gebhart/patrepeval huggingface dataset:
092 Natural Extracellular Matrix Improves Wound Repair Measures (2008)

Small intestinal submucosa (SIS) has found substantial clinical utility as a commercially available wound matrix. In the present study, the utility of two natural, nonsynthetic and noncrosslinked ECMs, porcine renal capsule material (RCM) and SIS, were compared to no-fill controls in a rat full thickness skin wound model. Groups of rats had surgically created wounds filled with SIS, RCM, or left unfilled (ten/treatment/time point). Wound diameters periodically measured at 3–30 days after wound creation and sites sampled at 3–56 days after wound creation were numerically graded for degree of histologic change including the formation of adnexa and for collagen content based on intensity of trichrome staining. Wounds in both ECM groups had statistically significant (P < 0.001) greater wound diameters than unfilled controls at days 7, 12, and 17 with no differences between RCM- and SIS-treated wounds at any time point. At 56 days, SIS-filled and RCM-filled wounds were completely closed with cornified epithelium covered by a keratinized layer. Healing was largely complete, with normal numbers of adnexal structures present in most sections, while unfilled control wounds were similar though fewer adnexal structures were present. Though histology scores suggested more robust healing with either RCM or SIS, no significant differences with unfilled control wounds were found. From this study, it appears that RCM and SIS enhance wound healing in terms of wound tissue collagenization and maturation of adnexal structures while clearly impeding wound contraction. Natural ECMs have utility for dermal wound repair and may lessen clinical contracture formation caused by rapid wound contraction. Acknowledgment: This work was supported by Cook Biotech Incorporated.
Studies of the Relative Stability of TFA Adducts vs Non-TFA Analogues for Combinatorial Chemistry Library Members in DMSO in a Repository Compound Collection (2003)

ADVERTISEMENT RETURN TO ISSUEReportNEXTStudies of the Relative Stability of TFA Adducts vs Non-TFA Analogues for Combinatorial Chemistry Library Members in DMSO in a Repository Compound CollectionJill Hochlowski, Xueheng Cheng, Daryl Sauer, and Stevan DjuricView Author Information Abbott Laboratories, 100 Abbott Park Road, Abbott Park, Illinois, 60064 Cite this: J. Comb. Chem. 2003, 5, 4, 345–349Publication Date (Web):June 7, 2003Publication History Received28 January 2003Published online7 June 2003Published inissue 1 July 2003https://pubs.acs.org/doi/10.1021/cc0300107https://doi.org/10.1021/cc0300107brief-reportACS PublicationsCopyright © 2003 American Chemical SocietyRequest reuse permissionsArticle Views338Altmetric-Citations21LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access options SUBJECTS:Adducts,High-performance liquid chromatography,Organic reactions,Purification,Stability Get e-Alerts
Inactivation of viral and prion pathogens by γ‐irradiation under conditions that maintain the integrity of human albumin (2003)

gamma-Irradiation can preferentially inactivate viral and prion pathogens without excessive damage to albumin structure.
The semantic storage loss score: An Algorithm for measuring an individual's level of semantic storage loss due to temporal lobe damage in neurodegenerative disease (2020)

Anomia is common in Primary Progressive Aphasia (PPA), and there is considerable evidence that semantic problems (as opposed to impaired access to output word phonology) exist in many PPA individuals irrespective of their strict subtype, including a loss of representations from semantic memory, which is typical for people with the semantic variant of PPA. In this manuscript we present a straightforward novel clinical algorithm that quantifies this degree of semantic storage impairment. We sought to produce an algorithm by employing tasks that would measure key elements of semantic storage loss: a) whether an unrecalled name could be retrieved with cues; b) if performance for items was consistent across tasks; and c) the degree to which a participant's performance was related to general severity of cognitive impairment rather than semantic loss. More specifically, these tasks were given to 28 individuals with PPA (12 participants had a clinical diagnosis of atypical Alzheimer's Disease with the logopenic variant of PPA; the remaining 16 participants received a clinical diagnosis of Frontotemporal dementia (11 were classified as the non-fluent variant of PPA and five were the semantic variant of PPA). Scores from these tasks produced a single omnibus semantic memory storage loss score (SSL score) for each person that ranged from 0.0 to 1.0, with scores closer to 0 more indicative of semantic storage loss. Indeed, supporting the hypothesis that our scores measure the degree of semantic storage loss, we found participants with the semantic variant of PPA had the lowest scores, and SSL scores could predict the degree of hypometabolism in the anterior temporal lobe; even when only people with the logopenic variant of PPA were examined. Thus, these scores show promise quantitating the degree of a person's semantic representation loss.
OTF compensation in structured illumination superresolution images (2008)

