gebhart/patrepeval huggingface dataset:
Affinity Precipitation of Proteins by Surfactant‐Solubilized, Ligand‐Modified Phospholipids (1992)

The use of ligand-modified phospholipids solubilized in aqueous solution by nonionic surfactant for affinity precipitation of proteins is described. Avidin was precipitated by contact with solutions in which dimyristoylphosphatidylethanolamine (DMPE) functionalized with biotin (DMPE-B) was solubilized in octaethylene glycol mono-n-dodecyl ether (C12E8) solutions. The nonionic surfactant solubilizes the phospholipid in micelles above its critical micelle concentration (CMC) and in small submicellar aggregates below this concentration. At C12E8 concentrations significantly exceeding its CMC, determined to be about 100 microM, precipitation of avidin by solubilized DMPE-B is not observed. In this regime, binding of protein by DMPE-B was monitored by a hyperchroic shift in the protein's UV-visible spectrum at 231.5 nm. The data were analyzed using a model that considers the four binding sites on the protein to be independent and identical in binding strength for DMPE-B. Below the CMC of C12E8, precipitation is observed and is monitored by increasing turbidity of the solution. The kinetics of precipitation and the aggregate size measured by quasielastic light scattering were analyzed using Smoluchowski kinetics and the Mie scattering theory. These results help establish more completely the factors that influence the precipitation of proteins by ligand-modified phospholipids, and they are helpful in specifying conditions for the precipitation of other proteins.
Quantum Simulation of Time-Dependent Hamiltonians and the Convenient Illusion of Hilbert Space (2011)

We consider the manifold of all quantum many-body states that can be generated by arbitrary time-dependent local Hamiltonians in a time that scales polynomially in the system size, and show that it occupies an exponentially small volume in Hilbert space. This implies that the overwhelming majority of states in Hilbert space are not physical as they can only be produced after an exponentially long time. We establish this fact by making use of a time-dependent generalization of the Suzuki-Trotter expansion, followed by a well-known counting argument. This also demonstrates that a computational model based on arbitrarily rapidly changing Hamiltonians is no more powerful than the standard quantum circuit model.
An X-ray Absorption Spectroscopy Study of the Cathodic Discharge of Ag2VO2PO4: Geometric and Electronic Structure Characterization of Intermediate phases and Mechanistic Insights (2011)

Bimetallic phosphorus oxides have emerged as attractive candidates for use as cathode materials in the next generation of lithium-based batteries owing to the operation of multielectron transfer processes and thermochemical stabilities conferred by the incorporation of phosphate groups. In particular silver vanadium phosphorus oxide, Ag2VO2PO4, shows a much desired in situ conductivity enhancement upon discharge resulting in inherently high power capability with minimal conductive additives needed. However, the amorphization of Ag2VO2PO4 during electrochemical discharge precludes the use of standard diffraction tools to monitor changes in the local electronic and geometric structure. Here, we have utilized a combination of V K-, V L-, Ag K-, and O K-edge X-ray absorption fine structure spectroscopy to determine the local vanadium and silver oxidation states, local coordination geometry, and stoichiometry for Ag2VO2PO4 samples with varying extents of electrochemical lithiation. Soft X-ray V L- and O K-edge measurements provide a detailed orbital-specific picture of changes in vanadium electronic structure upon discharge.
PERFORMANCE SPECIFICATIONS FOR THE NECK OF A MOTORCYCLIST ANTHROPOMETRIC TEST DUMMY (1996)

