gebhart/patrepeval huggingface dataset:
Developmental Alterations in Thymocyte Sensitivity Are Actively Regulated by MHC Class II Expression in the Thymic Medulla (2006)

Developing thymocytes are positively selected if they respond to self-MHC-peptide complexes, yet mature T cells are not activated by those same self-complexes. To avoid autoimmunity, positive selection must be followed by a period of maturation when the cellular response to TCR signals is altered. The mechanisms that mediate this postselection developmental tuning remain largely unknown. Specifically, it is unknown whether developmental tuning is a preprogrammed outcome of positive selection or if it is sensitive to ongoing interactions between the thymocyte and the thymic stroma. We probed the requirement for MHC class II-TCR interactions in postselection maturation by studying single positive (SP) CD4 thymocytes from K14/A(beta)(b) mice, in which CD4 T cells cannot interact with MHC class II in the thymic medulla. We report here that SP CD4 thymocytes must receive MHC class II signals to avoid hyperactive responses to TCR signals. This hyperactivity correlates with decreased expression of CD5; however, developmental tuning can occur independently of CD5, correlating instead with differences in the distribution of Lck. Thus, the maturation of postselection SP CD4 thymocytes is an active process mediated by ongoing interactions between the T cell and MHC class II molecules. This represents a novel mechanism by which the thymic medulla prevents autoreactivity.
3D image reconstruction algorithms for cryo-electron-microscopy images of virus particles (2000)

A statistical model for the object and the complete image formation process in cryo electron microscopy of viruses is presented. Using this model, maximum likelihood reconstructions of the 3D structure of viruses are computed using the expectation maximization algorithm and an example based on Cowpea mosaic virus is provided.
Image fusion for enhanced visualization of brain imaging (1999)

We present a new formalism for the treatment and understanding of multispectral imags and multisensor fusion based on first order contrast information. Although little attention has been paid to the utility of multispectral contrast, we develop a theory for multispectral contrast that enables us to produce an optimal grayscale visualization of the first order contrast of an image with an arbitrary number of bands. In particular, we consider multiple registered visualization of multi-modal medical imaging. We demonstrate how our methodology can reveal significantly more interpretive information to a radiologist or image analyst, who can use it in a number of image understanding algorithms. Existing grayscale visualization strategies are reviewed and a discussion is given as to why our algorithm performs better. A variety of experimental results from medical imagin and remotely sensed data are presented.
Reaction of COTC with Glutathione:  Structure of the Putative Glyoxalase I Inhibitor (2000)

The structure of the active glyoxalase I inhibitor derived from the Streptomyces griseosporeus metabolite COTC 1 has been conclusively identified by means of total synthesis as 2c. Human glyoxalase I is competitively inhibited by 2c (K(i)() = 183 +/- 6 microM) but is not inhibited by 1 itself.
The <em>In ovo</em> CAM-assay as a Xenograft Model for Sarcoma (2013)

Sarcoma is a very rare disease that is heterogeneous in nature, all hampering the development of new therapies. Sarcoma patients are ideal candidates for personalized medicine after stratification, explaining the current interest in developing a reproducible and low-cost xenotransplant model for this disease. The chick chorioallantoic membrane is a natural immunodeficient host capable of sustaining grafted tissues and cells without species-specific restrictions. In addition, it is easily accessed, manipulated and imaged using optical and fluorescence stereomicroscopy. Histology further allows detailed analysis of heterotypic cellular interactions. This protocol describes in detail the in ovo grafting of the chorioallantoic membrane with fresh sarcoma-derived tumor tissues, their single cell suspensions, and permanent and transient fluorescently labeled established sarcoma cell lines (Saos-2 and SW1353). The chick survival rates are up to 75%. The model is used to study graft- (viability, Ki67 proliferation index, necrosis, infiltration) and host (fibroblast infiltration, vascular ingrowth) behavior. For localized grafting of single cell suspensions, ECM gel provides significant advantages over inert containment materials. The Ki67 proliferation index is related to the distance of the cells from the surface of the CAM and the duration of application on the CAM, the latter determining a time frame for the addition of therapeutic products.
Miniaturized dielectric waveguide filters (2016)

