gebhart/patrepeval huggingface dataset:
Functional and genomic implications of global gene expression profiles in cell lines from human hepatocellular cancer (2002)

Global gene expression profiles in cancer have impacted both classification of tumors and definition of molecular pathways in neoplasia. To explore the possibility of employing human tumor cell lines to obtain information on the functional genomics of the early stages of tumorigenesis, we have characterized variation in gene-expression patterns in a cytogenetically well-defined series of cell lines derived from human hepatocellular carcinoma (HCC). Microarrays containing 6,720 sequence-verified human cDNAs were used in this study. Nineteen well-characterized HCC cell lines were analyzed, and a nontumorigenic liver-derived epithelial cell line (Chang) was used as a reference. Each sample was examined at least twice by switching fluorescent dyes, Cy-5 and Cy-3, and average values of 2 experiments on each sample were used for further analysis. Analysis of the clustered data revealed 2 distinctive subtypes of gene-expression patterns among the 19 cell lines, suggesting a degree of heterogeneity among the gene-expression profiles of cell lines. Remarkably, expression of alpha-fetoprotein (AFP) was highly correlated with the molecular subtypes of HCC. Although the 3 most distinctive gene-expression modules represented the signatures of 2 different subgroups of HCC, most of the cell lines shared many coexpressed genes. However, sets of coexpressed genes that are specific for the subtypes of HCC were identified. Furthermore, our results indicate that the comparison between gene-expression patterns and structural alterations in chromosomes is potentially useful in identifying genes critical in early stages of tumorigenesis. In conclusion, these results not only identified unrecognized subtypes of HCC, but also provided potential molecular markers for each subtype that can be useful for diagnostic and/or therapeutic purposes.
The evolution of interacting quantum systems (2010)

In this work we shall study the interaction of matter and light. In so doing we shall rely heavily on the description of such processes provided by quantum mechanics. This appears on a number of levels: firstly, a quantum description of matter is indispensable if one wants to understand on the microscopic scale the different kinds of interaction processes that can occur. Secondly, a quantum description of light often turns out to be useful, sometimes necessary, to better understand these processes. We shall study phenomena such as spontaneous emission, which can only be properly treated by a theory taking into account the quantum nature of both light and matter.
Chapter 3. Solid electrolytes (1977)

M. D. Ingram and C. A. Vincent, Annu. Rep. Prog. Chem., Sect. A. Inorg. and Phys. Chem, 1977, 74, 23 DOI: 10.1039/PR9777400023
Genetic landscape of idiopathic pulmonary fibrosis: A systematic review, meta-analysis and epidemiological evidence of case-control studies (2023)

Abstract Background Idiopathic pulmonary fibrosis (IPF) is a fibrotic lung disorder of unknown cause, affecting about three million people worldwide. Being a multifactorial disease, complex genetic and environmental factors contribute to its susceptibility. Therefore, we conducted a two-staged systematic literature search and meta-analyses of published genetic association studies on IPF. Methods The first search was performed using PubMed and Web of Science, retrieving a total of 5642 articles, of which 57 publications were eligible for inclusion in the first stage. The Second search was performed using PubMed, Web of Science and Scopus for all genetic variants, identified from the first search, with 2 or more studies. Thus, six variants [rs35705950 ( MUC5B ), rs2736100 ( TERT ), rs2609255 ( FAM13A ), rs2076295 ( DSP ), rs12610495 ( DPP9 ) and rs1800470 ( TGF-β1 )] from this search qualified for meta-analyses. Additionally, the epidemiological credibility of these six variants was evaluated using the Venice criteria. Results In this systematic review, 291 polymorphisms were found to be associated with IPF susceptibility. Meta-analyses findings revealed significant (p &lt; 0.05) risk association of rs35705950 [T vs C; OR = 3.85(3.24-4.47)], rs2609255 [G vs T; OR = 1.37(1.27-1.47)], rs2076295 [G vs T; OR = 1.31(1.00-1.63)], rs12610495 [G vs A; OR = 1.29(1.21-1.37)] and rs1800470 [T vs C; OR = 1.08(0.82-1.34)] and protective association of rs2736100 [C vs A; OR = 0.70(0.61-0.79)] with IPF susceptibility. Cumulative epidemiological evidence was graded as strong for rs35705950, moderate for rs2736100, rs2609255 and rs12610495, and weak for rs2076295 and rs1800470. Conclusions Our findings present the most prominent IPF-associated genetic risk variants involved in alveolar epithelial injuries ( MUC5B, TERT, FAM13A, DSP, DPP9 ) and epithelial-mesenchymal transition ( TGF-β1 ), providing genetic and biological insights into IPF pathogenesis.
The Contribution of the Language-Action Perspective to a New Foundation for Design (2007)

