gebhart/patrepeval huggingface dataset:
Ventilation-Based Decellularization System of the Lung (2016)

The demand for donated organs greatly exceeds the availability. Alternatives to organ donation, such as laboratory-engineered organs, are therefore being developed. One approach is to decellularize the organ and reseed it with selected cells, ideally from the organ recipient. Organ decellularization has typically been attempted by the administration of detergents into vessels such as the portal vein in the liver. However, in the case of the lung, the airway provides another potential administration route, because it has a wide contact area between cells and detergents in the tracheal tree and alveoli. In the present study, we introduce a novel ventilation-based decellularization system for the lung and compare its efficacy to ordinary decellularization systems administering detergent through the pulmonary artery. Rat lungs were decellularized using 500 mL of 3-[(3-cholamidopropyl) dimethylammonio]-1-Propanesulfonate (CHAPS) decellularization solution administrated through the pulmonary artery (vessel group) or through the trachea (airway group). The vessel group was infused CHAPS solution using a gravitational pressure head of 20 cmH2O. The airway group was infused with the detergent using negative pressure and positive end-expiratory pressure, for a volume 10cc with each inspiration in a bioreactor. Pathological and immunohistochemical findings indicated that components of the extracellular matrix (ECM), including proteoglycans, elastic fibers, fibronectin, and laminin, were more decreased in the airway group than in the vessel group. Western blot analysis showed that MHC class I antigen and β-actin were not detected in both decellularized groups. A collagen assay showed that collagen was 70% preserved in both groups compared to native lung. Glycosaminoglycan (GAG) and DNA assays showed that GAG and DNA contents were strongly diminished in both decellularized groups, but those contents were smaller in the airway group than in the vessel group. Accordingly, the alveolar wall was thinner on electron microscopy, and DNA remnants were not observed in the airway group. Infusion of red blood cells indicated that capillary walls were preserved without blood leakage in both groups. In conclusion, we describe a novel approach for decellularization through the airway that represents a more stringent method for both DNA and ECM removal, with capillary wall preservation.
ChemInform Abstract: Insights on the Conformational Stability of Collagen (2002)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
On the Cost and Benefit of Cooperation (Extended Version) (2015)

In a cooperative coding scheme, network nodes work together to achieve higher transmission rates. To obtain a better understanding of cooperation, we consider a model in which two transmitters send rate-limited descriptions of their messages to a "cooperation facilitator", a node that sends back rate-limited descriptions of the pair to each transmitter. This model includes the conferencing encoders model and a prior model from the current authors as special cases. We show that except for a special class of multiple access channels, the gain in sum-capacity resulting from cooperation under this model is quite large. Adding a cooperation facilitator to any such channel results in a network that does not satisfy the edge removal property. An important special case is the Gaussian multiple access channel, for which we explicitly characterize the sum-rate cooperation gain.
Wnt3a Activates Dormant c-Kit− Bone Marrow-Derived Cells with Short-Term Multilineage Hematopoietic Reconstitution Capacity (2010)

Quiescent cells lacking expression of mature lineage makers and the c-Kit receptor reside in adult bone marrow. Despite their phenotypic similarity to hematopoietic stem cells, these Lin(-)Sca-1(+)c-Kit(-) cells lack myeloid and erythroid potential and long-term hematopoietic repopulating capacity, whereas, recent studies have functionally demonstrated that the Lin(-)Sca-1(+)c-Kit(-) population contains early lymphoid-committed progenitors. Examining the role of Wnt signaling in regulation of this population, we found that c-Kit(-) cells express diverse Wnt receptors and proliferate upon Wnt pathway activation in vitro and in vivo. Stimulation with Wnt3a, but not Wnt5a or Wnt11, promoted c-Kit(-) cells to give rise to myeloid and erythroid progenitors with robust self-renewal capacity measured by clonal replating. In addition, Wnt3a-stimulated c-Kit(-) cells gave rise to all hematopoietic lineages (lymphoid, myeloid, and erythroid) upon transplant into the liver of newborn recipient mice. Our study reveals that Wnt3a activates unique cell fate decisions of dormant c-Kit(-) that promotes short-term multilineage reconstitution capacity in vivo, thereby revealing a unique role for Wnt activation in hematopoiesis. Overall, our results highlight the potential of utilizing signaling molecules known to have instructive roles in regeneration to discover cell subsets residing in adult organisms with unexploited regenerative capacity.
Hydraulic system modeling through memory-based learning (2002)

Hydraulic machines used in a number of applications are highly non-linear systems. Besides the dynamic coupling between the different links, there are significant actuator nonlinearities due to the inherent properties of the hydraulic system. Automation of such machines requires the robotic machine to be at least as productive as a manually operated machine, which in turn makes the case for performing tasks optimally with respect to an objective function (say) composed of a combination of time and fuel usage. Optimal path computation requires fast machine models in order to be practically usable. This work examines the use of memory-based learning in constructing the model of a 25-ton hydraulic excavator. The learned actuator model is used in conjunction with a linkage dynamic model to construct a complete excavator model which is much faster than a complete analytical model. Test results show that the approach effectively captures the interactions between the different actuators.
The Effects of Interactive Stairways on User Behavior and Safety (2014)

