gebhart/patrepeval huggingface dataset:
Beyond Transplantation (1988)

It is an honor for me to present the Third Annual Samuel Jason Mixter Lecture before this distinguished audience. The subject of this report is the field of transplantation in its broadest definition: what has been achieved, and what may lie ahead. It is appropriate that this summary be presented in this forum, since many of the creative insights and innovations have come from New England surgeons. I will focus on a few of these contributions, but this in no way is intended to diminish the impact of the efforts of many others, both here in New England as well as in other centers in the United States and abroad. In simple terms, surgeons treat patients by taking things out, putting things in, or moving things around. Organ transplantation is an extreme form of reconstructive surgery, and involves replacing lost function by putting something in. After years of careful experimental
Oxidised GaAs QW vertical-cavity lasers with 40%power conversion efficiency (1996)

Using a solid source MBE and Be for p-type doping, the authors have fabricated 6 µm diameter multimode vertical-cavity lasers with GaAs quantum wells showing a 730 µA threshold current and a 8.5 mW output power. For the first time a maximum conversion efficiency &gt; 40% is reported for GaAs based VCSELs. Singlemode devices exhibit a maximum output power of 1.2 mW and a sidemode suppression &gt; 30 dB.
Determination of Unbiased Selectivity Coefficients of Neutral Carrier-Based Cation-Selective Electrodes (1997)

A new procedure for the determination of selectivity coefficients of neutral carrier-based cation-selective electrodes is established that avoids exposure to the preferred ion prior to the measurement of discriminated ions. The method is, therefore, unbiased by the presence of preferred ions in the membrane that otherwise could mask the response to discriminated ion solutions. It is generally applicable as long as a series of considerations are met and can only be applied once for a given membrane. Careful studies with a series of sodium-, silver-, and calcium-selective electrodes reveal that Nernstian response slopes can now be obtained for even highly discriminated cations. Specifically, a 1,3-bridged calix[4]arene derivative as introduced by Yamamoto and Shinkai indeed yields an extraordinary sodium selectivity of log = −4.9, with potassium showing Nernst response as well. Analogous measurements with two different silver carriers, a bisthioether-functionalized calix[4]arene and methylenebis(diisobutyldithiocarbamate), and the calcium carrier ETH 129 also show extremely high selectivity, which can satisfactorily be correlated to data obtained previously in ion-buffered solutions. The new procedure promises to be a valuable additional tool for future characterizations of highly selective ion carriers.
Abstract 4851: A single-tube protocol for next gen library construction increases complexity and simplifies parallel sample handling (2011)

Abstract With the advent of second-generation sequencing technologies, exome- and transcriptome- and whole genome sequencing are tools of choice in studying cancer to detect alterations in the genome correlating with tumorigenesis. It is essential to compare genomic alterations in cancer with matched normal DNA from the same individual largely due to incomplete knowledge of the “normal” variations. There have been concerted efforts for targeted sequencing of cancer-related exomes in a high throughput manner. However, the needs to process multiple samples simultaneously while maintaining the complexity of libraries have not been addressed adequately. Fragment library generation for single- and paired-end reads is typically performed by a series of enzymatic steps following gDNA shearing by ultrasonication. These may include end-repair, A-tailing, and ligation, each followed by bead- or column-based purification. The clean-ups are necessary to prevent enzyme activity carryover from one step to another. We have developed a single-tube method to take sheared, bead size-selected DNA through end-repair, A-tailing, and ligation without intermittent purifications. The A-tailing is done by a thermophilic polymerase at a temperature sufficient to denature the end-repair enzymes. Ligation is performed by adding ligase and adaptors after cooling the reaction. A bead- or column-based purification is then performed after the ligation reaction to produce template for amplification. With the removal of the clean-up steps, the workflow is simplified, allowing faster processing of samples with less hands-on time. We also reduce loss of sample associated with the purifications, increasing the complexity of the output library or enabling a lower sample input concentration. Our method is well suited for labs which are producing multiple libraries each week but have not scaled up to full automation. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 102nd Annual Meeting of the American Association for Cancer Research; 2011 Apr 2-6; Orlando, FL. Philadelphia (PA): AACR; Cancer Res 2011;71(8 Suppl):Abstract nr 4851. doi:10.1158/1538-7445.AM2011-4851
Demonstration of a new technology which allows direct sensor integration on flexible substrates (2009)