Design techniques for a new class of integrated monolithic high-permittivity ceramic waveguide filters are presented. These filters enable a size reduction of 50% compared to air-filled transverse electromagnetic filters with the same unloaded Q-factor. Designs for Chebyshev and asymmetric generalised Chebyshev filter and a diplexer are presented with experimental results for an 1800 MHz Chebyshev filter and a 1700 MHz generalised Chebyshev filter showing excellent agreement with theory.
Abstract 1072: The FGF18/FGFR4 amplicon: Novel therapeutic biomarkers for ovarian cancer (2012)

Abstract Epithelial ovarian cancer is the fifth leading cause of cancer-related death among women and has the highest case-fatality rate among gynecologic cancers. High throughput genomic technologies have been instrumental in identifying new biomarkers and potential novel therapeutic targets for ovarian cancer. However, comprehensive functional validation studies on both the biological and clinical levels are needed to better understand the mechanistic basis for these biomarkers and realize their clinical significance and application. Fibroblast growth factor 18 (FGF18) has been recently identified as an aberrantly expressed gene within an expression signature predicting poor rate of survival in patients with advanced stage serous ovarian cancers. In addition, genomic amplification of both FGF18 and FGFR4 has been shown to predict for poor overall survival among women with advanced stage high grade serous ovarian cancers. siRNA mediated knock-down of FGFR4 abolishes FGF18 induced phosphorylation of FRS2 and ERK1/2 in ovarian cancer cells, indicating the FGF18 signaling is at least partially conferred by FGFR4 in ovarian cancer cells. However, the exact role of FGF18/FGFR4 in the clinicopathologic properties of ovarian cancer has not been determined. Preliminary studies by ectopic FGF18 overexpression or recombinant FGF18 treatment demonstrate that FGF18 promotes the in vitro migration and invasion of both ovarian cancer cells and endothelial cells. In SCID mice xenograft models, FGF18 expression in ovarian cancer cells results in increased tumor formation. Microarray analysis identified up-regulation of a large number of proinflammatory cytokines by FGF18 which may mediate the increases in angiogenesis and infiltration of macrophages seen in FGF18 expressing xenografts. Pathway analysis further demonstrated participation of NF-κB signaling in FGF18 mediated cytokine production. Conversely, knock-down of FGF18 in ovarian cancer cells reduces the in vitro migration; inhibits the production of cytokines and impairs the in vivo tumorigenicity in SCID mice xenograft model. Taken together, FGF18/FGFR4 axis may play an important role in ovarian cancer pathogenesis and may serve as a novel therapeutic target. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 1072. doi:1538-7445.AM2012-1072
Combined androgen blockade: the gold standard for metastatic prostate cancer. (1997)