This chapter contains section titled: T. Winograd and F. Flores, 1986: Understanding Computers and Cognition
ChemInform Abstract: HETEROCYCLIC QUINONES‐ PART IV. REACTIONS OF 3,6‐DIARYLAMINO‐2‐PROPIONYL‐1,4‐BENZOQUINONES WITH AMINES, HYDRAZINES, HYDROXYLAMINE AND AMIDINES (1977)

Abstract Durch Reaktion des Hydrochinons (I) mit den entsprechenden Arylaminen wurden die Chinone (II) dargestellt.
Normalizing effect of SJSZ glycoprotein (38 kDa) on proliferating cell nuclear antigen and interferon‐γ in diethylnitrosamine‐induced mice splenocytes (2012)

One of the immunosuppressive responses when hepatocellular carcinoma (HCC) develops in mammals is defective proliferation in the spleen. The objective of this study was to investigate the protective effect of the Styrax japonica Siebold et al. Zuccarini (SJSZ) glycoprotein on the proliferation of splenocytes induced by diethlynitrosamine (DEN). To assess whether the SJSZ glycoprotein modulates splenocyte proliferation, Balb/c mice were injected intraperitoneally with DEN (50 mg/kg, BW) for 7 weeks. After 7 weeks, the mice were sacrificed, and spleens were isolated. We evaluated [(3) H]-thymidine incorporation, extracellular signal-regulated kinase (ERK), cell cycle-related factors [p53, p21, p27, cyclin D1/cyclin dependent kinase (CDK) 4], proliferating cell nuclear antigen and interferon (IFN)-γ using radiation activity, immunoblot analysis, and the reverse transcription-polymerase chain reaction. The results revealed that the SJSZ glycoprotein (10 mg/kg, BW) increased [(3) H]-thymidine incorporation, ERK phosphorylation, expression levels of cyclin D1/cyclin dependent kinase 4, and IFN-γ. However, the SJSZ glycoprotein decreased levels of p53, p21, and p27. Taken together, these results suggest that the SJSZ glycoprotein inhibited defective splenocyte proliferation induced by DEN.
Removal of power line interference in signal-averaged electrocardiography systems (1995)

A method for line interference reduction to be used in signal-averaged electrocardiography (SAECG) systems is proposed and its performance is analyzed. This new method is an adaptation of a previously reported technique for removal of line interference from conventional electrocardiograms. It involves the recording of a line reference signal simultaneous with the lead signals, so that a shifted and scaled version of it can be used to subtract line interference from the leads. It is shown that this line interference subtraction method can reduce line interference effectively and without introducing any additional noise into the ECG signal. It is also shown that Late Potential diagnostic decisions are not altered when this filter is applied. It is recommended that this technique be used in SAECG when line interference is unavoidable.
Partnership of PGC-1α and HNF4α in the Regulation of Lipoprotein Metabolism (2006)