The lateral resolution of an imaging system is limited by its numerical aperture and the wavelength. Structured illumination incident on the object heterodynes the higher spatial frequencies of the object with the spatial frequency of the sinusoidal illumination into the passband of the imaging system providing lateral superresolution. This idea has been implemented in microscopy. Multiple images of an object are taken, with distinct phase shifts in the sinusoidally patterned illumination. They are processed to separate the conventional, un-aliased object spatial frequencies from the aliased ones, which contain superresolution information. The separated aliased terms are de-aliased (i.e. the spatial frequencies in them are moved to their correct locations in Fourier space) giving superresolution along the direction perpendicular to the orientation of the sinusoidal fringe pattern. This process is repeated with, say, 60&deg; and 120&deg; rotation of the sinusoidal fringe illumination to obtain superresolution in all directions. The final reconstructed image can be obtained by appropriate combination of the de-aliased superresolution components with the conventional, un-aliased components. We discuss the signal-to-noise ratio (SNR) and optical transfer function (OTF) compensation in the combination of all these components to obtain an image with lateral superresolution.
Supplementary Figure 1 from EBV Is Necessary for Proliferation of Dually Infected Primary Effusion Lymphoma Cells (2023)

Supplementary Figure 1 from EBV Is Necessary for Proliferation of Dually Infected Primary Effusion Lymphoma Cells
Production of interferon gamma by peripheral blood mononuclear cells from normal subjects and from patients with rheumatoid arthritis. (1989)

A radioimmunoassay for human interferon gamma (IFN-gamma) has been carried out using a recombinant glycosylated interferon (Hu IFN-gamma) as tracer, the N.I.H. reference preparation (Gg 23-901-530) and a polyclonal rabbit antiserum. The assay is highly specific for IFN-gamma: there is no cross-reaction either with interferons alpha and beta, Interleukins 1 and 2, tumor necrosis factor alpha and beta or with various brain peptides. The sequential saturation procedure allowed a sensitivity of 0.4 U/ml with intra and between assay coefficients of variation less than 8 and 12%, respectively. The in-vitro production of IFN-gamma by peripheral blood mononuclear cells (P.B.M.C.) was also measured. In unstimulated cultures, IFN-gamma production remained undetectable, i.e. below the 0.4 U/ml sensitivity level. After stimulation of P.B.M.C. from normal subjects with increasing amounts of PHA, both the 3H-thymidine incorporation and IFN-gamma release followed bell-shaped curves. There was no significant difference of 3H-thymidine incorporation between PHA stimulated cultures (0.2 and 2.5 ug/ml) from normal subjects (36 cases) and those with active (16 cases) or non-active (14 cases) rheumatoid arthritis. At two PHA concentrations of 0.2 and 2.5 ug/ml, mononuclear cells from patients with active disease produced significantly less IFN-gamma than those from either controls or cases with non-active disease.
Tuning Local Electrical Conductivity via Fine Atomic Scale Structures of Two-Dimensional Interfaces (2018)