There is no debate that both the earlier diagnosis and the treatment of men with cancer of the prostate (CaP) are having an impact on patients with this disease. In many practices there are fewer and fewer patients presenting with the classic diagnosis of 'advanced disease', i.e., stage M (D2). Only a few years ago, a large percentage of men with CaP had bony metastases when they presented to a physician. Hormonal ablation was the optimal treatment, and the only question was whether bilateral orchiectomy or medical castration should be used. The median time to progression with either type of monotherapy was 12-18 months, and the median time to survival was 24-36 months. Unfortunately, in many parts of the world, this scenario is still the norm. In the United States, Europe, and an increasing number of other countries, improved methods of detection with transrectal ultrasound and prostate-specific antigen (PSA) have resulted in a dramatic shift in the stage of disease at diagnosis. It is safe to say that in these countries the majority of prostate cancers are now being clinically diagnosed while still localized, and many organ-confined tumors are being definitively treated and cured. Nevertheless, many of these patients will be understaged at the time of diagnosis and will show progression following definitive therapy. In most surgical series approximately one half of patients will be found on pathologic examination to have pT3 disease. The use of PSA in the diagnosis of CaP has been mentioned, and it is being used extensively to monitor recurrent/residual disease. Hormonal therapy is being employed earlier in numerous clinical situations, and its use is no longer reserved solely for patients with metastatic disease. In this context combined androgen blockade has become the gold standard of treatment in neoadjuvant situations as well as for advanced CaP. Newer advances, including 3-month depot formulations of luteinizing hormone-releasing hormone analogues, the reversibility of medical castration, the preference of most patients to have medical castration, and the approval of other antiandrogens in the United States, all have further strengthened the use of combined androgen blockade. Hormonal therapy in adjuvant settings, when there is a high likelihood of disease recurrence, is also being used in many clinical situations. In addition, there appears to be a role for certain types of hormonal therapy in chemoprevention.
Self-Supervised Ultrasound to MRI Fetal Brain Image Synthesis (2020)

Fetal brain magnetic resonance imaging (MRI) offers exquisite images of the developing brain but is not suitable for second-trimester anomaly screening, for which ultrasound (US) is employed. Although expert sonographers are adept at reading US images, MR images which closely resemble anatomical images are much easier for non-experts to interpret. Thus in this paper we propose to generate MR-like images directly from clinical US images. In medical image analysis such a capability is potentially useful as well, for instance for automatic US-MRI registration and fusion. The proposed model is end-to-end trainable and self-supervised without any external annotations. Specifically, based on an assumption that the US and MRI data share a similar anatomical latent space, we first utilise a network to extract the shared latent features, which are then used for MRI synthesis. Since paired data is unavailable for our study (and rare in practice), pixel-level constraints are infeasible to apply. We instead propose to enforce the distributions to be statistically indistinguishable, by adversarial learning in both the image domain and feature space. To regularise the anatomical structures between US and MRI during synthesis, we further propose an adversarial structural constraint. A new cross-modal attention technique is proposed to utilise non-local spatial information, by encouraging multi-modal knowledge fusion and propagation. We extend the approach to consider the case where 3D auxiliary information (e.g., 3D neighbours and a 3D location index) from volumetric data is also available, and show that this improves image synthesis. The proposed approach is evaluated quantitatively and qualitatively with comparison to real fetal MR images and other approaches to synthesis, demonstrating its feasibility of synthesising realistic MR images.
Effect of hyperbarically oxygenated-perfluorochemial (HBO-PFC) with UW solution on preservation of rat small intestine (2006)

Inuzuka, Kazunori MD; Unno, Naoki MD, FACS; Yamamoto, Naoto MD; Sagara, Daisuke MD; Suzuki, Minoru MD; Konno, Hiroyuki MD Author Information
Supplementary Figure Legends from Identification of P450 Oxidoreductase as a Major Determinant of Sensitivity to Hypoxia-Activated Prodrugs (2023)

Supplementary Figure Legends from Identification of P450 Oxidoreductase as a Major Determinant of Sensitivity to Hypoxia-Activated Prodrugs
Commentary Cardiac plasticity in fishes: environmental influences and intraspecific differences (2004)

Fish cardiac physiology and anatomy show a multiplicity of intraspecific modifications when exposed to prolonged changes in environmentally relevant parameters such as temperature, hypoxia and food availability, and when meeting the increased demands associated with training/increased activity and sexual maturation. Further, there is evidence that rearing fish under intensive aquaculture conditions significantly alters some, but not all, aspects of cardiac anatomy and physiology. This review focuses on the responses of cardiac physiology and anatomy to these challenges, highlighting where applicable, the importance of hyperplastic (i.e. the production of new cells) vs hypertrophic (the enlargement of existing cells) growth to the adaptive response of the heart. In addition, we summarize recent studies that have explored the relationship between the myocardial protection afforded by preconditioning and myocardial hypoxia tolerance. This latter research clearly demonstrates the capacity of the fish heart to adjust to short-term perturbations, and shows that it can be difficult to predict how short-term and long-term alterations in cardiac physiology will interact.
Robust Self-Healing Concrete for Sustainable Infrastructure (2012)

