gebhart/patrepeval huggingface dataset:
S0679 The Association Between Patient-Reported Outcomes and Faecal Calprotectin in Ulcerative Colitis: Gut "Feeling" Over IBD "Control"? (2020)

INTRODUCTION: The IBD Control questionnaire is a validated patient reported outcome measure (PROM) designed to measure inflammatory bowel disease (IBD) activity. However, data on its performance compared to objective measures of inflammation are scarce. METHODS: Here, we prospectively evaluated the diagnostic yield of IBD Control and its sub-scores (IBD control-8 and IBD-control-VAS), compared to faecal calprotectin (FCP) levels, in patients with ulcerative colitis (UC). Patients with UC attending IBD clinics completed a series of validated questionnaires including the IBD-control questionnaire, the Rome IV diagnostic questionnaire for functional bowel disorders (FBD), and submitted a sample for FCP. On IBD Control questionnaires; quiescent UC is defined as IBD-control-8 sub-score ≥13 and IBD-control-VAS ≥85. FCP levels ≤250 ug/g were considered as inactive disease. IBD-control data were compared to FCP levels using simple linear regression analyses. RESULTS: A total of 152 UC patients (mean age 51 ± 1.2 years, n = 66 male) completed the study. Mean IBD control-8 sub score was 9.6 ± 0.5, and mean IBD control-VAS was 60.7 ± 2.7, whilst mean FCP level was 338.2 ± 40.7. There were statistically significant correlations between FCP levels and IBD control data (FCP and IBD control-8: R = −0.29, R2 = 0.09, P = 0.0002; FCP and IBD control-VAS: R = −0.36, R2 = 0.13, P < 0.0001), although these correlations were weak. The diagnostic yield for active IBD using IBD-control questionnaire data was 84/152 (55%), however only 53/152 (34%) had FCP ≥ 250. Of the 31 patients who met IBD-control criteria for active disease but had normal FCP, most patients met the Rome IV diagnostic criteria for at least one FBD (Irritable Bowel Syndrome n = 15, functional constipation n = 5 and faecal incontinence n = 17). CONCLUSION: These data are amongst the first to confirm an association between PROMs for IBD activity and objective measures of inflammation. However, when used exclusively, PROMs may over estimate disease activity, and do not account for patients with overlapping FBDs which may mimic active inflammation in quiescent disease.
Image-Based Recommendations on Styles and Substitutes (2015)

Humans inevitably develop a sense of the relationships between objects, some of which are based on their appearance. Some pairs of objects might be seen as being alternatives to each other (such as two pairs of jeans), while others may be seen as being complementary (such as a pair of jeans and a matching shirt). This information guides many of the choices that people make, from buying clothes to their interactions with each other. We seek here to model this human sense of the relationships between objects based on their appearance. Our approach is not based on fine-grained modeling of user annotations but rather on capturing the largest dataset possible and developing a scalable method for uncovering human notions of the visual relationships within. We cast this as a network inference problem defined on graphs of related images, and provide a large-scale dataset for the training and evaluation of the same. The system we develop is capable of recommending which clothes and accessories will go well together (and which will not), amongst a host of other applications.
Report on Nomenclature and Standards for Bone Proteins and Growth Factors (1987)

AbstractThe Council of the American Society for Bone and Mineral Research appointed an Ad Hoc Committee on Nomenclature and Standards for Bone Proteins and Growth factors, with the charge of recommending means of sorting out the confusing terminologies in this rapidly developing field. Their report follows. As Editor of Connective Tissue Research I recommend that authors adhere to these recomendations as closely as possible in preparing their manuscripts for submission to this journal.
Sub-picosecond pulse stability of passively mode-locked two-section quantum dash laser at ~ 1550 nm subject to single and dual optical feedback (2016)

We report effects of varying feedback ratios and phases in dual-loop external optical feedback on phase-noise characteristics of passively mode-locked two-section quantum-dash lasers. Optimal feedback yields ~100× reductions in RF-linewidth.
OSA: Treatments beyond CPAP (2022)

Obstructive Sleep Apnea (OSA) is a serious and underestimated respiratory sleep disorder that affects approximately 24% of men and 9% of women, and over a billion people worldwide [...].
Arylation of Heterocycles via Rhodium-Catalyzed C−H Bond Functionalization (2003)

[reaction: see text] A new method for the rhodium-catalyzed arylation of a variety of heterocycles has been developed. The reaction provided moderate to good yields of the arylated products. A preliminary mechanistic investigation of this reaction revealed the intermediacy of an isolable N-heterocyclic carbene complex.
Algorithms for optimizing, two-dimensional symbolic layout compaction (1988)