Two-dimensional (2D) materials have seen a broad range of applications in electronic and optoelectronic applications; however, full realization of this potential hitherto largely hinges on the quality and performance of the electrical contacts formed between 2D materials and their surrounding metals/semiconductors. Despite the progress in revealing the charge injecting mechanisms and enhancing electrical conductance using various interfacial treatments, how the microstructure of contact interfaces affects local electrical conductivity is still very limited. Here, using conductive atomic force microscopy (c-AFM), for the first time, we directly confirm the conjecture that the electrical conductivity of physisorbed 2D material-metal/semiconductor interfaces is determined by the local electronic charge transfer. Using lattice-resolved conductivity mapping and first-principles calculations, we demonstrate that the electronic charge transfer, thereby electrical conductivity, can be fine-tuned by the topological defects of 2D materials and the atomic stacking with respect to the substrate. Our finding provides a novel route to engineer the electrical contact properties by exploiting fine atomic interactions; in the meantime, it also suggests a convenient and nondestructive means of probing subtle interactions along 2D heterogeneous interfaces.
Analytical validation of a 47-gene NGS panel for molecular profiling of myeloid neoplasms. (2019)

e18526 Background: Molecular profiling can help diagnose, classify, and guide treatment of myeloid neoplasms. Next generation sequencing (NGS) is a powerful platform that can facilitate identification of actionable genetic alterations in multiple genes simultaneously. To serve clinical management needs, we developed and validated a NGS panel for 47 genes associated with diagnostic, prognostic, and/or therapeutic utilities for each of the subclasses of myeloid neoplasms: acute myeloid leukemia (AML, 42 genes), myelodysplastic syndrome (MDS, 36 genes), and myeloproliferative neoplasms (MPN, 26 genes). Methods: A total of 154 unique de-identified specimens were analyzed. Intra- and inter-assay precision studies were performed by standard laboratory practice. Single nucleotide variations (SNVs), insertions/deletions (indels), and FLT3 partial tandem duplications (PTD) were assessed for the entire coding regions of 23 genes and targeted exons of 24 genes. Target regions were captured by hybridization with complementary biotinylated DNA baits, and NGS was performed on an Illumina NextSeq500 instrument. Sequence reads obtained were analyzed using a bioinformatics pipeline that was developed in-house. At least 500 unique reads with base quality (Q) ≥20 (99% confidence) were required for coverage QC, except targets on X chromosome for male specimens, which required 250 unique reads. Results: On average, each sample generated 13.2 million reads, 100% (SD = 0.2%) mapped reads to the reference sequence, 61.7% (SD = 8.8%) on-target reads, and 1,952 (SD = 873) mean coverage. Data using ≥Q20 unique coverage of all target regions across all validation samples demonstrated that all target regions, even in the extreme end of GC spectrum (range: 12%-87%), met coverage requirements. Intra- and inter-assay precision studies, using 7 and 21 specimens, respectively, resulted in 100% concordance among replicates. An accuracy study of 131 unique specimens (a subset of the 154 specimens) yielded in 99.6% (755/758, 95% CI: 99.4%-100%) concordance for variants with allele frequencies ≥5% in comparison to other molecular methods including Sanger sequencing. No reportable variants were detected from any normal specimens (n = 17). Conclusions: We developed and validated a NGS panel for 47 genes with diagnostic, prognostic, and/or therapeutic utilities for each of the subclasses of myeloid neoplasms: AML (42 genes), MDS (36 genes), and MPN (26 genes). This panel will allow simultaneous analysis of the 47 genes with high sensitivity and specificity and may help manage clinical needs.
Molecular characterization and human T-cell responses to a member of a novel Mycobacterium tuberculosis mtb39 gene family (1999)

We have used expression screening of a genomic Mycobacterium tuberculosis library with tuberculosis (TB) patient sera to identify novel genes that may be used diagnostically or in the development of a TB vaccine. Using this strategy, we have cloned a novel gene, termed mtb39a, that encodes a 39-kDa protein. Molecular characterization revealed that mtb39a is a member of a family of three highly related genes that are conserved among strains of M. tuberculosis and Mycobacterium bovis BCG but not in other mycobacterial species tested. Immunoblot analysis demonstrated the presence of Mtb39A in M. tuberculosis lysate but not in culture filtrate proteins (CFP), indicating that it is not a secreted antigen. This conclusion is strengthened by the observation that a human T-cell clone specific for purified recombinant Mtb39A protein recognized autologous dendritic cells infected with TB or pulsed with purified protein derivative (PPD) but did not respond to M. tuberculosis CFP. Purified recombinant Mtb39A elicited strong T-cell proliferative and gamma interferon responses in peripheral blood mononuclear cells from 9 of 12 PPD-positive individuals tested, and overlapping peptides were used to identify a minimum of 10 distinct T-cell epitopes. Additionally, mice immunized with mtb39a DNA have shown increased protection from M. tuberculosis challenge, as indicated by a reduction of bacterial load. The human T-cell responses and initial animal studies provide support for further evaluation of this antigen as a possible component of a subunit vaccine for M. tuberculosis.
29.3 80ns Fast-Lock 0.4-to-6.5GHz Clock Generator with Self- Referenced Asynchronous Adaptive Droop Mitigation (2021)

