gebhart/patrepeval huggingface dataset:
Optimal Analysis Method for Dynamic Contrast-Enhanced Diffuse Optical Tomography (2011)

Diffuse Optical Tomography (DOT) is an optical imaging modality that has various clinical applications. However, the spatial resolution and quantitative accuracy of DOT is poor due to strong photon scatting in biological tissue. Structural a priori information from another high spatial resolution imaging modality such as Magnetic Resonance Imaging (MRI) has been demonstrated to significantly improve DOT accuracy. In addition, a contrast agent can be used to obtain differential absorption images of the lesion by using dynamic contrast enhanced DOT (DCE-DOT). This produces a relative absorption map that consists of subtracting a reconstructed baseline image from reconstructed images in which optical contrast is included. In this study, we investigated and compared different reconstruction methods and analysis approaches for regular endogenous DOT and DCE-DOT with and without MR anatomical a priori information for arbitrarily-shaped objects. Our phantom and animal studies have shown that superior image quality and higher accuracy can be achieved using DCE-DOT together with MR structural a priori information. Hence, implementation of a combined MRI-DOT system to image ICG enhancement can potentially be a promising tool for breast cancer imaging.
Genetic overlap between endometriosis and endometrial cancer: evidence from cross‐disease genetic correlation and GWAS meta‐analyses (2018)

Epidemiological, biological, and molecular data suggest links between endometriosis and endometrial cancer, with recent epidemiological studies providing evidence for an association between a previous diagnosis of endometriosis and risk of endometrial cancer. We used genetic data as an alternative approach to investigate shared biological etiology of these two diseases. Genetic correlation analysis of summary level statistics from genomewide association studies (GWAS) using LD Score regression revealed moderate but significant genetic correlation (r<sub>g </sub> = 0.23, P = 9.3 × 10<sup>-3</sup> ), and SNP effect concordance analysis provided evidence for significant SNP pleiotropy (P = 6.0 × 10<sup>-3</sup> ) and concordance in effect direction (P = 2.0 × 10<sup>-3</sup> ) between the two diseases. Cross-disease GWAS meta-analysis highlighted 13 distinct loci associated at P ≤ 10<sup>-5</sup> with both endometriosis and endometrial cancer, with one locus (SNP rs2475335) located within PTPRD associated at a genomewide significant level (P = 4.9 × 10<sup>-8</sup> , OR = 1.11, 95% CI = 1.07-1.15). PTPRD acts in the STAT3 pathway, which has been implicated in both endometriosis and endometrial cancer. This study demonstrates the value of cross-disease genetic analysis to support epidemiological observations and to identify biological pathways of relevance to multiple diseases.
Electrolytic conductivity at pure water level (2020)

Main text Electrolytic conductivity in aqueous solutions is a common electrochemical measurement technique in industry. Since it is sensitive to the amount content of dissolved ions in a solution, a limiting value for conductivity is a clear and simple quality criterium for the ionic purity of pure water, roughly ranging from 0.055 μS/cm to 150 μS/cm at 25 °C. International regulations are becoming stricter with regards to metrological traceability to guarantee compliance of measurement results with relevant standards. Consequently, the NMIs active in this area have been facing an increasing request for the calibration of respective conductivity sensors and for adequate CRMs over the past years. A first, regional comparison has been conducted in 2013/14 (EURAMET 1271). Since an increasing number of NMIs, also from other regions, seek providing respective services and establishing CMCs, EURAMET, i.e. the Sub-Committee on Electro Analysis of TC-MC, opened a follow-up comparison to other regions in terms of a supplementary CCQM comparison (EURAMET.QM-S12). The comparison has been conducted in terms of a Round Robin scheme. A conductivity sensor has been sent around between ten participants for calibration at four conductivity levels (0.055, 0.5, 5 and 50 μS/cm at 25 °C). Basically, the measured measurement errors of the device have been compared in terms of conductivity. Additionally, the cell constants calculated from the calibration results have been compared. Apart from very few outliers, the comparison has demonstrated good equivalence of the calibration capabilities. To reach the main text of this paper, click on Final Report . Note that this text is that which appears in Appendix B of the BIPM key comparison database kcdb.bipm.org/ . The final report has been peer-reviewed and approved for publication by the CCQM, according to the provisions of the CIPM Mutual Recognition Arrangement (CIPM MRA).
ACS News (2013)