A set of algorithms that implement a technique called Supercompaction is described for two-dimensional compaction layouts. The algorithms minimize a one-dimensional objective function (pitch) by moving objects in the layout in two dimensions. The objective function can be monotonically reduced to a locally minimal value, greatly simplifying search. The algorithms can change the layout by simple motion of components or by automatic jog introduction. Experiments shows that: (1) the number of iterations required to reach a locally optimal layout is very small; (2) the time per iteration is competitive with other compaction techniques; (3) supercompacted layouts are smaller in pitch and area than those produced by existing one-dimensional algorithms; and (4) the results of supercompaction are more predictable than those of existing one-dimensional methods.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Experiments on the relation between freeze-bonds and ice rubble strength part II: freeze-bond experiments and comparison with numerical simulations (2011)

A series of experiments with freeze-bond strength and ice-ice friction have been carried out in the Norwegian University of Science and Technology (NTNU) ice laboratory in combination with shear-box tests on ice rubble. Freeze-bonds were tested with the same confinement during formation and testing (classical configuration) and with opposite confinement (inverted configuration). In the first case the results were similar to those of previous works. In the tests with inverted configuration it was difficult to see any clear trend of shear stress vs. normal pressure. The rubble freeze-bond tests produced a negative friction angle but we suspect that this is due to softening behaviour while adding the confinement prior to testing. The freeze-bond seems to be important for the continuum behaviour of ice rubble, but probably somewhat less important the older the rubble is. By combining the freeze-bond strength and ice-ice friction measurements a cohesion softening behaviour was derived just as in previous works. By comparing the test with long and short submersion times with numerical simulations published earlier it seems that the freeze-bond area is a key parameter in the estimation of continuum rubble properties. The softening cannot explain the differences between the experiments and the simulations. Finally it seems to be a fairly good correspondence between the numerical works and the authors' physical experiments with a similar configuration.
Imagerie de Phase Quantitative Appliquée à la Biologie sur un Microscope Classique (2011)

National audience
Expression of the HGF receptor c‐met by macrophages in experimental autoimmune encephalomyelitis (2009)

Hepatocyte growth factor (HGF) is a pleiotropic cytokine able to evoke a wide array of cellular responses including proliferation, migration, and survival through activation of its receptor c-met. Various types of leukocytes have been described to express c-met suggesting that HGF/c-met signaling may directly influence leukocyte responses in inflammation. We have investigated the HGF/c-met pathway in experimental autoimmune encephalomyelitis (EAE), a common mouse model of multiple sclerosis (MS), in which macrophages play a dual role, contributing directly to CNS damage at disease onset but promoting recovery during remission by removing myelin debris. Here we show that during EAE both HGF and c-met are expressed in the CNS and that c-met is activated. We subsequently demonstrate that c-met is primarily expressed in inflammatory lesions by macrophages and a small number of dendritic cells (DCs) and oligodendrocyte progenitor cells (OPCs) but not by microglia or T cells. Complementary in vitro experiments show that only LPS and TNFalpha, but not IL-6, IL-10, or IL-13, are able to induce c-met expression in macrophages. In addition, using TNF signaling deficient macrophages we demonstrate that LPS and TNFalpha induce c-met through distinct pathways. Furthermore, TNFalpha- and LPS-induced c-met is functional because treatment of macrophages with recombinant HGF results in rapid phosphorylation of c-met. Interestingly, HGF/c-met signaling does not modulate cytokine expression, phagocytosis, or antigen presentation but promotes proliferation of activated macrophages. Taken together, our data indicate a pro-inflammatory role for the HGF/c-met pathway in EAE rather than a role in the initiation of repair mechanisms.
A 800Mb/s/pin 2Gb DDR2 SDRAM using an 80nm triple metal technology (2005)

A 1.8V, 800Mbit/s/pin, 2GB DDR2 SDRAM is developed using an 80nm triple metal technology. With the triple metal technology, NMOS precharge I/O scheme and statistical analysis, DDR800 4-4-4 performance is achieved at 1.8V. For mass production, a high-speed clock using an on chip PLL and an address-pin-reduction mode are employed.
PET Image Denoising Using Deep Neural Network (2017)

