gebhart/patrepeval huggingface dataset:
Asymmetric Synthesis of Oxazolidine Nucleosides and Related Chemistry (1998)

Asymmetric synthesis of N-substituted oxazolidinyl nucleosides has been accomplished from L-isoserine, trans- and cis-Oxazolidine intermediates (4 and 5) were stereoselectively constructed from N-protected L-isoserine with a menthoxycarbonyl group by the condensation with benzoyloxy acetaldehyde dimethyl acetal in a ratio of 3.9 to 1 in favor of trans-isomer 4. The major isomer 4 was converted to enantiomerically pure beta- and alpha-N-L-menthoxycarbonyl oxazolidinyl thymine nucleosides 11 and 12 in 6 steps.
Alanine Scanning Mutagenesis of the Switch I Region in the ATPase Site of Dictyostelium discoideum Myosin II (1997)

In order to determine the functional roles of the conserved sequence (NXNSSRFG) of the "switch I" loop (residues 233-240 in Dictyostelium myosin II), alanine scanning mutagenesis was performed on Dictyostelium myosin II. N233A and S237A mutant myosins did not bind a fluorescent analog of ADP, mant-deoxyADP, at the low concentration range (micromolar and had low level of ATPase activities. They were nonmotile when examined by the in vitro motility assay. Dictyostelium cells expressing these myosins showed worse phenotypes than that of myosin-null cells. In contrast to these mutant myosins, R238A myosin tightly bound mant-deoxyADP. However, the mutant had a defect in the ATP hydrolysis step and exhibited the lowest ATPase activities among the mutants examined here. The R238A myosin was nonmotile. R238C or R238H mutations, which mimic the Usher syndrome mutations, generated myosins with similar functional defects to those of the R238A mutation. Cells expressing the R238A myosin exhibited the phenotype similar to that of the myosin-null cells. N235A, S236A, F239A, and G240A myosins retained moderate levels of ATPase activities and could drive sliding of actin filaments at various speeds. Phenotypes of cells expressing them were very similar to that of the wild-type cells. Taken together, these results suggest that side chains of N233 and S237 may play essential roles in holding a nucleotide in the ATPase pocket and that R238 may play crucial roles in the ATP hydrolysis step, while those of the other residues in the switch I loop are not essential for the process.
DJ-1/PARK7 is an important mediator of hypoxia-induced cellular responses (2009)

In cancer, DJ-1/PARK7 acts as an oncogene that drives Akt-mediated cell survival. Although amplification of DJ-1 has been described in several types of tumors, the mechanistic basis of DJ-1's oncogenic effect remains incompletely understood. A tumor's ability to adapt to hypoxia is absolutely critical for its survival and progression, and this adaptation is largely mediated by the transcription factor HIF1. The stabilization of HIF1 subunits during hypoxia is at least partly dependent on the PI3K/Akt/mTOR pathway. We hypothesized that DJ-1, a positive regulator of Akt when over-expressed, might be involved in regulating HIF1 transcriptional activity under hypoxic conditions. Our results show that loss of DJ-1 in human cell lines and transformed mouse fibroblasts decreases the transcription of a variety of HIF1-responsive genes during hypoxia. Moreover, DJ-1 expression is critical for the Akt and mTOR activities that sustain HIF1 stability. Surprisingly, DJ-1 also regulates the activity of the metabolic sensor AMPK, especially during hypoxia. Finally, DJ-1 appears to protect cells against hypoxia-induced cell death and is required for their adaptation to severe hypoxic stress. Our work positions DJ-1 as an upstream activator of HIF1 function in cancer cells and establishes that DJ-1's oncogenic activity stems from its ability to increase a cell's resistance to hypoxic stress through DJ-1's regulatory effects on mTOR and AMPK. The discovery of these functions of DJ-1 strengthens the case for the development of therapeutics that target DJ-1 activity in cancer cells.
Notice of Removal Non-destructive cross-sectional imaging of tomato using ultra-high resolution optical coherence tomography (2015)

Optical coherence tomography is an optical imaging technique that performs non-destructive cross-sectional imaging of micrometer-scale structures in samples. In this report, we demonstrated the visualization of inner structures in tomato fruits and leaves with ultra-high resolution optical coherence tomography (UHR-OCT) using fiber based laser source with ultra-broadband continuous spectrum around 1.7 μm wavelength. We confirmed that our UHR-OCT system allows us to perform cross-sectional imaging of tomato fruits and leaves at ~ 2.8 μm axial resolution.
Methyl-SNP-seq reveals dual readouts of methylome and variome at molecule resolution (2022)

