gebhart/patrepeval huggingface dataset:
Final results of a phase I study evaluating INVAC-1, a novel DNA vaccine expressing an inactive form of human telomerase reverse transcriptase (hTERT) in patients with advanced solid tumors. (2019)

2642 Background: INVAC-1 is an optimized DNA plasmid encoding an inactive form of human Telomerase Reverse Transcriptase (hTERT), a universal tumor antigen expressed in most of human tumors with little or no expression in somatic cells. We report here the final results of a First-In-Human Phase I study evaluating INVAC-1 as a single agent in patients (pts) with advanced solid tumors, ended in June 2018. Methods: A two center Phase I trial evaluated INVAC-1 given monthly for a minimum of 3 cycles and up to 9 cycles by intradermal injection followed by electroporation (n = 20) or using a needle-free injection system (n = 6). Primary objectives included safety, tolerability and dose limiting toxicities to identify the maximum tolerated dose and recommended phase 2 dose. Secondary objectives included immune response (assessed by IFN-γ Elispot) and anti-tumor activity. Immuno-monitoring included detection of autoantibodies, lymphocyte phenotyping and inflammatory cytokine levels in blood. Anti-tumor activity was evaluated through RECIST 1.1 adapted to immune response, and plasma circulating tumor DNA (ctDNA). Results: 26 pts with refractory/progressive tumors were enrolled and treated with 3 escalating doses of 100, 400 and 800 µg. 15 pts experienced stable disease according to RECIST. For 11 of them, the treatment was extended, up to 9 months. INVAC-1 was well tolerated with no dose-limiting toxicities. No significant biological signs of autoimmunity were observed. No significant modification in inflammatory plasma cytokines levels was observed after INVAC-1 administration. INVAC-1 triggered de novo or enhanced pre-existing CD4/CD8 specific anti-hTERT response in 63% of pts. This specific anti-hTERT immune response was enhanced ex vivo by adding the immune checkpoint inhibitor nivolumab. ctDNA was evaluated in 17 pts. We observed a ctDNA decrease in 6 cases, a stable level in 5 cases and an increase in 6 cases. Conclusions: Results indicate that INVAC-1 was well tolerated and immunogenic at the doses and schedule tested. Disease stabilization was obtained for the majority of pts (58%) according to RECIST criteria or ctDNA levels. Clinical trial information: NCT02301754.
Ad-hoc voice-based group communication (2010)

People waste many hours driving each day. Although unavoidable, this time can be very boring to motorists. Similar to people taking mass transit who often pass the time socializing with those around them, motorists could benefit from social interactions if they were given broader social opportunities. Unfortunately, existing Multiparty Voice Communication (MVC) systems do not scale to large numbers of users and do not provide adequate access controls. We present RoadSpeak, a scalable MVC system that allows motorists to automatically join Voice Chat Groups (VCGs) along popular roadways. RoadSpeak achieves interruption-free communication through the use of voice chat message buffering, flow control and in-order delivery of voice messages to participants. We have implemented a RoadSpeak prototype on Nokia N95 smart phones using 3G cellular networking for voice message transfer. We have also built an MVC simulator to perform large-scale simulations that compare RoadSpeak with existing MVC systems. The results of our evaluation prove the feasibility of RoadSpeak and demonstrate that it performs similarly to a traditional MVC systems while supporting substantially larger groups of users.
Supplementary Figure 1 from SIRT1 Pathway Dysregulation in the Smoke-Exposed Airway Epithelium and Lung Tumor Tissue (2023)

&lt;p&gt;PDF file,51K, Principal component analysis of expression estimates for pathway perturbation data. A. The samples are colored by pathway: ATM (red), BCL2 (blue), GPX1 (purple), IKBKB (orange), NOS2 (pink), SIRT1 (gray), and GFP (black). B. The samples are colored by batch: batch 1 (red), batch 2 (blue), batch 3 (black), batch 4 (orange). Samples in batch 3 were eliminated from the analyses in the paper.&lt;/p&gt;
Classical Anticytokinins Do Not Interact with Cytokinin Receptors but Inhibit Cyclin-dependent Kinases (2007)