Peroxisome proliferator-activated receptor gamma coactivator-1alpha (PGC-1alpha) is a transcriptional coactivator involved in several aspects of energy metabolism. It is induced or activated under different stimuli in a highly tissue-specific manner and subsequently partners with certain transcription factors in those tissues to execute various biological programs. In the fasted liver, PGC-1alpha is induced and interacts with hepatocyte nuclear factor 4alpha (HNF4alpha) and other transcription factors to activate gluconeogenesis and increase hepatic glucose output. Given the broad spectrum of liver genes responsive to HNF4alpha, we sought to determine those that were specifically targeted by the combination of PGC-1alpha and HNF4alpha. Coexpression of these two molecules in murine stem cells reveals a high induction of mRNA for apolipoproteins A-IV and C-II. Forced expression of PGC-1alpha in mouse and human hepatoma cells increases the mRNA of a subset of apolipoproteins implicated in very low density lipoprotein and triglyceride metabolism, including apolipoproteins A-IV, C-II, and C-III. Coactivation of the apoC-III/A-IV promoter region by PGC-1alpha occurs through a highly conserved HNF4alpha response element, the loss of which completely abolishes activation by PGC-1alpha and HNF4alpha. Adenoviral infusion of PGC-1alpha into live mice increases hepatic expression of apolipoproteins A-IV, C-II, and C-III and increases serum and very low density lipoprotein triglyceride levels. Conversely, knock down of PGC-1alpha in vivo causes a decrease in both apolipoprotein expression and serum triglyceride levels. These data point to a crucial role for the PGC-1alpha/HNF4alpha partnership in hepatic lipoprotein metabolism.
Reconstruction of the Traumatized Thumb (2014)

Given that available options now range from simple gauze dressings to complex microsurgical reconstruction, preservation of reconstructive flexibility is essential and should be facilitated by judicious preservation of intact structures. The divergence of available reconstructive pathways underscores the importance of knowing one's patients, understanding their motivation, and assessing their goals. Only in properly matching the right reconstruction with the right patient will a mutually satisfactory result be achieved.
Dual p- and n-type doping in an acid sensitive alternating bi(ethylenedioxythiophene) and pyridine polymer (1999)

Poly[2,5-bis(3,4-ethylenedioxy-2-thienyl)pyridine] exhibits multi-color electrochromism via easily accesible p- and n-type doping, and can be switched between a pale blue reduced state, a red neutral state, and a blue–purple oxidized state.
Segmentation of Patient Images in the Neonatal Intensive Care Unit (2018)

Detection and segmentation of people within a scene has been primarily applied to indoor imagery for surveillance systems and outdoor scenes for pedestrian detection. This paper proposes to leverage a similar semantic segmentation model for segmenting patients in the neonatal intensive care unit (NICU) during video-based monitoring. This will serve as part of a noncontact, non-invasive and unobtrusive system to monitor neonates by acquiring a relevant region-of-interest from overhead RGB-D video. This paper examines situations typical of the NICU environment to ensure generalization of the solution to all patient scenarios. Transfer learning is applied to a pre-trained convolutional neural network on three different patients. Promising results are observed when the model is tested on a new patient. Final testing accuracy of 93% demonstrates the potential of such algorithm to automatically determine a suitable region-of-interest for video-based patient monitoring.
Service-Oriented Infrastructure to Support the Deployment of Evolvable Production Systems (2011)

Nowadays, Service-oriented Architecture (SOA) paradigm is becoming a broadly deployed standard for business and enterprise integration. It continuously spreads across the diverse layers of the enterprise organization and disparate domains of application envisioning a unified communication solution. In the industrial domain, Evolvable Production System (EPS) paradigm focus on the identification of guidelines and solutions to support the design, operation, maintenance, and evolution of complete industrial infrastructures. Similarly to several other domains, the crescent ubiquity of smart devices is raising important lifecycle concerns such as device setup, control, management, supervision and diagnosis. From initial setup and deployment to system lifecycle monitoring and evolution, each device needs to be taken into account and easily reachable. The present work exploits the association of EPS and SOA paradigms in the pursuit of a common architectural solution to support the different phases of the device lifecycle. The result is a modular, adaptive and open infrastructure forming a complete SOA ecosystem that will make use of the embedded capabilities supported by the proposed device model. The infrastructure components are specified and it is shown how they can interact and be combined to adapt to current system specificity and requirements. Finally, a proof-of-concept prototype deployed in a real industrial production scenario is also detailed and results are presented.
Controversies in the Management of Regional Nodes in Melanoma (2012)