Abstract Covalent modifications of genomic DNA are crucial for most organisms to survive. Amplicon-based high throughput sequencing technologies erase all DNA modifications to retain only sequence information for the four canonical nucleobases, necessitating specialized technologies for ascertaining epigenetic information. To also capture base modification information, we developed Methyl-SNP-seq, a technology that takes advantage of the complementarity of the double helix to extract the methylation and original sequence information from a single DNA molecule. More specifically, Methyl-SNP-seq uses bisulfite conversion of one of the strands to identify cytosine methylation while retaining the sequence of the other strand. As both strands are locked together to link the dual readouts on a single paired-end read, Methyl-SNP-seq allows detecting methylation status of any DNA even without a reference genome. Because one of the strands retains the original 4 nucleotide composition, Methyl-SNP-seq can also be used in conjunction with standard sequence-specific probes for targeted enrichment and amplification. We demonstrate the usefulness of this technology in a broad spectrum of applications ranging from allele-specific methylation analysis in humans to identification of methyltransferase specificity in complex bacterial communities.
Chemical Equilibrium by Gibbs Energy Minimization on Spreadsheets (2000)

This paper describes the use of Solver function, contained in the Microsoft Excel spreadsheetpackage, in computing the chemical equilibrium of known substances in either an ideal or non-idealgas phase by the method of direct Gibbs energy minimization. Apart from some deficiency of Solverin applying the generalized reduced gradient method for this type of problem, the approach is simpleto understand and apply and provides a direct solution procedure whereas the traditional approachoften employs a high-level programming language. The results are compared with those obtained bya Fortran program, and found to be in satisfactory agreement.
Commentary on ‘Dissecting the hemagglutinin head and stalk specific IgG antibody response in healthcare workers following pandemic H1N1 vaccination’ (2016)

Commentary on ‘Dissecting the hemagglutinin head and stalk specific IgG antibody response in healthcare workers following pandemic H1N1 vaccination’
Bandwidth allocation in view of EMI on medical equipments in healthcare monitoring systems (2011)

To enhance the capacity of patients supported by in-hospital wireless monitoring systems, a bandwidth allocation scheme for the transmission of medical data in the WLAN is proposed. The problem of bandwidth allocation, subject to limited wireless bandwidth, quality of service (QoS) requirements of medical data transmission, and electromagnetic interference is modeled as an optimization problem. To solve this problem, we propose an algorithm based on genetic theory and analyze the computation time of this algorithm. Finally, based on this algorithm, we analyze the capacity of patients supported by the monitoring system.
Optical Coherence Elastography for Non-Invasive Monitoring of Tumor Elasticity under Chemotherapy: Pilot Study (2018)

The aim of the study was to evaluate a novel non-invasive method -optical coherence elastography (OCE) -for detecting early changes in the elasticity of tumor tissue in response to chemotherapy.
ChemInform Abstract: FREE RADICAL ANNULATION IN THE SYNTHESIS OF BICYCLIC β‐LACTAMS. 4. EXO VS. ENDO CYCLIZATIONS IN THE CONSTRUCTION OF THE (.+‐.)‐1‐OXACEPHAM AND (.+‐.)‐1‐OXAHOMOCEPHAM SYSTEMS (1983)

Abstract Es wird die Herstellung von (iH‐Oxacephamen wie (XVla) und (XVIb) sowie von (il‐1‐Oxahomocephamen wie (X) aus geeigneten nicht anel‐ lierten β‐Lactamen beschrieben, wobei die regiochemisch kontrollierte intramoIekulare Addition als entscheidender Reaktionsschritt über radikalische Zwischenstufen erfolgt.
Long-Term Follow-Up of Patients Receiving Neoadjuvant Treatment Modalties for Soft Tissue Sarcomas of the Extremities (2021)

Multimodal treatment strategies in patients with STS of extremities lead to excellent oncological outcomes. Patients with high-risk STS had a significantly better MFS when receiving NT than patients with low-risk STS. NT was associated with a higher probability of postoperative but well-manageable complications.
Single Axon Branching Analysis in Rat Thalamocortical Projection from the Anteroventral Thalamus to the Granular Retrosplenial Cortex (2011)