A standard reearch methodology for comparing the performance of various motorcyclist crash protection devices such as airbags and leg protectors has been developed under the auspices of the International Standards Organization, ISO/TC22/SC22/WG22. This methodology employs an Anthropometric Test Device, ATD, specially designed to represent a motorcyclist. Based on the Hybrid III, it incorporates several special features specific to this application. Among these is a neck which includes several unique performance specifications. Foremost among these requirements is the recognition that the initial head-neck orientation of the motorcyclist is both different from the automobile occupant and will vary from vehicle to vehicle. Secondly, the helmeted head of the motorcyclist ATD will be subjected to inertial and impact loading not only in the fore-aft direction, but also laterally. Finally, the head and neck will be subjected to torsional loading. Some of these requirements have been incorporated in Draft International Standard 13232. Others need further development particularly if the dummy is to be used for motorcycle airbag research. This paper discusses how current biomechanical specifications for frontal and side impact automotive ATDs are applied to this special application. Additionally, new specifications for neck torsional response are proposed. A set of general criteria for these has been proposed and accepted by the relevant technical committees and could form the basis for possible neck development. [A] For the covering abstract, see IRRD 896528.
Oxygen transfer from iron oxoporphyrins to ethylene. A semiempirical MO/VB approach (1986)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTOxygen transfer from iron oxoporphyrins to ethylene. A semiempirical MO/VB approachA. Sevin and M. FontecaveCite this: J. Am. Chem. Soc. 1986, 108, 12, 3266–3272Publication Date (Print):June 1, 1986Publication History Published online1 May 2002Published inissue 1 June 1986https://pubs.acs.org/doi/10.1021/ja00272a020https://doi.org/10.1021/ja00272a020research-articleACS PublicationsRequest reuse permissionsArticle Views73Altmetric-Citations20LEARN 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
Long-Term Dose Response of Trabecular Bone in Mice to Proton Radiation (2008)

Astronauts on exploratory missions will experience a complex environment, including microgravity and radiation. While the deleterious effects of unloading on bone are well established, fewer studies have focused on the effects of radiation. We previously demonstrated that 2 Gy of ionizing radiation has deleterious effects on trabecular bone in mice 4 months after exposure. The present study investigated the skeletal response after total doses of proton radiation that astronauts may be exposed to during a solar particle event. We exposed mice to 0.5, 1 or 2 Gy of whole-body proton radiation and killed them humanely 117 days later. Tibiae and femora were analyzed using microcomputed tomography, mechanical testing, mineral composition and quantitative histomorphometry. Relative to control mice, mice exposed to 2 Gy had significant differences in trabecular bone volume fraction (-20%), trabecular separation (+11%), and trabecular volumetric bone mineral density (-19%). Exposure to 1 Gy radiation induced a nonsignificant trend in trabecular bone volume fraction (-13%), while exposure to 0.5 Gy resulted in no differences. No response was detected in cortical bone. Further analysis of the 1-Gy mice using synchrotron microCT revealed a significantly lower trabecular bone volume fraction (-13%) than in control mice. Trabecular bone loss 4 months after exposure to 1 Gy highlights the importance of further examination of how space radiation affects bone.
Rheological and physical properties of polyarylate/LCP blend systems (1993)

Abstract A polyarylate Unitika U‐Polymer 100 (PAR) was melt blended with a thermotropic liquid crystalline polymer (LCP) Vectra A950, and the processingmorphology‐properties relations were investigated. Inclusion of LCP slightly reduced T g of PAR. The PAR/LCP blend with the LCP content higher than 50 wt% exhibited a noticeable yield stress, particularly in the vicinity of crystal‐to‐nematic transition temperature ( T cn ). LCP lowered the blend viscosity above T cn and seemed to play a role as processing aid. The tensile strength of the blends was increased with increasing spin draw ratio and level of LCP, and the spinning temperature influenced tensile strength. The relaxation behavior under dynamic shear and resultant blend morphology based on WAXD and SEM analyses are discussed as well.
Fluorescent Polyurethane Nanocapsules Prepared via Inverse Miniemulsion: Surface Functionalization for Use as Biocarriers (2009)

The functionalization of well-defined PU nanocapsules with an aqueous core prepared by performing a polyaddition at the interface of inverse (water-in-oil) miniemulsion droplets is demonstrated. The miniemulsion technique involving the nanoreactor concept allows one to obtain an encapsulation efficiency as high as 90% within the nanocapsules. A pH independent fluorescent dye is used as a model system for the aqueous core. By varying the molar ratio of the diol to the diisocyanate at a fixed surfactant concentration, the shell thickness of the nanocapsules can be finely tuned. The carboxy- and amino-functionalized surface of the nanocapsules can be tailored by an in-situ carboxymethylation reaction and by physical adsorption of a cationic polyelectrolyte, i.e. PAEMA or PEI. The increased uptake of amino-functionalized fluorescent nanocapsules by HeLa cells clearly demonstrates the potential of the functionalized nanocapsules to be successfully exploited as biocarriers.
Very Wide Band Satellite Transmissions for Emergency Situations (2008)