RETURN TO ISSUEPREVNewsNEXTACS NewsCite this: Chem. Eng. News 2013, 91, 30, 41Publication Date (Print):July 29, 2013Publication History Published online31 March 2014Published inissue 29 July 2013https://pubs.acs.org/doi/10.1021/cen-09130-acsnews2https://doi.org/10.1021/cen-09130-acsnews2newsACS PublicationsCopyright © 2013 Chemical & Engineering NewsArticle Views7Altmetric-Citations-LEARN 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 Get e-Alerts
Kinetic Control of Pore Formation in Macroporous Polymers. Formation of "Molded" Porous Materials with High Flow Characteristics for Separations or Catalysis (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTKinetic Control of Pore Formation in Macroporous Polymers. Formation of "Molded" Porous Materials with High Flow Characteristics for Separations or CatalysisFrantisek Svec and Jean M. J. FrechetCite this: Chem. Mater. 1995, 7, 4, 707–715Publication Date (Print):April 1, 1995Publication History Published online1 May 2002Published inissue 1 April 1995https://pubs.acs.org/doi/10.1021/cm00052a016https://doi.org/10.1021/cm00052a016research-articleACS PublicationsRequest reuse permissionsArticle Views1458Altmetric-Citations293LEARN 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 optionsGet e-Alertsclose Get e-Alerts
ChemInform Abstract: Functional‐Group‐Directed Diastereoselective Hydrogenation of Aromatic Compounds. Part 2. (2000)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 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.
TransPrise: a novel machine learning approach for eukaryotic promoter prediction (2019)

As interest in genetic resequencing increases, so does the need for effective mathematical, computational, and statistical approaches. One of the difficult problems in genome annotation is determination of precise positions of transcription start sites. In this paper we present TransPrise-an efficient deep learning tool for prediction of positions of eukaryotic transcription start sites. Our pipeline consists of two parts: the binary classifier operates the first, and if a sequence is classified as TSS-containing the regression step follows, where the precise location of TSS is being identified. TransPrise offers significant improvement over existing promoter-prediction methods. To illustrate this, we compared predictions of TransPrise classification and regression models with the TSSPlant approach for the well annotated genome of <i>Oryza sativa</i>. Using a computer equipped with a graphics processing unit, the run time of TransPrise is 250 minutes on a genome of 374 Mb long. The Matthews correlation coefficient value for TransPrise is 0.79, more than two times larger than the 0.31 for TSSPlant classification models. This represents a high level of prediction accuracy. Additionally, the mean absolute error for the regression model is 29.19 nt, allowing for accurate prediction of TSS location. TransPrise was also tested in <i>Homo sapiens</i>, where mean absolute error of the regression model was 47.986 nt. We provide the full basis for the comparison and encourage users to freely access a set of our computational tools to facilitate and streamline their own analyses. The ready-to-use Docker image with all necessary packages, models, code as well as the source code of the TransPrise algorithm are available at (http://compubioverne.group/). The source code is ready to use and customizable to predict TSS in any eukaryotic organism.
Covalent modification at Cys151 dissociates the electrophile sensor Keap1 from Cullin3, the ubiquitin E3 ligase scaffold (2007)