In this work we present a fabrication method for developing thermal sensors on flexible organic substrates. The constructed devices consist of Pt resistors which are directly integrated to the copper tracks of a flexible copper-clad laminate. They reside on top of a 12 m thick SU-8 planarization layer, while a sacrificial layer utilized by the negative photoresist ma-N was used in order to define the resistor pattern. The resistors can act as both heating and temperature sensing elements, while due to small thickness and the low thermal conductivity of the Kapton substrate, a very effective thermal isolation is achieved. The minimum radius of curvature of the fabricated devices was found to be 5 mm. As the device is in direct communication to the macrowolrd, the need for wire bonding is eliminated, while the final surface of the produced sensor is relatively planar. The overall process is simple and cost-effective with minimal requirements in fabrication time. The potential application field of the presented devices is considered quite extensive as they can be directly expanded into flexible sensors able to measure quantities such as fluid flow rate, displacement or vacuum.
Loss of ATP Diphosphohydrolase Activity with Endothelial Cell Activation (1997)

Quiescent endothelial cells (EC) regulate blood flow and prevent intravascular thrombosis. This latter effect is mediated in a number of ways, including expression by EC of thrombomodulin and heparan sulfate, both of which are lost from the EC surface as part of the activation response to proinflammatory cytokines. Loss of these anticoagulant molecules potentiates the procoagulant properties of the injured vasculature. An additional thromboregulatory factor, ATP diphosphohydrolase (ATPDase; designated as EC 3.6.1.5) is also expressed by quiescent EC, and has the capacity to degrade the extracellular inflammatory mediators ATP and ADP to AMP, thereby inhibiting platelet activation and modulating vascular thrombosis. We describe here that the antithrombotic effects of the ATPDase, like heparan sulfate and thrombomodulin, are lost after EC activation, both in vitro and in vivo. Because platelet activation and aggregation are important components of the hemostatic changes that accompany inflammatory diseases, we suggest that the loss of vascular ATPDase may be crucial for the progression of vascular injury.
Soluble activin receptor type IIB increases forward pulling tension in the mdx mouse (2011)

Myostatin inhibition increases muscle mass without altering the fundamental weakness characteristic of dystrophic muscle. Cotreatment with an NF-κB inhibitor potentiates the effects of myostatin inhibition in improving FPT in mdx mice.
Aberrant Adenylyl Cyclase/cAMP Signal Transduction and G Protein Levels in Platelets From Hypertensive Patients Improve With Antihypertensive Drug Therapy (1996)

We have previously demonstrated a decreased expression of Gi alpha 2 protein in platelets from spontaneously hypertensive rats that was associated with an altered responsiveness of adenylyl cyclase to hormone stimulation and inhibition. In the present studies, we have used platelets from hypertensive patients and examined the hormonal regulation of adenylyl cyclase as well as the levels of G proteins and their modulation by antihypertensive drug therapy. We performed these studies in platelets from four groups of subjects: normotensive subjects (group 1), untreated mildly essential hypertensive patients (group 2), and treated moderately to severely hypertensive patients whose blood pressure was uncontrolled (group 3) or controlled with drug treatment (group 4). GTP gamma S, 5'-(N-ethylcarboxamido)adenosine (NECA), and prostaglandin E1 stimulated adenylyl cyclase activity to a greater extent in hypertensive patients (group 2). This effect was partially corrected (by approximately 50% to 80%) in the patients under antihypertensive drug therapy (groups 3 and 4). In addition, inhibition of adenylyl cyclase mediated by a ring-deleted analogue of atrial natriuretic factor (C-ANF4.23) observed in control normotensive subjects was blunted in hypertensive patients (group 2) and was not corrected in treated patients. Gi alpha levels determined by immunoblotting were in the same range for the four groups, whereas Gi alpha 2 and Gi alpha 3 levels were decreased by 70% and 60%, respectively, in hypertensive patients (group 2) compared with normotensive subjects. Antihypertensive drug therapy (groups 3 and 4) partially restored Gi alpha 2 levels toward normal (group 1) by about 60% and 70%, respectively; however, the reduced Gi alpha 3 levels in group 2 hypertensive patients were not improved in group 3 but were raised toward normal levels in group 4 by about 55%. These results suggest that the altered responsiveness of platelet adenylyl cyclase to hormones in hypertension and the normalization of the response with antihypertensive drug therapy could partly be due to the ability of the latter to modulate Gi alpha protein expression. These effects on platelet function may underlie the beneficial effects of antihypertensive agents on some of the complications of hypertension.
Pressure Ulcer Prevention in the Hospital Setting Using Silicone Foam Dressings (2016)