This paper presents an emergency communication system based on a regenerative payload, added as a piggy back onboard a broadband telecommunication satellite. The emergency system does not require the reservation of specific radio resources for the user link, as the signals are spread over a very wide band and superposed to the primary system transmissions using the same frequency band. The emergency system is dimensioned so as to be invisible, from the primary system point of view. The affordable forward- and return-link performances of the emergency system are evaluated, considering man-pack transportable terminals and handset terminals.
Abstract 3771: Oncogenes and tumour-suppressors drive differential retinoblastoma evolution (2019)

Abstract Unlike any other tumour type, retinoblastomas can be driven by only two tumour-initiating events: bi-allelic loss of the tumour suppressor RB1 or amplification of the MYCN oncogene. These mutations drive morphologically indistinguishable tumours that arise at different ages, providing a unique model system to evaluate the influence of initiating mutation on tumour evolution. We performed high-resolution copy number analysis of 101 retinoblastoma and whole genome sequencing of 23. These data reveal that different initiating mutations cause probabilistic changes in somatic point and copy number mutations, but large changes in genomic rearrangements and mitochondrial number. Independent of the initiating mutation, retinoblastomas harbour multiple subclonal populations that preferentially accrue point mutations after subclonal diversification. These subclonal structures suggest caution when choosing chemotherapeutic strategies for primary treatment. Overall, initiating mutations influence evolutionary trajectory more than specific driver mutations: RB1- and MYCN-driven tumours harbour distinct mutational processes, sequences of mutation acquisition and patterns of subclonal diversification. These data show how tumour-initiating mutations drive clinical behaviour by subtly biasing multiple evolutionary processes. Validation in other tumour types is underway. Citation Format: Adriana Salcedo, John D. Watson, Hilary Racher, Diane Rushlow, Shadrielle Melijah G. Espiritu, Doroto H. Sendorek, Stephenie D. Prokopec, Donco Matveski, Fouad Yousif, Julie Livingstone, Brenda L. Gallie, Paul C. Boutros. Oncogenes and tumour-suppressors drive differential retinoblastoma evolution [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2019; 2019 Mar 29-Apr 3; Atlanta, GA. Philadelphia (PA): AACR; Cancer Res 2019;79(13 Suppl):Abstract nr 3771.
Supplementary Tables 1 - 7 from Genomic Analysis of Head and Neck Squamous Cell Carcinoma Cell Lines and Human Tumors: A Rational Approach to Preclinical Model Selection (2023)

&lt;p&gt;PDF file - 108K, Supplemental Table 1: Source, Clinical, and Pathological Features of Sequenced HNSCC Cell Lines Supplemental Table 2: Genes Mutated in &gt;50% in HNSCC Cell Lines Supplemental Table 3: TP53 Mutations in HNSCC Cell Lines Supplemental Table 4: The Numbers of HNSCC Cell Lines and Tumors Derived from Larynx, Oral Cavity and Pharynx Supplemental Table 5: Mutation Frequency Comparison by Gene. This table lists the results of the tests of significance for each of 23 genes ranked in order of p value. The unadjusted (raw) p value is listed along with the value after adjustment for false discovery. Supplemental Table 6: Genes Mutated in &gt;10% of HNSCC Tumors But Not Mutated in Human HNSCC Cell Lines Supplemental Table 7: EGFR Pathway Mutations in HNSCC Cell Lines and Tumors Note: HNSCC tumor samples marked with * are from the Agrawal et al database. All of the other tumor samples are from the Stransky et al database.&lt;/p&gt;
Exploring the oviductal fluid proteome by a lectin‐based affinity approach (2016)