A148 Induction of antioxidant and Phase II detoxification proteins by small molecules and natural products represents an integral component of chemoprevention strategies designed to inhibit the initiation phase of carcinogenesis. Antioxidant and Phase II gene expression is regulated by Nuclear factor E2-related factor 2 (Nrf2) heterodimeric binding to the proximal promoter Antioxidant Response Element. Under basal conditions Nrf2 associates with the CUL3 adaptor protein, Keap1, and undergoes constitutive CUL3-ligase-mediated ubiquitylation. Inhibition of CUL3-based E3 ubiquitination of Nrf2 by small molecule and natural product chemoprevention agents allows robust Nrf2-directed gene expression. Here we used the model electrophile N-iodoacetyl-N-biotinylhexylenediamine (IAB) to directly test the hypothesis that adduction of Cys151 in Keap1 alters structure and function. Adduction of recombinant hKeap1 was accompanied by progressive loss of protein secondary structure, as monitored by CD spectroscopy, and loss of the ability to associate with recombinant hCUL3, determined in an in vitro binding assay. IAB-mediated dissociation of Keap1 from CUL3 in vitro was shown to be dependent upon Cys151 in Keap1. A quantitative mass spectrometry-based kinetic analyses of FLAG-Keap1 adduction in vivo revealed a propensity for Cys151 adduction. Immunoprecipitation experiments demonstrated that Cys151 was required for IAB-mediated dissociation of the Keap1-CUL3 complex. These results demonstrate that Cys151 adduction confers a critical alkylation sensor function upon Keap1, regulating Nrf2-mediated expression of antioxidant and Phase II detoxification proteins. This work was supported in part by NIH/NCI RO-1 CA 104590.
Subcutaneous glucose monitoring by means of electrochemical sensors: fiction or reality? (1992)

Amperometric glucose oxidase/hydrogen peroxide sensors were inserted subcutaneously into the neck of normal and diabetic dogs (n = 10), to elucidate the conditions for stable long-term functioning. Their output current was observed in parallel with measurements of plasma glucose concentrations and their function was checked by means of induced alterations in glycaemia. After between 14 and 96 h the experiments were terminated due to losses in the apparent sensitivity of implanted sensors and/or increasing oscillations following stable measurements. This was accompanied by an inflammatory reaction which was analysed on the basis of the clinical picture and histology. In most cases there was a bacterial ingrowth from the normal skin flora of dogs. The inflammatory exsudate contained only 23 +/- 17% of the simultaneous steady state plasma glucose concentration, which was significantly different from the glucose level in the fluid obtained from non-irritate subcutaneous tissue (95 +/- 12%, separate set of experiments). The in vitro calibration of sensors exhibited essentially comparable sensitivities before and after the in vivo application. No differences in reported findings related to the biomaterials used (polyurethane versus cellulose acetate), the presence of diabetes, the history of individual electrodes and the effective duration of a given experiment were discernible. We conclude that the functional bioinstability of subcutaneous glucose sensors is largely due to the inflammatory tissue reaction which alters the effective glucose concentration within the measuring compartment of the electrodes; these drawbacks may be overcome by further miniaturization including implantable telemetric devices allowing the closure of the skin.
Visualizing Biological Machines with CryoEM (2008)

Presented on September 22, 2008 from 11:00 AM – 12:00 PM in room 1128 of the Parker H. Petit Institute for Bioengineering and Bioscience on the Georgia Tech campus
Targeting cellular adhesion molecules, chemokines and chemokine receptors in rheumatoid arthritis (2005)

The development of specific targeted therapies, such as anti-TNF-alpha treatment, for chronic inflammatory disorders such as rheumatoid arthritis, has significantly improved treatment, although not all patients respond. Targeting cellular adhesion molecules and chemokines/chemokine receptors as regulators of the extravasation and migration of leukocytes may provide a novel approach for the treatment of these diseases. Moreover, the possibility of developing small-molecule antagonists offers an excellent method for the oral delivery of compounds with a short half-life.
Preparation of Conductive Silver Films at Mild Temperatures for Printable Organic Electronics (2011)

Silver nanoparticle ink was prepared using a simple method. It can be used to fabricate highly conductive films on glass and flexible plastic substrates for printable electronics at mild temperatures. Its application for printable cathode material for polymer solar cell has been demonstrated and efficiency of 2.25% was obtained.
Pacing Following Shocks Stronger than the Defibrillation Threshold: (2000)