Deep neural networks have been widely and successfully used in computer vision and attracted growing interests in medical imaging. In this work, we trained a deep residual convolutional neural network to improve quality of PET images. To train the deep neural network, we augmented real patient data with computer simulated phantom data. Specifically, we first trained the network using simulation data and then fine tuned the network using real data. Results based on simulation and real data show that the proposed method is more effective in removing noise than the traditional Gaussian filtering method.
Decreased proportion of Foxp3+CD4+ regulatory T cells contributes to the development of hypertension in genetically hypertensive rats (2015)

Our findings indicate that a decrease in Treg cell proportion is crucial for the development of hypertension and cardiac hypertrophy in SHRSP, which is involved in sympathetic neural input to the spleen.
Detection of IgE Antibodies in Onchocerciasis Using a Semi-Purified Fraction from <i>Dipetalonema viteae</i> Total Antigen (1983)

A Dipetalonema viteae extract was separated by gel filtration on ACA 34 Ultrogel into four fractions (A, B, C and D). The allergenic activity of the D. viteae extract and its various fractions was assayed by the passive cutaneous anaphylaxis (PCA) test in rats using mouse sera obtained from Balb/c mice transplanted with D. viteae. The PCA reaction showed that fraction B was the most potent allergenic fraction of the D. viteae extract. By the radioallergosorbent test (RAST) the use of fraction B coupled to CNBr-activated paper discs showed elevated binding of IgE antibodies in onchocerciasis human sera. A comparative study demonstrated the efficiency of the above fraction in the RAST technique in distinguishing between Onchocerca volvulus-infected patients and those infected with other human filarial worms or other helminth parasites. The binding of IgE to fraction B was confirmed by the radioimmunoelectrophoresis and radio-double diffusion methods using an 125I anti-human IgE. Since D. viteae antigens are more readily obtainable than those of O. volvulus, a further purification of fraction B to improve its specificity for the detection of IgE antibodies in human onchocerciasis is warranted.
Printed Nanophotonics: Inkjet‐Printed Nanocavities on a Photonic Crystal Template (Adv. Mater. 47/2017) (2017)

Structurally tunable nanophotonic cavities are realized by Frederic S. F. Brossard, Vincenzo Pecunia, and co-workers using a novel fabrication method involving high-resolution inkjet printing and a photonic crystal template. As described in article number 1704425, the ink is made of an organic material printed on an inorganic photonic crystal. The method paves the way for a user-customized and reusable template with a high density of functionalities, for applications in biosensing, lasing, and optical circuits.
Knowing the Cost of Synchronization Primitives on Modern Hardware (2018)

오늘날 널리 사용되고 있는 멀티 코어 시스템에서는 모든 프로세서 코어를 사용하는 효율적인 동시성 제어 알고리즘을 사용하는 것이 중요하다. 그러나, 암달의 법칙은 프로그램이 확장될 수 없는 부분을 가지고 있는 한 무한히 확장될 수 없다고 이야기 한다. 더 나아가, 순서의 법칙은 동시성 알고리즘에서 순서를 짓기 위한 비싼 동기화 작업은 사라질 수 없다고 이야기 한다. 결국, 알고리즘의 트레이드오프를 결정짓기 위해선 각 동기화 기능의 실제 비용을 아는 것이 중요하다. 일반적인 동기화 도구들의 대략적 비용은 널리 알려져 있지만, 이는 하드웨어 종속적이기 때문에 특정 시스템에서는 정확치 않을 수 있다. 본 논문은 최신 하드웨어에서 동기화 도구의 비용을 측정해 보고 그 결과에 대해 논한다.
Recent developments ind-α-tocopheryl polyethylene glycol-succinate-based nanomedicine for cancer therapy (2017)

Cancer remains an obstacle to be surmounted by humans. As an FDA-approved biocompatible drug excipient, d-α-tocopheryl polyethylene glycol succinate (TPGS) has been widely applied in drug delivery system (DDS). Along with in-depth analyses of TPGS-based DDS, increasingly attractive results have revealed that TPGS is able to act not only as a simple drug carrier but also as an assistant molecule with various bio-functions to improve anticancer efficacy. In this review, recent advances in TPGS-based DDS are summarized. TPGS can inhibit P-glycoprotein, enhance drug absorption, induce mitochondrial-associated apoptosis or other apoptotic pathways, promote drug penetration and tumor accumulation, and even inhibit tumor metastasis. As a result, many formulations, by using original TPGS, TPGS-drug conjugates or TPGS copolymers, were prepared, and as expected, an enhanced therapeutic effect was achieved in different tumor models, especially in multidrug resistant and metastatic tumors. Although the mechanisms by which TPGS participates in such functions are not yet very clear, considering its effectiveness in tumor treatment, TPGS-based DDS appears to be one of the best candidates for future clinical applications.
Layered LiNi0.8Co0.1Mn0.1O2Prepared through Calcination in Air with Preoxidized Precursor (2017)

