gebhart/patrepeval huggingface dataset:
<p>The Pimpled Gold Nanosphere: A Superior Candidate for Plasmonic Photothermal Therapy</p> (2020)

Collectively, such results show much promise for the use of the present PGNSs and photothermal therapy for numerous anti-cancer applications.
Size-and-Shape Space Gaussian Mixture Models for Structural Clustering of Molecular Dynamics Trajectories (2021)

Determining the optimal number and identity of structural clusters from an ensemble of molecular configurations continues to be a challenge. Recent structural clustering methods have focused on the use of internal coordinates due to the innate rotational and translational invariance of these features. The vast number of possible internal coordinates necessitates a feature space supervision step to make clustering tractable, but yields a protocol that can be system type specific. Particle positions offer an appealing alternative to internal coordinates, but suffer from a lack of rotational and translational invariance, as well as a perceived insensitivity to regions of structural dissimilarity. Here, we present a method, denoted shape-GMM, that overcomes the shortcomings of particle positions using a weighted maximum likelihood (ML) alignment procedure. This alignment strategy is then built into an expectation maximization Gaussian mixture model (GMM) procedure to capture metastable states in the free energy landscape. The resulting algorithm distinguishes between a variety of different structures, including those indistinguishable by RMSD and pair-wise distances, as demonstrated on several model systems. Shape-GMM results on an extensive simulation of the the fast-folding HP35 Nle/Nle mutant protein support a 4-state folding/unfolding mechanism which is consistent with previous experimental results and provides kinetic detail comparable to previous state of the art clustering approaches, as measured by the VAMP-2 score. Currently, training of shape-GMMs is recommended for systems (or subsystems) that can be represented by $\lesssim$ 200 particles and $\lesssim$ 100K configurations to estimate high-dimensional covariance matrices and balance computational expense. Once a shape-GMM is trained, it can be used to predict the cluster identities of millions of configurations.
Iridium(III)- and Rhodium(III)-Promoted Binuclear C-H Bond Activation of .pi.-Complexed Platinum(0) Ethylene and Phenylacetylene and Formation of Heterobimetallic Complexes. X-ray Crystal Structures of [(.eta.5-C5Me5)(PMe3)Ir(.mu.-H)(.mu.-.eta.2:.eta.1-CH2:CH)Pt(PPh3)2]2+[-OSO2CF3]2 and [(.eta.5-C5Me5)(PMe3)Rh(.mu.-H)(.mu.-.eta.2:.eta.1-PhC.sigma.bC)Pt(PPh3)2]2+[-OSO2CF3]2 (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIridium(III)- and Rhodium(III)-Promoted Binuclear C-H Bond Activation of .pi.-Complexed Platinum(0) Ethylene and Phenylacetylene and Formation of Heterobimetallic Complexes. X-ray Crystal Structures of [(.eta.5-C5Me5)(PMe3)Ir(.mu.-H)(.mu.-.eta.2:.eta.1-CH2:CH)Pt(PPh3)2]2+[-OSO2CF3]2 and [(.eta.5-C5Me5)(PMe3)Rh(.mu.-H)(.mu.-.eta.2:.eta.1-PhC.sigma.bC)Pt(PPh3)2]2+[-OSO2CF3]2Danh H. Cao, Peter J. Stang, and Atta M. ArifCite this: Organometallics 1995, 14, 6, 2733–2740Publication Date (Print):June 1, 1995Publication History Published online1 May 2002Published inissue 1 June 1995https://pubs.acs.org/doi/10.1021/om00006a020https://doi.org/10.1021/om00006a020research-articleACS PublicationsRequest reuse permissionsArticle Views184Altmetric-Citations22LEARN 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-AlertscloseSupporting Info (2)»Supporting Information Supporting Information Get e-Alerts
The src protein contains multiple domains for specific attachment to membranes. (1990)