Patient care is of the utmost importance in the hospital setting. Bedrest and immobility during hospitalization, especially in the surgical and intensive care setting, place the patient at high risk for pressure ulcers. It is very important to prevent or notice a pressure ulcer forming due to the significant health care costs involved and patient health associated with them. Various measures are in place to prevent patients from getting pressure ulcers, but a newer material, silicone foam dressings, has been introduced as an alternative solution for the prevention of these ulcers. We review the current literature to examine whether the standard protocol or silicone material is superior to the prevention of pressure ulcer formation. We conclude that silicone foam dressings, when used as prophylactic treatment, seems very promising and may even be superior to the standard care of prevention. However, there were limitations to some studies and further research is needed to confirm the role of silicone foam dressings.
Acetylcholinesterase Enhances Neurite Growth and Synapse Development through Alternative Contributions of Its Hydrolytic Capacity, Core Protein, and Variable C Termini (1998)

Accumulated indirect evidence suggests nerve growth-promoting activities for acetylcholinesterase (AChE). To determine unequivocally whether such activities exist, whether they are related to the capacities of this enzyme to hydrolyze acetylcholine and enhance synapse development, and whether they are associated with alternative splicing variants of AChEmRNA, we used four recombinant human AChEDNA vectors. When Xenopus laevis embryos were injected with a vector expressing the synapse-characteristic human AChE-E6, which contains the exon 6-encoded C terminus, cultured spinal neurons expressing this enzyme grew threefold faster than co-cultured control neurons. Similar enhancement occurred in neurons expressing an insertion-inactivated human AChE-E6-IN protein, containing the same C terminus, and displaying indistinguishable immunochemical and electrophoretic migration properties from AChE-E6, but incapable of hydrolyzing acetylcholine. In contrast, the nonsynaptic secretory human AChE-I4, which contains the pseudointron 4-derived C terminus, did not affect neurite growth. Moreover, no growth promotion occurred in neurons expressing the catalytically active C-terminally truncated human AChE-E4, demonstrating a dominant role for the E6-derived C terminus in neurite extension. Also, AChE-E6 was the only active enzyme variant to be associated with Xenopus membranes. However, postsynaptic length measurements demonstrated that both AChE-E6 and AChE-E4 enhanced the development of neuromuscular junctions in vivo, unlike the catalytically inert AChE-E6-IN and the nonsynaptic AChE-I4. These findings demonstrate an evolutionarily conserved synaptogenic activity for AChE that depends on its hydrolytic capacity but not on its membrane association. Moreover, this synaptogenic effect differs from the growth-promoting activity of AChE, which is unrelated to its hydrolytic capacity yet depends on its exon 6-mediated membrane association.
Cell Adhesion Molecules in Neural Histogenesis (1986)

Mitochondrial fatty acid β-oxidation (FAO) is the major pathway for the degradation of fatty acids and is essential for maintaining energy homeostasis in the human body. Fatty acids are a crucial energy source in the postabsorptive and fasted states when ...Read More
The Early Experience with a Totally Laparoscopic Distal Gastrectomy (2005)