Cytokinins are a class of plant hormones that regulate the cell cycle and diverse developmental and physiological processes. Several compounds have been identified that antagonize the effects of cytokinins. Based on structural similarities and competitive inhibition, it has been assumed that these anticytokinins act through a common cellular target, namely the cytokinin receptor. Here, we examined directly the possibility that various representative classical anticytokinins inhibit the Arabidopsis cytokinin receptors CRE1/AHK4 (cytokinin response 1/Arabidopsis histidine kinase 4) and AHK3 (Arabidopsis histidine kinase 3). We show that pyrrolo[2,3-d]pyrimidine and pyrazolo[4,3-d]pyrimidine anticytokinins do not act as competitors of cytokinins at the receptor level. Flow cytometry and microscopic analyses revealed that anticytokinins inhibit the cell cycle and cause disorganization of the microtubular cytoskeleton and apoptosis. This is consistent with the hypothesis that they inhibit regulatory cyclin-dependent kinase (CDK) enzymes. Biochemical studies demonstrated inhibition by selected anti-cytokinins of both Arabidopsis and human CDKs. X-ray determination of the crystal structure of a human CDK2-anticytokinin complex demonstrated that the antagonist occupies the ATP-binding site of CDK2. Finally, treatment of human cancer cell lines with anticytokinins demonstrated their ability to kill human cells with similar effectiveness as known CDK inhibitors.
Enantiodivergent asymmetric catalysis with the tropos BIPHEP ligand and a proline derivative as chiral selector (2015)

A catalytic system based on the <i>tropos</i> ligand BIPHEP and (<i>S</i>)-proline methyl ester as chiral selector was studied for Rh-catalysed asymmetric catalysis. By careful control of the catalyst preformation conditions, the enantioselectivity could be completely reversed in asymmetric hydrogenation of prochiral olefins maintaining the same absolute level in favorable cases. The enantiodivergent asymmetric catalysis could be rationalised by the interplay of the dynamic chirality (<i>tropos</i>) of the phosphine ligand and the coordination of the proline selector. Treating a suitable Rh-BIPHEP precursor with the (<i>S</i><sub>c</sub>)-proline-based ionic liquid led to an equimolar mixture of (<i>R</i><sub>a</sub><i>S</i><sub>c</sub>)- and (<i>S</i><sub>a</sub><i>S</i><sub>c</sub>)-diastereomers that is kinetically stable at 0 °C. At higher temperature, an irreversible diastereomerisation process was observed resulting in the diastereomerically pure (<i>R</i><sub>a</sub><i>S</i><sub>c</sub>)-complex [Rh{(<i>R</i><sub>a</sub>)-BIPHEP}{(<i>S</i><sub>c</sub>)-ProlOMe}]. Whereas the use of the pure (<i>R</i><sub>a</sub><i>S</i><sub>c</sub>)-complex led to 51% ee (<i>R</i>) in the hydrogenation of methyl 2-acetamidoacrylate, the <i>S</i>-product was formed with almost identical enantioselectivity when the (<i>R</i><sub>a</sub><i>S</i><sub>c</sub>)/(<i>S</i><sub>a</sub><i>S</i><sub>c</sub>)-mixture was applied under identical conditions. This inversion was associated with the relative stability of the diastereomers in the equilibria forming the catalytically active substrate complex. The possibility to use this different reactivity to control the direction of enantioselectivity was demonstrated for the hydrogenation of different substrates whereby ee's of up to 80% could be achieved. Moreover, the (<i>R</i><sub>a</sub><i>S</i><sub>c</sub>)-complex led to high enantioselectivities of up 86% ee in the asymmetric hydroboration of styrene, approaching the performance of the <i>atropos</i> BINAP ligand for this reaction.
Self-Assembly of Microporous Thiogermanate Frameworks (2000)

A safe undergraduate laboratory experiment involving the synthesis of microporous metal germanium sulfide materials under aqueous, room-temperature conditions is described. It introduces students to the synthetic methods of self-assembly and solid-state chemistry. The products are characterized by powder X-ray diffraction and vibrational spectroscopy.
Ein chemischer Weg zu neuen Proteinen – Templat‐assoziierte synthetische Proteine (TASP) (1989)