The proteins encoded by the oncogene v-src and its cellular counterpart c-src (designated generically here as pp60src) are tightly associated with both plasma membranes and intracellular membranes. This association is due in part to the amino-terminal myristylation of pp60src, but several lines of evidence suggest that amino-terminal portions of the protein itself are also involved. We now report that pp60src contains at least three domains which, in conjunction with myristylation, are capable of mediating attachment to membranes and determining subcellular localization. We identified these domains by fusing various portions of pp60src to pyruvate kinase, which is normally a cytoplasmic protein. Amino acids 1 to 14 of pp60src are sufficient to mediate both myristylation and the attachment of pyruvate kinase to cytoplasmic granules. In contrast, amino acids 38 to 111 mediate association with the plasma membrane and perinuclear membranes, whereas amino acids 204 to 259 mediate association primarily with perinuclear membranes. We conclude that pp60src contains independent domains that target the protein to distinctive subcellular locations and thus may facilitate diverse biological functions of the protein.
Multipeptide stimulated PBMCs generate TEM/TCM for adoptive cell therapy in multiple myeloma (2021)

Multiple Myeloma (MM) patients suffer disease relapse due to the development of therapeutic resistance. Increasing evidence suggests that immunotherapeutic strategies can provide durable responses. Here we evaluate the possibility of adoptive cell transfer (ACT) by generating <i>ex vivo</i> T cells from peripheral blood mononuclear cells (PBMCs) isolated from MM patients by employing our previously devised protocols. We designed peptides from antigens (Ags) including cancer testis antigens (CTAs) that are over expressed in MM. We exposed PBMCs from different healthy donors (HDs) to single peptides. We observed reproducible Ag-specific cluster of differentiation 4<sup>+</sup> (CD4<sup>+</sup>) and CD8<sup>+</sup> T cell responses on exposure of PBMCs to different single peptide sequences. These peptide sequences were used to compile four different peptide cocktails. Naïve T cells from PBMCs from MM patients or HDs recognized the cognate Ag in all four peptide cocktails, leading to generation of multiclonal Ag-specific CD4<sup>+</sup> and CD8<sup>+</sup> effector and central memory T (T<sub>EM</sub> and T<sub>CM</sub>, respectively) cells which produced interferon-gamma (IFN-γ), granzyme B and perforin on secondary restimulation. Furthermore, this study demonstrated that immune cells from MM patients are capable of switching metabolic programs to induce effector and memory responses. Multiple peptides and cocktails were identified that induce IFN-γ<sup>+</sup>, T1-type, metabolically active T cells, thereby paving the way for feasibility testing of ACT in phase I clinical trials.
Catalytic Properties of Galactose Oxidase to Liposome-Forming Amphiphiles Which Have Many Pendent Galactose Residues (1998)

ADVERTISEMENT RETURN TO ISSUEPREVCorrectionORIGINAL ARTICLEThis notice is a correctionCatalytic Properties of Galactose Oxidase to Liposome-Forming Amphiphiles Which Have Many Pendent Galactose ResiduesKohji Ohno and Hiromi KitanoCite this: Bioconjugate Chem. 1998, 9, 6, 847Publication Date (Web):September 26, 1998Publication History Published online26 September 1998Published inissue 1 November 1998https://pubs.acs.org/doi/10.1021/bc9801981https://doi.org/10.1021/bc9801981correctionACS PublicationsCopyright © 1998 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views272Altmetric-Citations-LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail PDF (19 KB) Get e-AlertscloseSUBJECTS:Amphiphiles,Peptides and proteins Get e-Alerts
Une nouvelle source cohérente UVX : la génération d'harmoniquesd'ordre élevé d'un rayonnement laser intense (1992)

Noble gas atoms irradiated by intense laser pulses, in the range 10i3 to 10 15 W/cm2, generate harmonics of the laser frequency up to a very high order. Radiations of about 150 eV have been demonstrated, and up to 400 eV are expected. As these harmonics are generated in short pulses (from 100 fs to 30 ps), large instantaneous powers may be obtained: 3kW have been measured in Saclay. This XUV source preserves the coherence properties of the pump laser and could find numerous applications thanks to its focusability, brightness and spectral narrowness. pression d'une dizaine de Torr), des harmoniques impairs de la frquence fondamentale sont gnrs. Ces processus de conversion de frquence, tudis ds les annes 70, connaissent aujourd'hui un regain d'intrt avec l'utilisation de lasers de courte dure d'impulsion. Lorsque l'clairement laser est peu intense, l'intensit des harmoniques dcrot rapidement avec l'ordre du processus et il est difficile d'aller au del des harmoniques 5 ou 7. Lorsque
A Case of Pediatric Melanoma (2015)