Purpose: In Korea, the number of laparoscopy-assisted distal gastrectomies for early gastric cancer patients has been increasing lately. Although minimally invasive surgery is more beneficial, no reported case of a totally laparoscopic distal gastrectomy has been reported because of difficulty with intracorporeal anastomosis. This study attempts, through our experiences, to determine the feasibility of a totally laparoscopic distal gastrectomy using an intracorporeal gastroduodenostomy in treating early gastric carcinoma. Materials and Methods: We investigated surgical results and clinicopatholgic characteristics of eight(8) patients with an early gastric carcinoma who underwent a totally laparoscopic distal gastrectomy at the Department of Surgery, Our Lady of Mercy Hospital, The Catholic University of Korea, between June 2004 and September 2004. The intracorporeal gastroduodenostomy was performed with a delta-shaped ananstomosis by using only laparoscopic linear staplers (Endocutter 45mm; Ethicon Endosurgery, OH, USA). Results: The operative time was minutes (range minutes), and the anastomotic time was minutes (range minutes). The anastomotic time was shortened as surgical experience was gained. The number of laparoscopic linear staplers for an operation was . The number of lymph nodes harvested was . There was 1 case of transfusion and no case of conversion to an open procedure. The time to the first flatus was 2.80.5 days, and the time to the first food intake was days. There were no early postoperative complications, and the postoperative hospital stay was days. Conclusion: A totally laparoscopic distal gastrectomy using an intracorporeal gastroduodenostomy with a delta-shaped anastomosis is technically feasible and can maximize the benefit of laparoscopic surgery for early gastric cancer.
FP312Crystal clots as therapeutic target in cholesterol crystal embolization (2019)

prediction improves to a maximum accuracy of 85% and 90% with 2 microRNA and 3 microRNA combinations, respectively.
Naturally occurring persistent and asymptomatic infection of the guttural pouches of horses with Streptococcus equi (1997)

During an outbreak of strangles on a farm with approximately 1500 horses, the spread of Streptococcus equi infection was monitored by repeated nasopharyngeal swabbing and culture. In order to control the infection and prevent new introductions of strangles on to the premises, a system of quarantine and swabbing of cases and all incoming animals was instituted. Long-term carriage of the organism was detected in four clinically healthy convalescent animals, and in two of 350 new ponies; it persisted for between seven and 39 months, but it was detected only intermittently by the culture of swabs which was a much less sensitive method than the culture of guttural pouch lavages taken by endoscopy (45 per cent v 88 per cent sensitivity, respectively, for any single sample). Repeated swabs were often negative for several weeks between positive samples. Nonetheless, in all but one of the long-term carriers, S equi was detected by culture of repeated swabs taken over a period of less than two to three months. Infection was detected unilaterally in the guttural pouches of five of the carriers and was accompanied by large numbers of neutrophils in the lavage samples whether or not there was empyema. Abnormalities of the affected guttural pouches were detectable by radiography but only after the instillation of contrast medium. The study indicated that clinically healthy long-term carriers of S equi present a serious risk of spreading strangles, particularly because they may be detected only by repeated nasopharyngeal swabbing over two to three months.
The influence on the immunomodulatory effects of dying and dead cells of Annexin V (2006)

Apoptotic and necrotic cells expose phosphatidylserine (PS). This membrane modification ensures a swift recognition and uptake by phagocytes of the dying and dead cells. Annexin V (AxV) preferentially binds to anionic phospholipids and thereby, modulates the clearance process. First, we analyzed the influence of AxV on the immunogenicity of apoptotic cells. The addition to apoptotic cells of AxV prior to their injection into mice increased their immunogenicity significantly. Next, we studied the influence of endogenous AxV on the allogeneic reaction against apoptotic and necrotic cells. To preserve heat-labile, short-lived "danger signals," we induced necrosis by mechanical stress. Wild-type mice showed a strong, allogeneic delayed-type hypersensitivity (DTH) reaction. In contrast, AxV-deficient animals showed almost no allogeneic DTH reaction, indicating that endogenous AxV increases the immune response against dead cells. Furthermore, AxV-deficient macrophages had a higher immunosuppressive potential in vitro. Next, we analyzed the influence of AxV on chronic macrophage infection with HIV-1, known to expose PS on its surface. The infectivity in human macrophages of HIV-1 was reduced significantly in the presence of AxV. Finally, we show that AxV also blocked the in vitro uptake by macrophages of primary necrotic cells. Similar to apoptotic cells, necrotic cells generated by heat treatment displayed an anti-inflammatory activity. In contrast, mechanical stress-induced necrotic cells led to a decreased secretion of IL-10, indicating a more inflammatory potential. From the experiments presented above, we conclude that AxV influences the clearance of several PS-exposing particles such as viruses, dying, and dead cells.
Ordered Mesoporous Silica SBA‐15: A New Effective Adjuvant to Induce Antibody Response (2005)