The granular retrosplenial cortex (GRS) in the rat has a distinct microcolumn-type structure. The apical tufts of dendritic bundles at layer I, which are formed by layer II neurons, co-localize with patches of thalamic terminations from anteroventral (AV) thalamic nucleus. To further understand this microcolumn-type structure in the GRS, one of remaining questions is whether this structure extends into other layers, such as layers III/IV. Other than layer I, previous tracer injection study showed that AV thalamic nucleus also projects to layer III/IV in the GRS. In this study, we examined the morphology of branches in the GRS from the AV thalamus in single axon branch resolution in order to determine whether AV axon branches in layer III/IV are branches of axons with extensive branch in layer I, and, if so, whether the extent of these arborizations in layer III/IV vertically matches with that in layer I. For this purpose, we used a small volume injection of biotinylated dextran-amine into the AV thalamus and reconstructing labeled single axon branches in the GRS. We found that the AV axons consisted of heterogeneous branching types. Type 1 had extensive arborization occurring only in layer Ia. Type 2 had additional branches in III/IV. Types 1 and 2 had extensive ramifications in layer Ia, with lateral extensions within the previously reported extensions of tufts from single dendritic bundles (i.e., 30-200 μm; mean 78 μm). In type 2 branches, axon arborizations in layer III/IV were just below to layer Ia ramifications, but much wider (148-533 μm: mean, 341 μm) than that in layer Ia axon branches and dendritic bundles, suggesting that layer-specific information transmission spacing existed even from the same single axons from the AV to the GRS. Thus, microcolumn-type structure in the upper layer of the GRS was not strictly continuous from layer I to layer IV. How each layer and its components interact each other in different spatial scale should be solved future.
Partial Resuscitative Endovascular Balloon Occlusion of the Aorta in Swine Model of Hemorrhagic Shock (2016)

In a porcine hemorrhagic shock model, P-REBOA resulted in more physiologically tolerable hemodynamic and ischemic changes compared with C-REBOA. Additional work is needed to determine whether the benefits associated with P-REBOA can both extend the duration of intervention and increase survival.
Finite Amplitude Sound Waves (1953)

Exact solutions of the one-dimensional gas dynamic equations, representing periodic sound waves of finite amplitude, are obtained for a particular medium. The progressive wave from a vibrating piston and the standing wave in a closed tube are examined in detail. Limits on the amplitude of the sound wave are found in order to avoid shocks or cavitation.
PALB2 germline mutations in a large cohort of Middle Eastern breast-ovarian cancer patients (2023)

The PALB2 gene is a breast cancer (BC) and ovarian cancer (OC) predisposition gene involved in the homologous recombination repair pathway. However, the prevalence and clinicopathological association of PALB2 pathogenic/likely pathogenic (PV/LPV) variants in Middle East is still not fully explored. Total 918 BC/OC patients from Saudi Arabia were selected for PALB2 mutations screening using capture sequencing technology. Five heterozygous PVs or LPVs were identified in six cases, accounting for 0.65% (6/918) of entire cohort. Two cases (33.3%) harbored PVs and four cases (66.7%) carried LPVs. Four PVs/LPVs (80%) were frameshift along with one novel splicing LPV (c.2835-2_2835-1delinsTT). One recurrent LPV (c.3425delT: p.L1142fs) was identified in two cases. All six affected carriers have breast cancer diagnosis with median age of 39.5 years (range 34-49 years). Only two cases (33%) have documented family history of cancer. Breast cancer phenotype was invasive ductal unilateral cancer in all cases with 66.7% of hormone receptor positive and 16% of triple negative tumors. Germline PVs/LPVs in the PALB2 gene were observed in low frequency of 0.65% in Saudi BC and/or OC. Our study confirms one recurrent LPV and one novel LPV in Saudi breast cancer patients.
Cholanamide components for organic alloys; expanding the scope of nanoporous steroidal ureas (2014)

Amide-linked side-chains can substitute for esters in crystalline nanoporous steroidal ureas (NSPUs). This efficient conjugation method increases the versatility of NPSUs, and should aid the inclusion of complex functional units in the crystal channels.
Controlling H atom production in the 193 nm laser photolysis of triethylarsenic (1991)