We document a 3-year-old healthy African American girl who developed malignant melanoma on her lower extremity. The clinical appearance offered little indication of the lesion's severity (T4), and only the history of de novo presentation and disproportionate growth raised clinical suspicion. This case report highlights the subtle clinical findings of this condition and presents controversies related to surgical management of pediatric melanoma.
Simulation of headed anchor failure (2026)

This work concerns the numerical simulation of the failure behavior of headed studs embedded in concrete and subjected to tensile loading. The attention is directed to the analysis of a single anchor placed in a specimen of undamaged concrete without reinforcement and far from the specimen edges. The simulations are carried out by means of two different constitutive models: 1) a smeared crack model with nonlocal regularization (nonlocal microplane model M4) and 2) a discrete model simulating the concrete mesostructure (shear-confinement lattice model). The ability of both models to predict the anchor ultimate load is checked through the comparison of the numerical results with some available experimental data and various design formulas taken from the literature (ACI-method, VAC-method, CC-method and Theoretical method). Both the nonlocal microplane model and the shear-confinement lattice model are able to predict the ultimate load of the headed anchor under tension and to reproduce the well-known cone-shaped failure of the embedding concrete.
Lead(ii) coordination polymers driven by pyridine-hydrazine donors: from anion-guided self-assembly to structural features (2020)

In this work, we report extensive experimental and theoretical investigations on a new series of PbII coordination polymers exhibiting extended supramolecular architectures, namely [Pb2(LI)(NCS)4]n (1), [Pb(HLII)I2]n (2), [Pb(LIII)I]n (3) and [Pb(HLIV)(NO3)2]n·nMeOH (4), which were self-assembled from different PbII salts and various pyridine-hydrazine based linkers, namely 1,2-bis(pyridin-3-ylmethylene)hydrazine (LI), (pyridin-4-ylmethylene)isonicotinohydrazide (HLII), 1-(pyridin-2-yl)ethylidenenicotinohydrazide (HLIII) and phenyl(pyridin-2-yl)methylenenicotinohydrazide (HLIV), respectively. It is recognized that the origin of self-assembling is fundamentally rooted in a dual donor (6s2/6p0 hybridized lone electron pair) and electrophilic behaviour of PbII. This allows production of extended topologies from a 1D polymeric chain in 4 through a 2D layer in 2 to the 3D frameworks in 1 and 3, predominantly due to the cooperative action of both covalent and non-covalent tetrel interactions of the overall type Pb-X (X = O, N, S, I). Counterintuitively, the latter, seemingly weak interactions, have appeared to be even stronger than the typical covalent bonds due to the presence of a bunch of supportive London dispersion dominated contacts: ππ, Lpπ, C-HO, C-HI, C-HH-C as well as more typical mainly electrostatically driven N-HO or N/O-HO hydrogen bonds. It is revealed that the constituting generally strong tetrel type Pb-X (X = O, N, S, I) bonds, though dominated by a classic Coulomb term, are therefore characterized by a very important London dispersion constituent, extremely strong relativistic effects and the two way dative-covalent Pb ↔ X electron charge delocalization contribution as revealed by the Extended Transition State Natural Orbital for Chemical Valence (ETS-NOCV) charge and energy decomposition scheme. It unravels that the pyridine-hydrazine linkers are also excellent London dispersion donors, and that together with the donor-acceptor properties of the heavy (relativistic) PbII atoms and nucleophilic counterions lead to extended self-assembling of 1-4.
Benefitting from Dopant Loss and Ostwald Ripening in Mn Doping of II-VI Semiconductor Nanocrystals (2015)