The surgical management of the regional lymph node basin of melanoma has undergone significant changes in the past 2 decades, most of which have been guided by prospective randomized trials. Historically, routine elective lymph node dissection was recommended for the management of melanoma regardless of clinical nodal involvement. Subsequent randomized trials failed to show a clear benefit for all patients, and sentinel lymph node (SLN) biopsy emerged as an alternative. Although the prognostic value of SLN biopsy in intermediate-thickness melanoma is well accepted, its value for patients with thin and thick lesions is debated. The therapeutic advantage of removing an involved SLN, and the need for a completion lymph node dissection after the identification of a positive SLN, are areas of continued controversy. This article discusses these issues in the management of the regional lymph node basin in patients with melanoma.
Multi-resolution state retrieval in sensor networks (2003)

Large-scale dense sensor networks require mechanisms to extract topology information that can be used for various aspects of sensor network management. It is critical for any topology discovery algorithm in dense networks not only to adhere to the resource constraints of bandwidth and energy but also to provide several views of the network. Due to factors of density, redundancy and failures it may not be possible or practical to get a complete view of the topology. We describe a distributed parameterized algorithm for Sensor Topology Retrieval at Multiple Resolutions (STREAM), which makes a tradeoff between topology details and resources expended. The algorithm retrieves network state at multiple resolutions at a proportionate communication cost. We also define various classes of topology queries and show how the parameters in the algorithm can be used to support queries specific to sensor networks. We show that topology determined at different resolutions is sufficient for approximating different network properties. We also show that STREAM can be used for general-purpose multi-resolution information retrieval in sensor networks.
Détermination des polarisabilités optiques principales des liaisons multiples carbone-carbone par diffusion Rayleigh dépolarisée (1971)

La détermination des anisotropies optiques moléculaires des alcènes-1, alcènes-2 et alcynes-1 par Diffusion Rayleigh Dépolarisée (DRD), en solution dans le cyclohexane et à l’état liquide pur a permis de calculer l’anisotropie optique des liaisons multiples C = C et C ≡ C. Sauf pour des chaînes très courtes, l’existence à l’état liquide de corrélations d’orientation entre chaînes allongées rend compte de la différence entre les anisotropies optiques d’un même composé liquide ou en solution.
The Influence of Bainite on Retained Austenite Characteristics in Si-Mn TRIP Steels (1995)

Controlled rolling processes are designed to produce a desired microstructure via the control of hot rolling without subsequent heat treatment. Critical to the success of controlled rolling are the stages that occur after hot deformation, when the steel is cooled to room temperature. This can be divided into two parts: the run out table, where the material is allowed to cool relatively rapidly to a pre-determined temperature, and "coiling" at which point the rolled material is coiled, thus showing down the cooling rate considerably.
Pharmacy on Demand Feasibility Assessment (2008)

Abstract : DARPA's DSO has expressed interest in technologies to engineer field medical therapies at the point of care, such as production of multiple drugs from a single precursor and to drastically reduce the logistics burden of medical treatment in the field. Pharmacy on Demand (POD) is proposed as a fieldable system for synthesizing Active Pharmaceutical Ingredients (APIs) with the intent of significantly reducing the weight and volume of drug products deployed to theatre. To assess the initial feasibility of POD, synthetic routes to three APIs, ibuprofen, atropine and ciprofloxacin, have been devised. The efficiency of synthesis of two, ibuprofen and atropine, has been determined experimentally. The weight of materials used in these syntheses has been compared to the weights of the same APIs in normal dosage form with packaging in order to quantify potential reduction of logistics burden. At the current state of development these new synthetic routes are not efficient enough to offset the weight of excipients and packaging now used to deploy these drugs. Therefore the initial acceptable metrics have not been achieved. Further analysis of wastes resulting from the new synthetic routes is recommended. Beneficial reuse of waste may improve the effective value of the new synthetic routes.
Practical Synthesis of Glaziovianin A, a Cytotoxic Isoflavone, and Its O7-Propargyl Analogue (2014)