VF induction after aDFT shocks always required at least three rapid successive paced-induced cycles. Thus, the number and rapidity of the first several postshock cycles rather than just the first postshock cycle may be determining factors for defibrillation outcome.
Verification of polarization selection rules and implementation of selective coherent manipulations of hydrogenic transitions inn-GaAs (2005)

Electrons bound to shallow donors in GaAs have orbital energy levels analogous to those of the hydrogen atom. The polarization selection rules for optical transitions between the states analogous to the $1s$ and $2p$ states of hydrogen in a magnetic field are verified using Terahertz (THz) radiation from the University of California, Santa Barbara Free Electron Laser. A polarization-selective coherent manipulation of the quantum states is demonstrated and the relevance to quantum information processing schemes is discussed.
Observation ofCPViolation inB→η′K0Decays (2007)

We present measurements of the time-dependent CP-violation parameters S and C in B(0) --> eta(')K(0) decays. The data sample corresponds to 384 x 10(6) BB pairs produced by e(+)e(-) annihilation at the Upsilon(4S). The results are S=0.58+/-0.10+/-0.03 and C=-0.16+/-0.07+/-0.03. We observe mixing-induced CP violation with a significance of 5.5 standard deviations in this b --> s penguin dominated mode.
Differentiation of Friend Leukemia Cells Induced byβ-, γ-, δ-and Aza-β-Mactam, and Thiaziadine Compounds (1986)

β-, γ-, δ- and aza-β-lactam, and thiaziadine compounds induced the differentiation of Friend leukemia cells and hemoglobin was produced. Modification of the lactam rings of γ- and (δ-lactam compounds with aromatic side chains and bromine atoms enhanced their differentiation-inducing-activities to Friend leukemia cells. On the other hand, 4 thiaziadine compounds (AKT-1, AKT-2, AKT-3 and AKT-4), which commonly contain a -N(CH3)-N(CH3)-moiety, also promoted the differentiation of Friend leukemia cells. They had specific differentiation-inducing-abilities without toxic effects to Friend leukemia cells. 5-Aza-β-lactam compounds showed differentiation-inducing-activity toward all of three types of Friend leukemia cells, two of which were dimethylsulfoxide (DMSO)-sensitive and the other of which was DMSO-resistant. But we did not find any correlation between the differentiation-inducing-activity and the chemical group at the 1-imino position. The presence of an amino bond, which commonly exist in differentiation agents, was suggested to be necessary for the induction of the differentiation of Friend leukemia cells, and this ability was enhanced with the addition of aromatic side groups.
Detection of fruit maturity stage and yield estimation in wild blueberry using deep learning convolutional neural networks (2022)

This study looked at the development of six deep learning artificial neural network models for detecting ripeness stage in wild blueberries, along with developing models for yield estimation. The six networks used were YOLOv3, YOLOv3-SPP, YOLOv3-Tiny, YOLOv4, YOLOv4-Small and YOLOv4-Tiny. Both 3-class (green berries, red berries, blue berries) and 2-class (unripe berries, ripe berries) models were developed with YOLOv4 performing the best with mean average precisions of 79.79% and 88.12% respectively. This result was further supported by YOLOv4 achieving the highest F1 score of 0.82. YOLOv4-Tiny performed the best from a computational load perspective having a mean inference time of 7.8 ms and a mean memory usage of 1.63 GB for single 1280 × 736 pixel images. Only minor differences in the accuracy of the nonlinear regression yield prediction models were detected, with YOLOv4-Small performing the best with a mean absolute error of 24.1%. Despite this error, the results are encouraging, and this novel approach to yield estimation in wild blueberries will aid growers in making better, more localized, management decisions, improving yields and ultimately increasing profits by better understanding their fields ripening characteristics.
IDENTIFYING AGE, COHORT, AND PERIOD EFFECTS IN SCIENTIFIC RESEARCH PRODUCTIVITY: DISCUSSION AND ILLUSTRATION USING SIMULATED AND ACTUAL DATA ON FRENCH PHYSICISTS (2007)