This article introduces the concept of self-healing concrete for sustainable infrastructure through reduction of maintenance and repair in the use phase. To realize this goal, self-healing must observe at least six robustness criteria - long shelf life, pervasive, quality, reliable, versatile, and repeatable. Five broad categories of self-healing approaches, namely chemical encapsulation, bacterial encapsulation, mineral admixtures, chemical in glass tubing, and intrinsic healing with self-controlled tight crack width, are evaluated against the robustness criteria. It is suggested that while significant progress has been made over the last decade in laboratory studies, important knowledge gaps must be filled in all categories of self-healing approaches to attain the goal of smart sustainable infrastructures that possess self-repair capability in the field.
Sensitivity and Stability Enhancement of Surface Plasmon Resonance Biosensors based on a Large-Area Ag/MoS2 Substrate (2019)

Surface plasmon resonance (SPR) sensors based on a silver film suffer from signal degradation due to silver oxidation in aqueous sensing environments. To overcome this limitation, we fabricated the planar plasmonic substrate employing an atomic MoS<sub>2</sub> layer on a silver surface. Successful production of a large-area MoS<sub>2</sub> monolayer blocks the penetration of oxygen and water molecules. In addition, we theoretically and experimentally found that MoS<sub>2</sub> layer on the silver film can improve the SPR sensitivity and stability significantly. In this study, the proposed SPR substrate has the potential to provide highly enhanced sensor platforms for surface-limited molecular detections.
A 3.4-mW 2.4-GHz frequency synthesizer in 0.18 &#x00B5;m CMOS (2009)

This paper presents a low-power/low-voltage frequency synthesizer for the frequency of 2.4 GHz, which were designed and fabricated in a standard 0.18 mum CMOS process. This synthesizer is based on a phase-locked loop (PLL) with a integer divider in the feedback loop and for a voltage supply of only 1.8 V, it presents a total power consumption of 3.4 mW. The power consumptions for the voltage-controlled oscillator, phase-frequency difference/charge-pump and for the divider are 2 mW, 1 mW, 420 muW, respectively. The PLL is very fast, e.g., it takes only 1.6 mus to lock, which makes it a perfect companion for devices where frequency hops must be done very quickly.
Calcium binding and translocation properties of glucagon and its fragments (1993)

Earlier studies have indicated that the N- and C-terminal regions of glucagon are functionally and structurally different. We have sought to understand this distinction in terms of the interaction of glucagon and its N- and C-terminal fragments with Ca2+, Mg2+, and Zn2+ in a nonpolar milieu. CD spectral data, in 98% (v/v) trifluoroethanol in water, reveal two binding sites for Ca2+ and Mg2+ and one site for Zn2+ in the intact hormone as well as in the C-terminal 19-29 fragment. The 1-6 fragment did not bind Zn2+ and formed a 2:1 peptide-Ca2+ or -Mg2+ complex. With glucagon and the 19-29 fragment, cation binding caused changes in the peptide's helix content. Fluorescence spectral changes involving Trp-25 in the 19-29 fragment and Trp-25 and Tyr-10 and/or Tyr-13 in glucagon were seen on Ca2+ binding to one of the two sites, while Zn2+ binding produced no change in fluorescence. The spectral data suggest that Ca2+ and Zn2+ binding sites (with Kd in the micromolar range in 98% trifluoroethanol) are distinct and are contained in the C-terminal domain of glucagon. Glucagon and the 19-29 fragment, but not the 1-6 fragment, caused an influx of Ca2+ (as monitored by spectral changes in arsenazo III) in unilamellar vesicles made of dimyristoyllecithin. Leakage of vesicle contents induced by the 19-29 fragment was minimal but was significant (approximately 10%) in the case of glucagon. The transport data suggest an interaction of the C-terminal domain of glucagon with Ca2+ at the lipid-water interface.(ABSTRACT TRUNCATED AT 250 WORDS)
Supplementary Figure 2 from CCR5 Antagonist Blocks Metastasis of Basal Breast Cancer Cells (2023)