We present a 0.4-to-6.5GHz Frequency Locked Loop (FLL) implemented in 10nm CMOS, targeting high performance SoCs that require uninterrupted, overshoot-free clocks for Dynamic Voltage and Frequency Scaling (DVFS). The FLL supports gradual frequency transitions (e.g. up to 650MHz per 100ns) where di/dt constraints prevail. When unconstrained, transitions between any two frequencies in 100ns with <; 1% exit frequency error are possible. Adaptive Frequency Synthesis (AFS), with 0.5-to-1.0ns reaction time, helps mitigate guardbands induced by computation-dependent supply droop [1]-[3]. Split analog and digital supplies (each driven by a low drop out regulator (LDO), see Fig. 29.3.1) and duty cycle adjustment (DCA) improve output jitter performance and clock quality.
Proceedings of the International Conference on Formal Methods in Computer-Aided Design (2011)

The International Conference on Formal Methods in Computer-Aided Design, FMCAD, is a series of conferences on the theory and application of formal methods to the computer-aided design and verification of hardware and systems. The eleventh conference in the series, FMCAD 2011, was held in Austin, Texas, USA, October 30th -- November 2nd.

In the past, FMCAD took place in the United States on even years and its sister conference CHARME was held in Europe on odd years. In 2006, these two conferences merged to form an annual conference with a unified international community. The merged conference inherited the name FMCAD, and is now held yearly. It provides a leading international forum for researchers and practitioners in academia and industry to present and discuss novel methods, technologies, theoretical results and tools for formal reasoning about computing systems.

This year, the conference received in-cooperation status with ACM under the Special Interest Group on Programming Languages and the Special Interest Group on Software Engineering. It also received technical sponsorship from the IEEE Council on Electronic Design Automation.

Three additional events were co-located with the conference this year: the ACL2 Workshop, the Design and Implementation of Formal Tools and Systems (DIFTS) Workshop, and the Hardware Model Checking Competition (HWMCC).

The FMCAD 2011 conference received 72 submissions. Each submission was reviewed by at least four reviewers, and some submissions received five or six reviews. After a long decision process that involved often vigorous discussions by Program Committee members and subreviewers, 26 submissions were eventually selected for presentation at the conference --- 21 as regular papers and 5 as short papers. The accepted papers covered topics ranging from model checking and solver technology to design for verification. Moreover, they addressed a broad spectrum of abstraction levels ranging from analog and mixed-signal, and real-time systems to traditional synchronous hardware and C code.
Pregnancy history, coronary artery calcification and bone mineral density in menopausal women (2017)

Although CAC was greater in women with a history of PE, vertebral BMD did not differ between groups. However, both cortical and central BMD were associated with CAC. The central BMD association was marginally different by pregnancy history, suggesting perhaps differences in underlying mechanisms of soft tissue calcification.
Supplementary Table 2 from Characteristics of Lung Cancers Harboring <i>NRAS</i> Mutations (2023)

&lt;p&gt;PDF file - 67K, Supplemental Table 2. Clinical characteristics associated with NRAS mutant lung cancers.&lt;/p&gt;
Unattended interferometric sensors (1999)

We describe tomographic integration of visible and IR projections to form 3D models of object spaces. 3D modeling is a computationally efficient means of multiple sensor data reduction and a robust means of scene analysis. We consider how imaging system design might be revised to obtain 3D data and present experimental data from a compact interferometric coherence imaging system. We experimentally and theoretically analyze 3D reconstructions of macroscopic objects, focusing in particular on the reconstruction of an automobile using a conventional camera.
Light-induced charge transfer in hybrid composites of organic semiconductors and silicon nanocrystals (2009)