Abstract Glaziovianin A and its O7-propargyl analogue are potent cytotoxic isoflavones. We found that the O7-propargyl analogue completely arrested cell-cycle progression. We have achieved the large-scale synthesis of glaziovianin A and its O7-propargyl analogue for further in vivo experimentation.
Impact of a digital surgical workflow including Digital Device Briefing Tool on morbidity and mortality in a patient population undergoing primary stapled colorectal anastomosis for benign or malignant colorectal disease: protocol for a multicentre prospective cohort study (2023)

DRKS00029682.
Natural biodiversity and molecular genetics for breeding Agaricus sp. (2012)

International audience
High repetition rate, ultrashort pulse generation using mode-locked semiconductor lasers (2002)

A train of transform-limited optical pulses with duration of 2.3 ps is generated from monolithically fabricated mode-locked semiconductor lasers at the high repetition rate of 33 GHz. Higher repetition rates over 1 THz are observed by harmonic passive mode-locking. Furthermore, the timing jitter of the pulse trains is reduced with the injection of electrical or optical signal to mode-locked lasers.
Determining the capacity components of multi chamber systems (2002)

In order to effectively manage productivity improvements for equipment in a semiconductor manufacturing line, it is necessary to understand and measure all the components of capacity loss for each tool type. This paper describes a data analysis system that was developed to specifically address the unique issues in understanding the capacity components of multi chamber systems. The analysis system expresses all components of capacity loss for all chambers in each tool in terms of a full tool equivalent (FTE).
Harnessing click detectors for the genuine characterization of light states (2016)

The key requirement for harnessing the quantum properties of light is the capability to detect and count individual photons. Of particular interest are photon-number-resolving detectors, which allow one to determine whether a state of light is classical or genuinely quantum. Existing schemes for addressing this challenge rely on a proportional conversion of photons to electrons. As such, they are capable of correctly characterizing small photon fluxes, yet are limited by uncertainties in the conversion rate. In this work, we employ a divide-and-conquer approach to infallibly discerning non-classicality of states of light. This is achieved by transforming the incident fields into uniform spatial distributions that readily lend themselves for characterization by standard on-off detectors. Since the exact statistics of the light stream in multiplexed on-off detectors are click statistics, our technique is freely scalable to accommodate-in principle-arbitrarily large photon fluxes. Our experiments pave the way towards genuine integrated photon-number-resolving detection for advanced on-chip photonic quantum networks.
Therapeutic Advances in Myeloproliferative Neoplasms: The Role of New-Small Molecule Inhibitors (2012)

The discovery that a somatic point mutation (JAK2V617F) in the Janus kinase 2 (JAK2) is highly prevalent in patients with myeloproliferative neoplasms (MPNs) has been a crucial breakthrough in our understanding of the underlying molecular mechanisms of these diseases. Therefore, preclinical and clinical research in recent years has focused intensely on the development of new therapies targeted to JAK2. These efforts culminated in recent approval of ruxolitinib as the first official therapy for patients with intermediate- or high-risk myelofibrosis (MF). Therapy with JAK2 inhibitors substantially improves quality of life and reduces organomegaly in MF with or without JAKV617F mutation. Recent results suggest that patients with advanced MF may live longer when receiving therapy with ruxolitinib. However, JAK2 inhibitors do not eliminate the disease and new medications are needed to expand on the benefits seen with JAK2 inhibitors. Although many agents are still in the early stages of development, the wealth of publications and presentations has continued to support our growing understanding of the pathophysiology of MF as well as the potential short- and long-term outcomes of these new and diverse approaches to treatment. Focus of ongoing efforts is particularly on the improvements in anemia and fibrosis, as well as on rational combination trials of JAK2 inhibitors and other potentially active agents. Therapeutic potential and limitations of JAK2 inhibitors and other novel medications in clinical studies are reviewed.
MATCHING MESON RESONANCES TO OPE IN QCD (2006)

We investigate the possible corrections to the linear Regge trajectories for the light-quark meson sector by matching two-point correlators of quark currents to the Operator Product Expansion. We find that the allowed modifications to the linear behavior must decrease rapidly with the principal quantum number. After fitting the lightest states in each channel and certain low-energy constants the whole spectrum for meson masses and residues is obtained in a satisfactory agreement with phenomenology. The perturbative corrections to our results are discussed.