Adding to antibodies: Ordered mesoporous silicas such as SBA-15 may be used as adjuvants to carry, protect, and deliver entrapped antigens, thereby assuring efficient stimulation of antigen-presenting cells and improving antibody responsiveness. Thus, SBA-15 and related silica mesostructures seem to be promising nanosystems for vaccine delivery. Venom proteins from the Micrurus ibiboboca snake (see picture) were utilized in the study.
Locating and identifying components in a robot's workspace using a hybrid computer architecture (2002)

This paper describes a system that locates and identifies components in an automated manufacturing process. The system uses a network of processors (an array of transputers) to construct and hold the workspace model, and to extract the feature measurements used to facilitate component identification. A MLP artificial neural network is then used to identify the components using the feature measurements obtained from the model. In an earlier version of this system goodness-of-fit was used to classify components, however, that method has drawbacks that neural networks overcome. The original design of the system was modular enabling a straightforward substitution of the component classification methods.
c-Myc target gene specificity is determined by a post-DNAbinding mechanism (1998)

Uncertainty as to which member of a family of DNA-binding transcription factors regulates a specific promoter in intact cells is a problem common to many investigators. Determining target gene specificity requires both an analysis of protein binding to the endogenous promoter as well as a characterization of the functional consequences of transcription factor binding. By using a formaldehyde crosslinking procedure and Gal4 fusion proteins, we have analyzed the timing and functional consequences of binding of Myc and upstream stimulatory factor (USF)1 to endogenous cellular genes. We demonstrate that the endogenous cad promoter can be immunoprecipitated with antibodies against Myc and USF1. We further demonstrate that although both Myc and USF1 can bind to cad, the cad promoter can respond only to the Myc transactivation domain. We also show that the amount of Myc bound to the cad promoter fluctuates in a growth-dependent manner. Thus, our data analyzing both DNA binding and promoter activity in intact cells suggest that cad is a Myc target gene. In addition, we show that Myc binding can occur at many sites in vivo but that the position of the binding site determines the functional consequences of this binding. Our data indicate that a post-DNA-binding mechanism determines Myc target gene specificity. Importantly, we have demonstrated the feasibility of analyzing the binding of site-specific transcription factors in vivo to single copy mammalian genes.
Alanine Scanning Mutagenesis of the Prototypic Cyclotide Reveals a Cluster of Residues Essential for Bioactivity (2008)

The cyclotides are stable plant-derived mini-proteins with a topologically circular peptide backbone and a knotted arrangement of three disulfide bonds that form a cyclic cystine knot structural framework. They display a wide range of pharmaceutically important bioactivities, but their natural function is in plant defense as insecticidal agents. To determine the influence of individual residues on structure and activity in the prototypic cyclotide kalata B1, all 23 non-cysteine residues were successively replaced with alanine. The structure was generally tolerant of modification, indicating that the framework is a viable candidate for the stabilization of bioactive peptide epitopes. Remarkably, insecticidal and hemolytic activities were both dependent on a common, well defined cluster of hydrophilic residues on one face of the cyclotide. Interestingly, this cluster is separate from the membrane binding face of the cyclotides. Overall, the mutagenesis data provide an important insight into cyclotide biological activity and suggest that specific self-association, in combination with membrane binding mediates cyclotide bioactivities.