Charge transfer between silicon nanocrystals (Si-nc) and organic semiconductors has been investigated via light-induced electron spin resonance (LESR). Composites of Si-nc with the hole conductor poly(3-hexylthiophene) (P3HT) and with the electron acceptor [6,6]-phenyl-C61-butyric acid methyl ester (PCBM) have been investigated. The LESR measurements allow one to quantify light-induced charge transfer between Si-nc and P3HT, which results in positive P3HT polarons. PCBM, in contrast, acts as an electron acceptor in composites with Si-nc, and after illumination, negative PCBM radicals are created. These results are discussed in terms of light-induced generation and separation of charge carriers in the hybrid composites.
Radiomics in genitourinary cancers (2019)

With increasing use of MR imaging for the prostate, a variety of radiomic approaches have been proposed for machine learning-based disease diagnosis, prognosis, and response prediction. Popular radiomic features quantify localized intensity and filter responses to capture variations in signal intensity values within a region of interest. However, T2w MR intensity values do not exhibit tissue-specific meaning between patients, scanners, and institutions, likely impacting the robustness of MRI-based radiomic features. We present a case study on correcting inherent intensity drift on the original T2w signal intensity values as well as associated radiomic features, in a multi-site setting. This study utilized 147 T2-weighted prostate MRI datasets curated from across 4 different sites. 131 radiomic texture features were extracted from within expert-annotated tumor and non-tumor regions. A unique measure of feature instability was utilized to quantify cross-site reproducibility, between the pre- and post-standardization MRI datasets. Standardization resulted in tumor and non-tumor region intensities becoming reproducible in over 99% of all cross-site comparisons, indicating an improved numeric consistency in standardized T2w intensities across sites. Only 8% of all 131 radiomic features exhibited worse cross-site reproducibility after standardization, which were localized complex co-occurrence and macro-scale wavelet features within non-tumor regions alone. Intensity standardization may be a critical post-processing step for more reproducible radiomic characterization of prostate T2w MRI data, across multiple sites.
3D reconstruction of elastin fibres in coronary adventitia (2016)

A 3D reconstruction of individual fibres in vascular tissue is necessary to understand the microstructure properties of the vessel wall. The objective of this study is to determine the 3D microstructure of elastin fibres in the adventitia of coronary arteries. Quantification of fibre geometry is challenging due to the complex interwoven structure of the fibres. In particular, accurate linking of gaps remains a significant challenge, and complex features such as long gaps and interwoven fibres have not been adequately addressed by current fibre reconstruction algorithms. We use a novel line Laplacian deformation method, which better deals with fibre shape uncertainty to reconstruct elastin fibres in the coronary adventitia of five swine. A cost function, based on entropy and Euler Spiral, was used in the shortest path search. We find that mean diameter of elastin fibres is 1.67 ± 1.42 μm and fibre orientation is clustered around two major angles of 8.9˚ and 81.8˚. Comparing with CT-FIRE, we find that our method gives more accurate estimation of fibre width. To our knowledge, the measurements obtained using our algorithm represent the first investigation focused on the reconstruction of full elastin fibre length. Our data provide a foundation for a 3D microstructural model of the coronary adventitia to elucidate the structure-function relationship of elastin fibres.
A Tetraguanidinium Ligand Binds to the Surface of the Tetramerization Domain of Protein P53 (2003)

Ein therapeutischer Angriffspunkt: Die Tetramerisierungsdomäne des Tumor-Supressorproteins P53 bindet einen Tetraguanidinliganden auf ihrer Oberfläche. Eine spezifische Wechselwirkung über vier Salzbrücken wurde mithilfe zweier auf NMR basierender Methoden entdeckt (siehe Bild). Das Design von Protein-Oberflächenliganden als Kompetitoren von Wassermolekülen ist eine Herausforderung in der Entwicklung neuer Krebstherapeutika. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2001/2004/z52115_s.pdf or from the author. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.