The analysis of glycoproteins in body fluids represents a central task in the study of vital processes. Herein, we assessed the combined use of Concanavalin A and Wheat Germ Agglutinin as ligands to fractionate and enrich glycoproteins from oviductal fluid (OF), which is a source of molecules involved in fertilization. First, the selectivity was corroborated by a gel-based approach using glycoprotein staining and enzymatic deglycosylation. Nanoliquid chromatography-tandem mass spectrometry (nLC-ESI-MS/MS) further allowed the reliable identification of 134 nonbound as well as 130 lectin-bound OF proteins. Enrichment analysis revealed that 77% of the annotated proteins in the lectin-bound fraction were known glycoproteins (p-value [FDR] = 1.45E-31). The low variance of the number of peptide spectrum matches for each protein within replicates indicated a consistent reproducibility of the whole workflow (median CV 17.3% for technical replicates and 20.7% for biological replicates). Taken together, this study highlights the applicability of a lectin-based workflow for the comprehensive analysis of OF proteins and gives for the first time an insight into the broad glycoprotein content of OF.
Röntgentomografische Untersuchungen des rekonstruierten Mittelohres am Felsenbeinpräparat (2007)

Conventional tomography enables detailed anatomical imaging of the temporal bone region which outperforms conventional radiographic imaging, requires less irradiation dose than CT and helps avoid problems like metallic artefacts. This technique enhances immediate quality-control and seems to be therefore a promising tool for postoperative evaluation after reconstructive middle ear surgery.
Supplemental Figure 5 from Generation 2.5 Antisense Oligonucleotides Targeting the Androgen Receptor and Its Splice Variants Suppress Enzalutamide-Resistant Prostate Cancer Cell Growth (2023)

&lt;p&gt;Supplemental Figure 5. AR-V7 enhances AR transactivation in ENZ-R cells.&lt;/p&gt;
Supplementary Tables S1-S15 from Biomarker Accessible and Chemically Addressable Mechanistic Subtypes of BRAF Melanoma (2023)

&lt;p&gt;Supplemental Table S1. Genome-wide RNAi toxicity screen z-scores, related to Supplemental Figure S1, Supplemental Table S2. Percent DNA copy number gain in melanoma tumor samples compared to normal skin, related to Supplemental Figure S1, Supplemental Table S3. Melanoma panel siRNA toxicity, related to Supplemental Figure S1, Supplemental Table S4. Whole genome transcript profiles, related to Supplemental Figure S1, Supplemental Table S5. GISTIC analysis and expression correlation of candidate melanoma hits, related to Supplemental Figure S1, Supplemental Table S6. SOX10 ChIPSeq, related to Supplemental Figure S3, Supplemental Table S7. SOX10 ChIPSeq motif targets, related to Supplemental Figure S3, Supplemental Table S8. SOX10 ChIPSeq motif targets hypergeometric distribution analysis, related to Supplemental Figure S3, Supplemental Table S9. Whole genome transcript arrays with siRNAs, related to Supplemental Figure S3, Supplemental Table S10. Candidate SOX10 targets, related to Supplemental Figure S3, Supplemental Table S11. Expression correlations in patient samples, related to Supplemental Figure S3, Supplemental Table S12. Elastic net prediction scores, related to Figures 1, 2 and 3, Supplemental Figures S4, S5 and S7, Supplemental Table S13. Elastic net prediction scores, related to Figure 2, Supplemental Table S14. S2N analysis of gene transcripts between TBK1i-sensitive and -resistant BRAF wild-type melanoma cell lines, related to Figure 3, Supplemental Table S15. TMT-phosphoproteomics peptide quantification, related to Figure S12.&lt;/p&gt;
The SPURS Algorithm for Resampling an Irregularly Sampled Signal onto a Cartesian Grid (2016)

