expands CD8<sup>+</sup> T Cells and Induces a CXCR3 Gene Signature in Triple-negative Breast Tumors that Sensitizes Patients to Anti–PD-1 Therapy (2023)

&lt;p&gt;Table S2&lt;/p&gt;
Organizational Prospects, Influence Costs, and Ownership Changes (1992)

We augment efficiency‐based theories of ownership by including influence costs. Our principal conclusion is that the prospect of organizational decline and layoffs creates additional influence costs in multiunit organizations that would be absent if there was no prospect of layoffs and would be lessened or eliminated in focused organizations. This helps explain the tendency of firms to divest poorly performing units, as well as the pattern of sales of such units to firms already in businesses related to that of the divested unit.
Average Outward Flux Skeletons for Environment Mapping and Topology Matching (2021)

We consider how to directly extract a road map (also known as a topological representation) of an initially-unknown 2-dimensional environment via an online procedure that robustly computes a retraction of its boundaries. In this article, we first present the online construction of a topological map and the implementation of a control law for guiding the robot to the nearest unexplored area, first presented in [1]. The proposed method operates by allowing the robot to localize itself on a partially constructed map, calculate a path to unexplored parts of the environment (frontiers), compute a robust terminating condition when the robot has fully explored the environment, and achieve loop closure detection. The proposed algorithm results in smooth safe paths for the robot's navigation needs. The presented approach is any time algorithm that has the advantage that it allows for the active creation of topological maps from laser scan data, as it is being acquired. We also propose a navigation strategy based on a heuristic where the robot is directed towards nodes in the topological map that open to empty space. We then extend the work in [1] by presenting a topology matching algorithm that leverages the strengths of a particular spectral correspondence method [2], to match the mapped environments generated from our topology-making algorithm. Here, we concentrated on implementing a system that could be used to match the topologies of the mapped environment by using AOF Skeletons. In topology matching between two given maps and their AOF skeletons, we first find correspondences between points on the AOF skeletons of two different environments. We then align the (2D) points of the environments themselves. We also compute a distance measure between two given environments, based on their extracted AOF skeletons and their topology, as the sum of the matching errors between corresponding points.