The identification of age, cohort (vintage), and period (year) effects in a panel of individuals or other units is an old problem in the social sciences, but one that has not been much studied in the context of measuring researcher productivity. In the context of a semi-parametric model of productivity, where these effects are assumed to enter in an additive manner, we present the conditions necessary to identify and test for the presence of the three effects. In particular, we show that failure to specify, precisely, the conditions under which such a model is identified can lead to misleading conclusions about the productivity–age relationship. We illustrate our methods using data on the publications 1986–1997 by 465 French condensed-matter physicists who were born between 1936 and 1960.
P201: First report in the world of Mycobacterium bacteremicum causing a cluster of postlaparotomy surgical wound infections (2013)

Uncommon atypical mycobacteria previously known to be environmental contaminants are an increasingly reported cause of outbreaks of surgical site wound infections. We investigated a cluster of post-laparotomy wound infections in 12 patients at our tertiary care hospital in India. We describe the epidemiology and the methods used to investigate the outbreak.
Rapport II.7. Une tentative de calcul tridimensionnel des champs de vitesse, de pression et de température autour d'un réfrigérant (1980)

Benque J. P., Pernecker L. Rapport II.7. Une tentative de calcul tridimensionnel des champs de vitesse, de pression et de température autour d'un réfrigérant. In: Rejets de chaleur à l'atmosphère. Gestion des calories et hydraulique associée. Compte rendu des XVIes journées de l'hydraulique. Paris, 16-18 septembre 1980. Tome 1, 1980.
Chemical Composition and Topology of Poly(lactide‐co‐glycolide) Revealed by Pushing MALDI‐TOF MS to Its Limit (2006)

Software developed in house in combination with a recently developed method of MALDI-TOF MS enable not only the elucidation of individual chain structures of poly(lactide-co-glycolide), a polymer used extensively in the medical sector, but a full characterization of this copolymer including even its chemical composition and topology (random, gradient, block (see figure), or alternating). Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2002/2006/z600594_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.
Reduced-intensity conditioning for hematopoietic cell transplant for HLH and primary immune deficiencies (2018)

Allogeneic hematopoietic cell transplantation (HCT) with myeloablative conditioning for disorders associated with excessive inflammation such as hemophagocytic lymphohistiocytosis (HLH) is associated with early mortality. A multicenter prospective phase 2 trial of reduced-intensity conditioning with melphalan, fludarabine, and intermediate-timing alemtuzumab was conducted for HLA matched or single HLA locus mismatched related or unrelated donor HCT in a largely pediatric cohort. Graft-versus-host disease (GVHD) prophylaxis was cyclosporine with methylprednisolone. The primary end point was 1-year overall survival (OS). Thirty-four patients with HLH and 12 with other primary immune deficiencies were transplanted. With a median follow-up of 20 months, the 1-year OS for transplanted patients was 80.4% (90% confidence interval [CI], 68.6%-88.2%). Five additional deaths by 16 months yielded an 18-month OS probability of 66.7% (90% CI, 52.9%-77.3%). Two patients experienced primary graft failure, and 18 patients either experienced a secondary graft failure or required a second intervention (mostly donor lymphocyte infusion [DLI]). At 1 year, the proportion of patients alive with sustained engraftment without DLI or second HCT was 39.1% (95% CI, 25.2%-54.6%), and that of being alive and engrafted (with or without DLI) was 60.9% (95% CI, 45.4 %-74.9%). The day 100 incidence of grade II to IV acute GVHD was 17.4% (95% CI, 8.1%-29.7%), and 1-year incidence of chronic GVHD was 26.7% (95% CI, 14.6%-40.4%). Although the trial demonstrated low early mortality, the majority of surviving patients required DLI or second HCT. These results demonstrate a need for future approaches that maintain low early mortality with improved sustained engraftment. The trial was registered at Clinical Trials.gov (NCT 01998633).