The layered Ni-rich oxide LiNi0.8Co0.1Mn0.1O2 is very attractive as a cathode material owing to its large reversible capacity. However, the inherent poor cycling stability of Ni-rich cathode materials has always been a serious issue limiting their commercialization. Moreover, LiNi0.8Co0.1Mn0.1O2 should be calcined under oxygen flow to promote the oxidation of Ni2+ to Ni3+, which makes it costly. In this study, we introduce a technique for preoxidation of the LiNi0.8Co0.1Mn0.1O2 precursor by KMnO4 to partially oxidize Ni2+ in the precursor (KMnO4-treatment) and eliminate the need for calcination in pure oxygen atmosphere. X-ray photoelectron spectroscopy analysis of the KMnO4-treated precursor and LiNi0.8Co0.1Mn0.1O2 obtained from the KMnO4-treated precursor in air (KMnO4-LiNi0.8Co0.1Mn0.1O2) indicates that the valence states of nickel ions are higher than those in the untreated (pristine) precursor and LiNi0.8Co0.1Mn0.1O2 obtained from the pristine precursor in air (Air-LiNi0.8Co0.1Mn0.1O2). The structure of the KMnO4-LiNi0.8Co0.1Mn0.1O2 shows no distinct differences except for a slight expansion along the c-axis and lower cation disorder. Electrochemical measurements demonstrate that KMnO4-LiNi0.8Co0.1Mn0.1O2 has better rate capability and cycling stability at cutoff voltages of 4.3 and 4.5 V than Air-LiNi0.8Co0.1Mn0.1O2. The improved cycling performance of KMnO4-LiNi0.8Co0.1Mn0.1O2 can be attributed to the favorable structural change due to the more oxidized trivalent nickel ion.
Efficient Heterogeneously Palladium-Catalysed Synthesis of Stilbenes and Bibenzyls (2009)

Cusati, Giuseppe Wedig, Anja Djakovitch, Laurent
Monitoring the integrity of reverse osmosis membranes using novel indigenous freshwater viruses and bacteriophages (2019)

Naturally present indigenous fresh water viruses are able to accurately monitor virus rejection of intact and damaged RO membranes, with high sensitivity and similar performance as spiked bacteriophage MS2.
EULAR/ACR classification criteria for adult and juvenile idiopathic inflammatory myopathies and their major subgroups: a methodology report (2017)

The new EULAR/ACR classification criteria provide a patient's probability of having IIM for use in clinical and research settings. The probability is based on a score obtained by summing the weights associated with a set of criteria items.
Expression of human OPG-MBP fusion protein in E.coli (2002)

Aim To clone the mature peptide cDNA of human osteoprotegenin ( OPG) and express it in E.Coli . Methods Using the isolated total RNA from human osteosacoma cell line MG63 as a template, cDNA encoding the human OPG mature peptide was amplified by RT PCR. The PCR product was cloned into pUC19 and sequenced. Then, gene encoding mature region of OPG was inserted into prokaryotic expression vector pMAL c2x and transformed into competent E.coli BL21(DE3)PlysS to express via induction of IPTG. OPG MBP fusion protein was identified by SDS PAGE and Western blot. Results The cloned gene sequence of OPG mature peptide was identical with that reported. SDS PAGE and Western blot analysis indicated that the relative molecular mass ( M r) of the fusion protein was about 85 000, Fusion protein accounted for about 13% of total bacteria protein and could react specifically with anti OPG antibody. Conclusion cDNA encoding OPG mature peptide has been cloned and expressed in E.coli .
Coordinate modulation of Sp1, NF‐kappa B, and p53 in confluent human malignant melanoma cells after ionizing radiation (2000)