Abstract Fortschritte in den Methoden der Chemie und der Molekularbiologie veranlassen uns, einige Strukturprinzipien von Proteinen im Hinblick auf die Möglichkeit, künstliche Proteine zu entwerfen, erneut zu betrachten. Die chemische Synthese von Polypeptiden und die ortsspezifische Mutagenese von Proteinen haben sich zu Standardmethoden entwickelt und den Weg zur Konstruktion neuer Proteine geebnet. Obwohl in den vergangenen Jahren wesentliche Einblicke in den räumlichen Bau von natürlichen Proteinen gewonnen werden konnten, sind wir heute noch weit davon entfernt, nicht‐natürliche Proteine mit maßgeschneiderten strukturellen und funktionellen Eigenschaften zu konstruieren – zweifellos ein Ziel von weitreichender wissenschaftlicher und ökonomischer Tragweite. Die entscheidende Hürde liegt weniger in der Synthese dieser Moleküle per se als vielmehr in einem besseren Verständnis des komplizierten Faltungsprozesses von Polypeptidketten in eine definierte räumliche Struktur. Kann der Chemiker seine Synthesewerkzeuge dazu einsetzen, diese als „Faltungsproblem”︁ bekanntgewordene Klippe des Neuentwurfs von Proteinen („de‐novo‐Design”︁) zu umschiffen? Im vorliegenden Bericht wird das kürzlich in unserem Laboratorium entwickelte TASP‐Konzept vorgestellt, das einen synthetischen Zugang zu künstlichen Proteinen mit vorausbestimmter dreidimensionaler Struktur eröffnet. Damit ist ein erster Schritt auf dem Weg zu neuen Proteinen mit interessanten funktionellen Eigenschaften getan.
Rapid estimation of 3D ventricular activation from electroanatomic mapping (2016)

Purpose Heart failure patients are often affected by a ventricular conduction disorder. Accurate characterization of the tridimensional (3D) activation sequence of the ventricles is fundamental for an effective personalized therapy. Electroanatomical mapping provides the activation times at the endocardium, with limited coverage due to anatomical constraints. Our aim is to develop a robust tool to generate a complete 3D, biventricular activation map from a limited number of endocardial measurements.Method In 6 candidates to cardiac resynchronization therapy a high density endocardial activation map of the right and left ventricle was obtained. High resolution propagating activation was simulated in patient-tailored anatomical heart models using the anisotropic eikonal equation and realistic fiber orientation. Subsequently, the mean square error between the measured and simulated activation times was minimized by varying early activation site(s) and local anisotropic conduction velocities.Results. A close correlation was achieved between the simulated and measured activation time for a single patient (Panel A) while detailed 3D activation maps were achieved (panel B and C). In all cases, the optimal parameters were identified within few minutes and the full activation sequence was computed in less than 2 seconds. A 0.9 to 0.95 Pearson correlation between measured and simulated activation times was obtained in all cases. The mathematical formulation is flexible in terms of the number of activation sites and a possible delay between them, in order to mimic the presence of a partially working Purkinje network.Conclusion Our methodology is able to generate in a clinically affordable computational time (few minutes) reliable, patient-specific, fully volumetric activation map of both ventricles using a local workstation or a laptop.
Environmentally-assisted Cracking of Martensitic Stainless Steel OCTG Material in CO2/H2S-saturated Condition from Room Temperature to Elevated Temperature (2019)

Abstract This paper deals with Environmentally-Assisted Cracking (EAC) resistance data, that is, SSC and SCC resistance for martensite-based stainless steel OCTG materials of (1)Modified-13Cr (13Cr-5Ni-2Mo: generic classification of Super-13Cr), (2)15Cr (15Cr-6Ni-3Mo-Cu: UNS No.S42625) and (3)17Cr (17Cr-4.5Ni-3Mo-Cu-W: UNS No.S42825) by autoclave-based Four-Point Bent Beam (FPBB) testings. It was experimentally proved that martensitic stainless steel do not have a specific cracking-susceptible temperature range at around 80 °C to 100 °C (175 °F to 210 °F) where duplex stainless steel is said to specifically fail, as far as the authors investigated the EAC resistance in the corrosion environment of acetic-buffered 20%NaCl solution saturated with 5MPa CO2 and 0.01MPa H2S by testing at temperature from room temperature (24 °C/75 °F) to 200 °C (390 °F) and at pH3.0 to pH5.0. Judging from the domain maps of EAC for 13%Cr-added to 17%Cr-added martensite-based stainless steel, the non-failure domain for each sample is limited by “cracking” and/or “corrosion rate”. In terms of cracking in martensitic stainless steel, EAC does not occur above a certain temperature, in the same manner as carbon-sour steel is more SSC-susceptible at lower temperature and can be also regarded as crack-free above 80 °C (175 °F). In terms of corrosion rate, the general corrosion phenomenon is directly related to temperature. As temperature is lower, the corrosion rate decreases and it can stay below the upper limit of corrosion rate at less than a certain temperature. Higher-alloyed martensite-based stainless steel has better performance with respect to both cracking and corrosion rate, and the non-failure domain is expanded.
Temporal visual masking for HEVC/H.265 perceptual optimization (2013)