We present an algorithm for resampling a function from its values on a non-Cartesian grid onto a Cartesian grid. This problem arises in many applications such as MRI, CT, radio astronomy and geophysics. Our algorithm, termed SParse Uniform ReSampling (SPURS), employs methods from modern sampling theory to achieve a small approximation error while maintaining low computational cost. The given non-Cartesian samples are projected onto a selected intermediate subspace, spanned by integer translations of a compactly supported kernel function. This produces a sparse system of equations describing the relation between the nonuniformly spaced samples and a vector of coefficients representing the projection of the signal onto the chosen subspace. This sparse system of equations can be solved efficiently using available sparse equation solvers. The result is then projected onto the subspace in which the sampled signal is known to reside. The second projection is implemented efficiently using a digital linear shift invariant (LSI) filter and produces uniformly spaced values of the signal on a Cartesian grid. The method can be iterated to improve the reconstruction results. We then apply SPURS to reconstruction of MRI data from nonuniformly spaced k-space samples. Simulations demonstrate that SPURS outperforms other reconstruction methods while maintaining a similar computational complexity over a range of sampling densities and trajectories as well as various input SNR levels.
ChemInform Abstract: Oxidation of Oximes to Ketones with Zeolite Supported Permanganate. (1999)

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.
Threshold Similarity Queries in Large Time Series Databases (2006)

Similarity search in time series data is an active area of research. In this paper, we introduce the novel concept of threshold-similarity queries in time series databases which report those time series exceeding a user-defined query threshold at similar time frames compared to the query time series. In addition, we present a new data structure to support threshold similarity queries efficiently. The performance of our solution is demonstrated by an extensive experimental evaluation.
MMX Mesalamine Is Well Tolerated in Patients with Active Mild-to-Moderate Ulcerative Colitis (2006)

Purpose: Although mesalamine (5-aminosalicyclate; 5-ASA) is the standard first-line therapy for mild-to-moderate ulcerative colitis (UC), it often requires multiple-daily dosing, contributing to poor patient compliance and potentially resulting in sub-optimal outcomes. MMX™ mesalamine (SPD476) is a high-strength (1.2g/tablet) formulation that can be administered once daily (QD). This novel formulation uniquely combines a gastro-resistant polymer film (to delay release of the active drug until the terminal ileum; pH>7.0) and MMX Multi Matrix System™ (MMX) technology (to ensure consistent 5-ASA delivery through the entire colon). Recent studies have demonstrated that 8 weeks of treatment with MMX mesalamine (2.4g/day [given QD or twice daily] or 4.8g/day [given QD]) is effective for inducing clinical and endoscopic remission in patients with mild-to-moderate UC. Methods: Data from three 8-week studies (SPD476–202, −301 and −302) were analyzed to examine the safety and tolerability of MMX mesalamine (2.4g or 4.8g/day). Results: In total, 560 patients received MMX mesalamine 2.4g/day (n = 191), 4.8g/day (n = 190) or placebo (n = 179). Of these patients, 10 (<2%) reported 13 serious AEs: 7 with placebo, 4 with MMX mesalamine 2.4g/day, and 2 with MMX mesalamine 4.8g/day. Two cases of pancreatitis, a well-described rare side effect of mesalamine, (1 in each MMX mesalamine group) were considered possible or probably related to study medication; both cases resolved without sequelae after treatment discontinuation. Overall, 7.3%, 3.1% and 1.1% of patients withdrew due to AEs in the placebo, MMX mesalamine 2.4g/day and 4.8g/day groups, respectively. Most discontinuations were caused by worsening UC or lower-GI symptoms. Conclusions: This pooled analysis confirms that MMX mesalamine (2.4g and 4.8g per day) is well tolerated, with fewer discontinuations due to AEs than placebo. With convenient once-daily administration, and a similar safety profile to other mesalamine medications, MMX mesalamine has the potential to increase compliance, thereby improving treatment success in mild-to-moderate UC patients. This research was funded by Shire Pharmaceuticals Inc., Wayne, PA, USA
Complete gradient optimization of a recurrent network applied to /b/, /d/, /g/ discrimination (1988)

A complete gradient optimization technique for connectionist networks with recurrent links is presented. A truncated gradient technique is available in the literature. A network with recurrent links for discrimination of /b/, /d/, and /g/ in the context of following /i/, /a/, or /u/ is designed. The performance of this network as optimized with either of the two techniques is then compared. It will be shown that the complete gradient is exact and simpler, and it will be demonstrated that it leads to superior performance.