Annealing or growth at high temperatures for an extended period of time is considered detrimental for most synthetic strategies for high-quality Mn-doped II-VI semiconductor nanocrystals. It can lead to the broadening of size distribution and, more importantly, to the loss of dopants. Here, we examine how ripening can be beneficial to doping in a simple "heat-up" approach, where high dopant concentrations can be achieved. We discuss the interplay of the loss of dopants, Ostwald ripening, and the clustering of Mn near the surface during nanocrystal growth. Smaller nanocrystals in a reaction batch, on average, exhibit higher undesirable band-edge photoluminescence (PL) and lower desirable dopant PL. The optimization of dopant loss and the removal of such smaller undesirable nanocrystals through Ostwald ripening along with surface exchange/passivation to remove Mn clustering lead to high Mn PL quantum yields (45 to 55 %) for ZnSxSe1-x, ZnS, CdS, and CdSxSe1-x host nanocrystals. These results provide an improved understanding of the doping process in a simple and potentially scalable synthetic strategy for achieving "pure" and bright dopant emission.
PAX8 and PAX2 Expression in Endocervical Adenocarcinoma In Situ and High-Grade Squamous Dysplasia (2012)

Transcription factors PAX2 and PAX8 are expressed in the nuclei of Müllerian glandular epithelial cells. In situ carcinomas of the cervix are exemplified by adenocarcinoma in situ (AIS) and high-grade squamous intraepithelial lesions (HSILs), both of which present histologically as hyperchromatic crowded groups of epithelial cells exhibiting loss of polarity. Herein, we sought to investigate the immunohistochemical expression of PAX8 and PAX2 in AIS and HSIL. A total of 66 and 55 cases of AIS and HSIL were examined, respectively. PAX8 positivity was observed in 64 (97%) of 66 cases of AIS. Nuclear PAX2 expression was completely lost in 59 (89%) of the 66 cases of AIS. Eleven (20%) of the 55 HSILs were positive for PAX8. The difference in PAX8 positivity rates between AIS and HSIL was statistically significant (P<0.0001). The PAX2 immunostain was completely negative in the 18 HSILs examined for PAX2 expression. PAX8 and PAX2 immunostaining patterns in benign endocervical glandular epithelium were examined for 98 and 62 cases, respectively. The benign endocervical glandular epithelium was positive for PAX8 and PAX2 expression in 100% and 97% of cases, respectively. In conclusion, immunohistochemical analysis for PAX2 is effective in discriminating AIS from benign endocervical glandular epithelium. The majority of AIS lesions and a subset of HSILs are PAX8(+). With regard to the distinction between AIS and HSIL, a PAX8(-) immunophenotype is particularly predictive of high-grade squamous dysplasia.
AMPK-dependent phosphorylation is required for transcriptional activation of TFEB and TFE3 (2021)

Increased macroautophagy/autophagy and lysosomal activity promote tumor growth, survival and chemo-resistance. During acute starvation, autophagy is rapidly engaged by AMPK (AMP-activated protein kinase) activation and MTOR (mechanistic target of rapamycin kinase) complex 1 (MTORC1) inhibition to maintain energy homeostasis and cell survival. TFEB (transcription factor E3) and TFE3 (transcription factor binding to IGHM enhancer 3) are master transcriptional regulators of autophagy and lysosomal activity and their cytoplasm/nuclear shuttling is controlled by MTORC1-dependent multisite phosphorylation. However, it is not known whether and how the transcriptional activity of TFEB or TFE3 is regulated. We show that AMPK mediates phosphorylation of TFEB and TFE3 on three serine residues, leading to TFEB and TFE3 transcriptional activity upon nutrient starvation, FLCN (folliculin) depletion and pharmacological manipulation of MTORC1 or AMPK. Collectively, we show that MTORC1 specifically controls TFEB and TFE3 cytosolic retention, whereas AMPK is essential for TFEB and TFE3 transcriptional activity. This dual and opposing regulation of TFEB and TFE3 by MTORC1 and AMPK is reminiscent of the regulation of another critical regulator of autophagy, ULK1 (unc-51 like autophagy activating kinase 1). Surprisingly, we show that chemoresistance is mediated by AMPK-dependent activation of TFEB, which is abolished by pharmacological inhibition of AMPK or mutation of serine 466, 467 and 469 to alanine residues within TFEB. Altogether, we show that AMPK is a key regulator of TFEB and TFE3 transcriptional activity, and we validate AMPK as a promising target in cancer therapy to evade chemotherapeutic resistance.<b>Abbreviations:</b> ACACA: acetyl-CoA carboxylase alpha; ACTB: actin beta; AICAR: 5-aminoimidazole-4-carboxamide ribonucleotide; AMPK: AMP-activated protein kinase; AMPKi: AMPK inhibitor, SBI-0206965; CA: constitutively active; CARM1: coactivator-associated arginine methyltransferase 1; CFP: cyan fluorescent protein; CLEAR: coordinated lysosomal expression and regulation; DKO: double knock-out; DMEM: Dulbecco's modified Eagle's medium; DMSO: dimethyl sulfoxide; DQ-BSA: self-quenched BODIPY® dye conjugates of bovine serum albumin; EBSS: Earle's balanced salt solution; FLCN: folliculin; GFP: green fluorescent protein; GST: glutathione S-transferases; HD: Huntington disease; HTT: huntingtin; KO: knock-out; LAMP1: lysosomal associated membrane protein 1; MEF: mouse embryonic fibroblasts; MITF: melanocyte inducing transcription factor; MTORC1: MTOR complex 1; PolyQ: polyglutamine; RPS6: ribosomal protein S6; RT-qPCR: reverse transcription quantitative polymerase chain reaction; TCL: total cell lysates; TFE3: transcription factor binding to IGHM enhancer 3; TFEB: transcription factor EB; TKO: triple knock-out; ULK1: unc-51 like autophagy activating kinase 1.
3D gaze estimation with a single camera without IR illumination (2008)