We present a method that employs human visual system characteristics for perceptually lossless optimization of video coding. Algorithm is robust and applicable for any modern hybrid coder. We decided to evaluate it using the most recent standard (HEVC/H.265) in order to show potential benefits for future applications. Experiments show savings of up to 8% in bitrate without any loss in quality as confirmed by two sets of subjective experiments using DSCQS and ACJ methodology.
LIPTUS (2007)

Growing competition has made today's banks understand the value of knowing their customers better. In this paper, we describe a tool, LIPTUS, that associates the customer interactions (emails and transcribed phone calls) with customer and account profiles stored in an existing data warehouse. The associations discovered by LIPTUS enable analytics spanning the customer and account profiles on one hand and the meta-data associated or derived from the interaction (using text mining techniques) on the other. We illustrate the value derived from this consolidated analysis through specific customer intelligence applications. LIPTUS is today being extensively used in a large bank in India. A highlight of this paper is a discussion of the technical challenges encountered while building LIPTUS and deploying it on real-life customer data.
A Step-Indexing Approach to Partial Functions (2013)

We describe an ACL2 package for defining partial recursive functions that also supports efficient execution. While packages for defining partial recursive functions already exist for other theorem provers, they often require inductive definitions or recursion operators which are not available in ACL2 and they provide little, if any, support for executing the resulting definitions. We use step-indexing as the underlying implementation technology, enabling the definitions to be carried out in first order logic. We also show how recent enhancements to ACL2's guard feature can be used to enable the efficient execution of partial recursive functions.
Electric Field Poling in Polymeric Nonlinear Optical Materials. Relaxation Dynamics, Model, and Experiment (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTElectric Field Poling in Polymeric Nonlinear Optical Materials. Relaxation Dynamics, Model, and ExperimentMillicent A. Firestone, Mark A. Ratner, and Tobin J. MarksCite this: Macromolecules 1995, 28, 18, 6296–6310Publication Date (Print):August 1, 1995Publication History Published online1 May 2002Published inissue 1 August 1995https://pubs.acs.org/doi/10.1021/ma00122a042https://doi.org/10.1021/ma00122a042research-articleACS PublicationsRequest reuse permissionsArticle Views225Altmetric-Citations30LEARN 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
Supplementary Figure S1 from Enhancement of the Proapoptotic Properties of Newcastle Disease Virus Promotes Tumor Remission in Syngeneic Murine Cancer Models (2023)

&lt;p&gt;PBS treated tumors: histopathology and virus immunostaining&lt;/p&gt;
Genomes of Escherichia coli bacteraemia isolates originating from urinary tract foci contain more virulence-associated genes than those from non-urinary foci and neutropaenic hosts (2018)

Bacteraemia-associated E. coli strains originating from UTIF have distinct VF gene profiles from strains associated with non-UTIF- and NPUFI. This diversity must be addressed in the design of future vaccines to ensure adequate coverage of strains responsible for site-specific disease.
Ultra-Low-Power Wide Range Backscatter Communication Using Cellular Generated Carrier (2021)