Regulation of transcriptional responses in growth-arrested human cells under conditions that promote potentially lethal damage repair after ionizing radiation (IR) is poorly understood. Sp1/retinoblastoma control protein (RCP) DNA binding increased within 30 min and peaked at 2-4 h after IR (450-600 cGy) in confluent radioresistant human malignant melanoma (U1-Mel) cells. Increased phosphorylation of Sp1 directly corresponded to Sp1/RCP binding and immediate-early gene induction, whereas pRb remained hypophosphorylated. Transfection of U1-Mel cells with the human papillomavirus E7 gene abrogated Sp1/RCP induction and G(0)/G(1) cell cycle checkpoint arrest responses, increased apoptosis and radiosensitivity, and augmented genetic instability (i.e., increased polyploidy cells) after IR. Increased NF-kappaB DNA binding in U1-Mel cells after IR treatment lasted much longer (i.e., >20 h). U1-Mel cells overexpressing dominant-negative IkappaBalpha S32/36A mutant protein were significantly more resistant to IR exposure and retained both G(2)/M and G(0)/G(1) cell cycle checkpoint responses without significant genetic instability (i.e., polyploid cell populations were not observed). Nuclear p53 protein levels and DNA binding activity increased only after high doses of IR (>1200 cGy). Disruption of p53 responses in U1-Mel cells by E6 transfection also abrogated G(0)/G(1) cell cycle checkpoint arrest responses and increased polyploidy after IR, but did not alter radiosensitivity. These data suggest that abrogation of individual components of this coordinate IR-activated transcription factor response may lead to divergent alterations in cell cycle checkpoints, genomic instability, apoptosis, and survival. Such coordinate transcription factor activation in human cancer cells is reminiscent of prokaryotic SOS responses, and further elucidation of these events should shed light on the initial molecular events in the chromosome instability phenotype.-Yang, C.-R., Wilson-Van Patten, C., Planchon, S. M., Wuerzberger-Davis, S. M., Davis, T. W., Cuthill, C., Miyamoto, S., Boothman, D. A. Coordinate modulation of Sp1, NF-kappa B, and p53 in confluent human malignant melanoma cells after ionizing radiation.
Weakly Coordinating Anions HA2-Generated from Oxoanions A-and Their Conjugate Acids. Coordination Equilibria, Ionic Conductivities, and the Structures of {Cu2(H(CH3SO3)2)4}nand [Cu(CO)(H(CF3CO2)2)]2 (2000)

The coordination or ion pairing of the hydrogen-bonded anions H(CF3CO2)2- and H(CH3SO3)2- to NEt4+, Li+, Cu+, and/or Cu2+ was investigated. The structure of [Cu2(H(CH3SO3)2)4]n consists of centrosymmetric dimeric moieties that contain two homoconjugated (CH3SO2O-H...OSO2CH3)- anions per Cu2+ ion, forming typical Jahn-Teller tetragonally elongated CuO6 coordination spheres. The oxygen atoms involved in the nearly linear O-H...O hydrogen bonds (O...O approximately 2.62 A) are not coordinated to the Cu2+ ions. The structure of Cu2(CO)2(H(CF3-CO2)2)2 consists of pseudo-C2-symmetric dimers that contain one homoconjugated (CF3COO-H...OCOCF3)- anion per Cu+ ion, forming highly distorted tetrahedral Cu(CO)O3 coordination spheres. Three of the four oxygen atoms in each hydrogen-bonded H(CF3CO2)2- anion are coordinated to the Cu+ ions, including one of the oxygen atoms in each O-H...O hydrogen bond (O...O approximately 2.62 A). Infrared spectra (v(CO) values) of Cu(CO)(CF3CO2) or Cu(CO)(CH3SO3) dissolved in acetonitrile or benzene, with and without added CF3COOH or CH3SO3H, respectively, demonstrate that HA2- anions involving carboxylates or sulfonates are more weakly coordinating than the parent anions RCO2- and RSO3-. Direct current conductivities of THF solutions of Li(CF3CO2) containing varying concentrations of added CF3COOH further demonstrate that Li+ and NEt4+ ion pair much more weakly with H(CF3CO2)2- than with CF3CO2-.
Antimicrobial and lipopolysaccharide-binding activities of C-terminal domain of human CAP18 peptides to genus Leptospira (2004)

Human CAP18 (18-kDa cationic anitimicrobial protein:hCAP18) is a protein originally identified from leuko- cytes on the basis of its capacity to show antimicrobial activity.We report here that 27-amino acids in C-terminal domain of hCAP18 immobilize and kill Leptospira interrogansand Leptospira biflexa.The domain binds leptopsiral lipopolysaccharide as well as enterobac- terial LPS.Analogue peptides also show the activities.
Simplified Analogues of Acyclonucleosides. Synthesis of 6-[N-Alkyl-N-(4-hydroxybutyl)amino]pyrimidine Derivatives (1994)

Abstract The synthesis of some 6-alkylaminopyrimidine derivatives bearing a 4-hydroxybutyl chain as sugar mimic is described. These new compounds can be regarded as simplified, ring-opened analogues of purine acylonucleosides.