We report on the production of atomic hydrogen subsequent to the 193 nm photolysis of triethylarsenic (TEAs) using an excimer laser. The H atoms are probed via two-photon (121.6+364.7 nm) ionization, and the resulting H atom Doppler profile at Lyman-α is presented. Photolysis power dependence studies demonstrate that substantial H atom formation occurs at relatively low laser powers. However, the H atom signal actually begins to diminish as the photolysis laser power is increased beyond ∼70 MW/cm2. Correlations with time-of-fight mass spectral data suggest that ion channels are being accessed. The possible mechanisms for TEAs excitation that lead to H atom formation/depletion are presented, and the implications of these observations on controlling carbon incorporation in the laser-enhanced growth of films of GaAs, AlGaAs, etc. are discussed.
Switchable Frequency Selective Surface Based on Polydimethyl-siloxane Composite Flexible Substrate for WLAN and 5G Sub-6GHz Applications (2022)

A switchable frequency selective surface (FSS) based on Polydimethyl-siloxane (PDMS) composite flexible substrate has been assessed by comparing it with its rigid counterpart is presented in this paper. To realize FSS as switchable, various switching combinations are investigated. The design demonstrates a stop-band and pass-band response. In pass-band it shows single wide band and dual band response. From the bending analysis of the proposed FSS, less variation are observed when the FSS sheet is bend along the H-field direction, whereas minor variations are observed when the FSS sheet is bend along the E-field direction. The flexible substrate design results show a good agreement with the rigid design and the added value of flexibility makes it suitable for 2.4GHz/5.8GHz WLAN and 5G sub-6GHz applications operating in 3.3-4.2 GHz and 4.5-4.9 GHz bands.
Leon Lutaud 28 novembre 1883-12 fevrier 1964 (1965)

Other| January 01, 1965 Leon Lutaud 28 novembre 1883-12 fevrier 1964 Jean Aubouin; Jean Aubouin Author Search for other works by this author on: GSW Google Scholar Jan H. Brunn; Jan H. Brunn Author Search for other works by this author on: GSW Google Scholar Louis Dubertret Louis Dubertret Author Search for other works by this author on: GSW Google Scholar Author and Article Information Jean Aubouin Author Jan H. Brunn Author Louis Dubertret Author Publisher: Société Géologique de France First Online: 03 Oct 2017 Online Issn: 1777-5817 Print Issn: 0037-9409 GeoRef, Copyright 2015, American Geosciences Institute. Bulletin de la Société Géologique de France (1965) S7-VII (4): 621–630. https://doi.org/10.2113/gssgfbull.S7-VII.4.621 Article history First Online: 03 Oct 2017 Cite View This Citation Add to Citation Manager Share Icon Share Facebook Twitter LinkedIn MailTo Tools Icon Tools Get Permissions Search Site Citation Jean Aubouin, Jan H. Brunn, Louis Dubertret; Leon Lutaud 28 novembre 1883-12 fevrier 1964. Bulletin de la Société Géologique de France 1965;; S7-VII (4): 621–630. doi: https://doi.org/10.2113/gssgfbull.S7-VII.4.621 Download citation file: Ris (Zotero) Refmanager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentBy SocietyBulletin de la Société Géologique de France Search Advanced Search This content is PDF only. Please click on the PDF icon to access. First Page Preview Close Modal You do not have access to this content, please speak to your institutional administrator if you feel you should have access.
Expression Cloning of the STRL33/BONZO/TYMSTR Ligand Reveals Elements of CC, CXC, and CX3C Chemokines (2001)

STRL33/BONZO/TYMSTR is an orphan chemokine and HIV/SIV coreceptor receptor that is expressed on activated T lymphocytes. We describe an expression cloning strategy whereby we isolated a novel chemokine, which we name CXCL16. CXCL16 is an alpha (CXC) chemokine but also has characteristics of CC chemokines and a structure similar to fractalkine (neurotactin) in having a transmembrane region and a chemokine domain suspended by a mucin-like stalk. A recombinant version of CXCL16 fails to mediate chemotaxis to all known chemokine receptor transfectants tested but does mediate robust chemotaxis, high affinity binding, and calcium mobilization to Bonzo receptor transfectants, indicating that this is a unique receptor ligand interaction. In vitro polarized T cell subsets including Th1, Th2, and Tr1 cells express functional Bonzo, suggesting expression of this receptor in chronic inflammation, which we further verified by demonstration of CXCL16-mediated migration of tonsil-derived CD4(+) T lymphocytes. CXCL16 is expressed on the surface of APCs including subsets of CD19(+) B cells and CD14(+) monocyte/macrophages, and functional CXCL16 is also shed from macrophages. The combination of unique structural features of both Bonzo and CXCL16 suggest that this interaction may represent a new class of ligands for this receptor family. Additionally, this chemokine might play a unique dual role of attracting activated lymphocyte subsets during inflammation as well as facilitating immune responses via cell-cell contact.
Two methods for full-length RNA sequencing for low quantities of cells and single cells (2012)