With the popularization of Internet-of-things (IoT) and wireless communication systems, a diverse set of applications in smart cities are emerging to improve the city-life. These applications usually require a large coverage area and minimal operation and maintenance cost. To this end, the recently emerging backscatter communication (BC) is gaining interest in both industry and academia as a new communication paradigm that provides high energy efficient communications that may even work in a battery-less mode and, thus, it is well suited for smart city applications. However, the coverage of BC in urban area deployments is not available, and the feasibility of its utilization for smart city applications is not known. In this article, we present a comprehensive coverage study of a practical cellular carrier-based BC system for indoor and outdoor scenarios in a downtown area of a Helsinki city. In particular, we evaluate the coverage outage performance of different low-power and wide area technologies, i.e., long range (LoRa) backscatter, arrow band-Internet of Things (NB-IoT), and Bluetooth low energy (BLE) based BC at different frequencies of operation. To do so, we carry out a comprehensive campaign of simulations while using a sophisticated three-dimensional (3D) ray tracing (RT) tool, ITU outdoor model, and 3rd generation partnership project (3GPP) indoor hotspot model. This study also covers the energy harvesting aspects of backscatter device, and it highlights the importance of future backscatter devices with high energy harvesting efficiency. The simulation results and discussion provided in this article will be helpful in understanding the coverage aspects of practical backscatter communication system in a smart city environment.
Robust Design of Power Minimizing Symbol-Level Precoder under Channel Uncertainty (2018)

In this paper, we investigate the downlink transmission of a multiuser multiple-input single-output (MISO) channel under a symbol-level precoding (SLP) scheme, having imperfect channel knowledge at the transmitter. In defining the SLP design problem, a general category of constructive interference regions (CIR) called distance preserving CIR (DPCIR) is adopted. In particular, we are interested in a robust SLP design minimizing the total transmit power subject to individual quality-of-service (QoS) requirements. We consider two common models for the channel uncertainty region, namely, spherical (norm-bounded) and stochastic. For the spherical uncertainty model, a worst-case robust precoder is proposed, while for the stochastically known uncertainties, we derive a convex optimization problem with probabilistic constraints. We simulate the performance of the proposed robust approaches, and compare them with the existing methods. Through the simulation results, we also show that there is an essential trade-off between the two robust approaches.
Indolo-naphthyridine-6,13-dione Thiophene Building Block for Conjugated Polymer Electronics: Molecular Origin of Ultrahigh n-Type Mobility (2016)

Herein, we present the synthesis and characterization of four conjugated polymers containing a novel chromophore for organic electronics based on an indigoid structure. These polymers exhibit extremely small band gaps of ∼1.2 eV, impressive crystallinity, and extremely high n-type mobility exceeding 3 cm2 V s–1. The n-type charge carrier mobility can be correlated with the remarkably high crystallinity along the polymer backbone having a correlation length in excess of 20 nm. Theoretical analysis reveals that the novel polymers have highly rigid nonplanar geometries demonstrating that backbone planarity is not a prerequisite for either narrow band gap materials or ultrahigh mobilities. Furthermore, the variation in backbone crystallinity is dependent on the choice of comonomer. OPV device efficiencies up to 4.1% and charge photogeneration up to 1000 nm are demonstrated, highlighting the potential of this novel chromophore class in high-performance organic electronics.
Isolation of Cancer Stem Like Cells from Human Adenosquamous Carcinoma of the Lung Supports a Monoclonal Origin from a Multipotential Tissue Stem Cell (2013)

There is increasing evidence that many solid tumors are hierarchically organized with the bulk tumor cells having limited replication potential, but are sustained by a stem-like cell that perpetuates the tumor. These cancer stem cells have been hypothesized to originate from transformation of adult tissue stem cells, or through re-acquisition of stem-like properties by progenitor cells. Adenosquamous carcinoma (ASC) is an aggressive type of lung cancer that contains a mixture of cells with squamous (cytokeratin 5+) and adenocarcinoma (cytokeratin 7+) phenotypes. The origin of these mixtures is unclear as squamous carcinomas are thought to arise from basal cells in the upper respiratory tract while adenocarcinomas are believed to form from stem cells in the bronchial alveolar junction. We have isolated and characterized cancer stem-like populations from ASC through application of selective defined culture medium initially used to grow human lung stem cells. Homogeneous cells selected from ASC tumor specimens were stably expanded in vitro. Primary xenografts and metastatic lesions derived from these cells in NSG mice fully recapitulate both the adenocarcinoma and squamous features of the patient tumor. Interestingly, while the CSLC all co-expressed cytokeratins 5 and 7, most xenograft cells expressed either one, or neither, with <10% remaining double positive. We also demonstrated the potential of the CSLC to differentiate to multi-lineage structures with branching lung morphology expressing bronchial, alveolar and neuroendocrine markers in vitro. Taken together the properties of these ASC-derived CSLC suggests that ASC may arise from a primitive lung stem cell distinct from the bronchial-alveolar or basal stem cells.