This paper proposes a 3D eye gaze estimation and tracking algorithm based on facial feature tracking using a single camera. Instead of using the infrared (IR) lights and the corneal reflections (glint), this algorithm estimates the 3D visual axis using the tracked facial feature points. For this, we first introduce an extended 3D eye model which includes both the eyeball and the eye-corners. Based on this eye model, we derive the equations to solve for the 3D eyeball center, the 3D pupil center and the 3D visual axis, from which we can solve for the point of gaze after a one-time personal calibration. The experimental results show the accuracy of this algorithm is less than 3deg. Compared with the existing IR-based eye tracking methods, the proposed method is simple to setup and can work both indoor and outdoor.
Mobile agents for mobile computing (1996)

Mobile agents are programs that can move through a network under their own control, migrating from host to host and interacting with other agents and resources on each. We argue that these mobile, autonomous agents have the potential to provide a convenient, efficient and robust programming paradigm for distributed applications, particularly when partially connected computers are involved. Partially connected computers include mobile computers such as laptops and personal digital assistants as well as modem-connected home computers, all of which are often disconnected from the network. In this paper, we describe the design and implementation of our mobile-agent system, Agent Tcl, and the specific features that support mobile computers and disconnected operation. These features include network-sensing tools and a docking system that allows an agent to transparently move between mobile computers, regardless of when the computers connect to the network. 1 Introduction Mobile computers ha...
SemFeel (2009)

One of the challenges with using mobile touch-screen devices is that they do not provide tactile feedback to the user. Thus, the user is required to look at the screen to interact with these devices. In this paper, we present SemFeel, a tactile feedback system which informs the user about the presence of an object where she touches on the screen and can offer additional semantic information about that item. Through multiple vibration motors that we attached to the backside of a mobile touch-screen device, SemFeel can generate different patterns of vibration, such as ones that flow from right to left or from top to bottom, to help the user interact with a mobile device. Through two user studies, we show that users can distinguish ten different patterns, including linear patterns and a circular pattern, at approximately 90% accuracy, and that SemFeel supports accurate eyes-free interactions.
Paraphrase Identification Between Two Sentence Using Support Vector Machine (2019)

Paraphrasing sentence is to express a sentence using another form of language without changing the meaning of the previous sentence. In this study, a system of identification of meanings of sentences has been built using Support Vector Machine (SVM) with Sequential Minimal Optimization (SMO) algorithm, the features used are Euclidean distance, cosine similarity, sentence length 1, sentence length 2, slices between sentences. The test results showed better results on SVM configuration using attribute filters achieving the best results 94.4% in training using the train set test and 61.9% in SVM configuration without using attribute filters.