The ability to determine the gene expression pattern in low quantities of cells or single cells is important for resolving a variety of problems in many biological disciplines. A robust description of the expression signature of a single cell requires determination of the full-length sequence of the expressed mRNAs in the cell, yet existing methods have either 3' biased or variable transcript representation. Here, we report our protocols for the amplification and high-throughput sequencing of very small amounts of RNA for sequencing using procedures of either semirandom primed PCR or phi29 DNA polymerase-based DNA amplification, for the cDNA generated with oligo-dT and/or random oligonucleotide primers. Unlike existing methods, these protocols produce relatively uniformly distributed sequences covering the full length of almost all transcripts independent of their sizes, from 1,000 to 10 cells, and even with single cells. Both protocols produced satisfactory detection/coverage of the abundant mRNAs from a single K562 erythroleukemic cell or a single dorsal root ganglion neuron. The phi29-based method produces long products with less noise, uses an isothermal reaction, and is simple to practice. The semirandom primed PCR procedure is more sensitive and reproducible at low transcript levels or with low quantities of cells. These methods provide tools for mRNA sequencing or RNA sequencing when only low quantities of cells, a single cell, or even degraded RNA are available for profiling.
The Assessment of Local Tolerance, Acute Toxicity, and DNA Biodistribution Following Particle-Mediated Delivery of a DNA Vaccine to Minipigs (2002)

Particle-mediated DNA delivery was used to administer a DNA vaccine against Hepatitis B to minipigs. The study represented one arm of the safety evaluation program for this product and was designed to assess local tolerance, acute toxicity, and biodistribution of the DNA plasmid. The vaccine was given to 4 groups of minipigs that were sacrificed at 2, 28, 56, or 141 days after treatment. The procedure was well tolerated with mild local skin reactions at 2 days postdosing and no evidence of systemic toxicity. By 28 days the skin lesions had regressed apart from a low grade perivascular mononuclear cell infiltrate in the upper dermis, together with a small number of phagocytosed gold particles. This infiltrate persisted up to 141 days. The expressed HBsAg was detected by immunohistochemistry in keratinocytes (usually in association with an intranuclear gold particle) at 2 days but not at later time points. Polymerase chain reaction (PCR) was used to assay treatment sites and selected internal organs to evaluate biodistribution and persistence of the DNA plasmid. At 2 days the plasmid was detected in the treatment sites and also in the inguinal lymph nodes. At day 57 it was present in the treatment sites only and by day 141 appeared to have cleared. The results from this study demonstrate that particle-mediated gene delivery was well tolerated in the minipig. The biodistribution and persistence of the plasmid was within acceptable limits for this type of vaccine. As the minipig is regarded as a good model for humans these data support the concept that particle-mediated DNA delivery will be safe in human clinical applications.
Modeling for RF noise suppressor using a magnetic film on coplanar transmission line (2003)

A finite-element method is applied to analyze the electromagnetic field and loss generation of a soft magnetic thin film on a coplanar transmission line for which the dimension of the magnetic film is designed to control the center frequency and bandwidth of the radio-frequency (RF) electromagnetic noise attenuation in the gigahertz range without external applied magnetic fields. The coplanar transmission line with characteristic impedance of 50 /spl Omega/ has total width, width of signal line, and thickness of 400, 50, and 3 /spl mu/m, respectively. The change of the magnetic field distribution, the induced surface current density on the coplanar transmission line, and hence the RF noise suppression by soft magnetic films are significant as a function of the width (50-2000 /spl mu/m) and thickness (0.1, 0.3, 0.5, and 1 /spl mu/m) of the magnetic film.