&lt;p&gt;PDF file - 104K, Heat map of CCL5 expression and is receptors CCR5, CCR1 and CCR3&lt;/p&gt;
Suspended Matter and Hydrocarbons Fluxes in the Kara and Laptev Seas (2022)

The distribution of suspended particulate matter (SPM) by filtration and the magnitude of its fluxs using sediment traps in the Kara and Laptev Seas (cruise 72 of the R/V Akademik Mstislav Keldysh, August–September 2018) was studied. The composition of the SPM was determined by the material composition using an electron microscope, the organic component (Corg and hydrocarbons) and the inorganic component (amorphous silica and calcium carbonate). It was found that the SPM content in surface waters varied from 0.2 to 5.9 mg/L (on average 0.90 mg/L) with a maximum in the Blagopolychia Bay and aliphatic hydrocarbons from 10 to 49 µg/L (average 22 µg/L) with a maximum in the area of the removals of the river Ob. The SPM flux decreased from the surface to the near-bottom horizon only into the Blagopolychia Bay (from 13,127 to 11,900 mg/m2/day), but in most samples the flux increased in the near-bottom horizon with a maximum of 6920 mg/m2/day in the Ob’s discharge water area and correlated with the maximum of the Corg flux 695 mg/m2/day. In the composition of SPM, as well as in organic compounds, including hydrocarbons, allochthonous basically prevailed over autochthonous.
Implication of trans-11,trans-13 conjugated linoleic acid in the development of hepatic steatosis (2018)

The trans-11,trans-13 conjugated linoleic acids can stimulate hepatic lipogenesis, which supports the conclusion that gut microbiota and related metabolites should be considered in the treatment of non-alcoholic liver disease.
Soluble isoforms of starch synthase and starch‐branching enzyme also occur within starch granules in developing pea embryos (1993)

Developing wild-type pea embryos contain two major isoforms of starch synthase and two isoforms of starch-branching enzyme. One of the starch synthases and both starch-branching enzymes occur both in the soluble fraction and tightly bound to starch granules. The other starch synthase, which is very similar to the waxy proteins of other species, is exclusively granule-bound., It is inactive when solubilized in a native form from starch granules, but activity is recovered when the SDS-denatured protein is reconstituted from polyacrylamide gels. Evidence is presented which indicates that all of these proteins become incorporated within the structure of the granule as it grows. It is proposed that the granule-bound waxy protein is active in vivo at the granule surface, whereas the remaining proteins are active in the soluble fraction of the amyloplast. The proteins become trapped within the granule matrix as the polymers they synthesize crystallize around them, and they probably play no further part in polymer synthesis.
ChemInform Abstract: Insect Pheromone Synthesis Using Mn‐Salen Catalyzed Asymmetric Epoxidation as a Key Step. (1996)

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.
1,3-CARBANIONISCHE UMLAGERUNGEN SYNTHESE VON BIS(o-HYDROXYARYL)- PHOSPHORVERBINDUNGEN (1989)

Abstract Phosphonic acid bis(o-haloarylesters) as well as the corresponding phosphoric acid derivatives are reacted with sodium giving bis(o- hydroxyaryl)phosphinoxides and phosphonic acid esters or amides, resp. The primary metallation products undergo rapid 1,3-carbanionic rearrangements. Magnesium may also be used as metallating agent if activated by means of anthracen in THF. Key Words: Metallation rearrangementshydroxyaryl phosphinesphosphonic acid estersphosphonic acid amides