The social context for stairway design in multi-story buildings is changing. At one time, stairways were viewed primarily as a means of egress in an emergency, and elevators or escalators were the primary method of vertical circulation with the exception of monumental &amp;ldquo;feature&amp;rdquo; stairways. Today, the emphasis is changing to promote the use of stairways in buildings as opposed to use of elevators due to the health benefits of stair climbing. This is providing an opportunity for architects and building owners to experiment with innovative designs. One interesting innovation is the &amp;ldquo;interactive stairway.&amp;rdquo; Little is known about the impact of these interventions on the rate of stair accidents. The purpose of this study was to assess the safety of interactive stairway designs by comparing the user's behavior and the incidence of unsafe stair use on two interactive stairways with a stairway made of conventional material. A checklist for recording observations of stair users was developed. Observations were conducted in two museum buildings with interactive stairways and in one university building with a conventional stairway. Safety-related behaviors and incidents on the interactive stairways (CM and SM) and the conventional stairway (SU) were documented and compared. On the interactive stairways, more stair users glanced down at the treads (CM: 90%, SM: 81% vs. SU: 53%); fewer stair users diverted their gaze away from the stairs (CM: 22%, SM: 32% vs. SU: 66%); and handrail use was higher (CM: 40%, SM: 33% vs. SU: 28%). Incident rates were similar across the stairways (CM: 2.2%, SM: 2.2%, SU: 2.6%). The research suggests that interactivity can improve stair safety if used appropriately.
Dynamic network kriging (2012)

Path delays in IP networks are important metrics, required by network operators for assessment, planning, and fault diagnosis. Monitoring delays of all source-destination pairs in a large network is however challenging and wasteful of resources. The present paper develops a spatio-temporal prediction approach to track and predict network-wide path delays using measurements on only a few paths. The proposed algorithm uses a space-time Kalman filter that exploits both topological as well as historical data. The resulting predictor is optimal in the class of linear predictors, and outperforms competing alternatives on real-world datasets.
A detailed evaluation of the current renal response criteria in AL amyloidosis: is it time for a revision? (2013)

Organ response correlates with overall survival in patients with immunoglobulin light chain amyloidosis and is the goal of treatment. This study evaluates the current renal response criteria and their ability to predict overall survival. Patients with immunoglobulin light chain amyloidosis who underwent autologous stem cell transplantation between 1995 and 2010 were recruited. Eligibility criteria included >1 g/dL of proteinuria, dialysis independence at baseline and within the first year of autologous stem cell transplantation, and a minimum follow-up of 1 year. Responses were assessed by the best values after autologous stem cell transplantation. The difference between involved and uninvolved serum free light chain levels was used to determine hematologic response. Increases in serum creatinine were calculated from the highest creatinine after autologous stem cell transplantation. Inclusion and exclusion criteria were met by 141 patients. These patients had a median follow-up of 52 months. Superior overall survival was observed in patients with a >75% reduction in proteinuria and those who had a >95% reduction had additional benefits. The overall survival of patients with >50% to ≤75% proteinuria was similar to that of patients with ≤50% reduction. A rise in serum creatinine >25% was not associated with a poorer outcome in patients with a >75% reduction in proteinuria. Deeper hematologic responses were associated with higher rates of proteinuria reduction. These results suggest that further evaluation of the current renal response criteria is needed. In particular, discrimination of the renal response into complete and partial categories and modification of the serum creatinine requirement seem justified.
ChemInform Abstract: Fe2 (SO4) 3·H2SO4·28H2O, a Low‐Temperature Water‐Rich Iron(III) Sulfate. (2013)

Abstract Violet crystals of the title compound are obtained from aqueous solutions of Fe 2 (SO 4 ) 3 containing 5—20% H 2 SO 4 (235—239 K).
Supplementary Methods, Figure Legends from A Small Molecule That Binds and Inhibits the ETV1 Transcription Factor Oncoprotein (2023)

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Plunger-Lift Advancements, Including Velocity and Pressure Analysis (2007)

Abstract The interest in and demand for natural gas in the past few years has dramatically shifted the focus for many operators. Plunger lift, which for many years was viewed as a last resort, and somewhat of a nuisance, has gained an all time high in popularity and effectiveness and applicability. Much of the guesswork in evaluating candidates has now been replaced with exotic programs that combine Nodal analysis with performance based calculations. In recent years both equipment and applications have improved, and the production range of plunger lift now includes many wells previously not possible to produce with plunger lift. Being able to correctly assess applicability, and identify the best type system is reducing the trial and error process previously associated with plunger lift evaluations and operations.
Targeting the DFG-In Kinase Conformation: A New Trend Emerging from a Patent Analysis (2011)

Aberrant kinase signaling leads to a multitude of disease states. The clinical and commercial success of agents typified by imatinib or dasatinib in the treatment of hematological malignancies has further validated kinase inhibition as a useful clinical strategy. This increased interest in kinases as therapeutic targets is evidenced by the rapidly increasing number of patent applications and peer-reviewed articles. This article discusses recent Patent that describe small molecules targeting the DFG-in active kinase conformation, by the so-called 'Type I½' inhibitor, against a small set of clinically relevant targets such as B-Raf, p38α, Jak2 and EphB4. Preclinical and clinical data are also highlighted for the most promising new molecular entities.
Study of chemical carcinogenesis. 22. Synthesis of dihydro diols as potential proximate carcinogens of benzofluoranthenes (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStudy of chemical carcinogenesis. 22. Synthesis of dihydro diols as potential proximate carcinogens of benzofluoranthenesShantilal Amin, Victoria Bedenko, Edmond LaVoie, Stephen S. Hecht, and Dietrich HoffmannCite this: J. Org. Chem. 1981, 46, 12, 2573–2578Publication Date (Print):June 1, 1981Publication History Published online1 May 2002Published inissue 1 June 1981https://pubs.acs.org/doi/10.1021/jo00325a028https://doi.org/10.1021/jo00325a028research-articleACS PublicationsRequest reuse permissionsArticle Views214Altmetric-Citations7LEARN 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
Anticoagulant activity of dextran derivatives (1998)

Carboxymethyl dextran benzylamide sulfonate/sulfates (CMDBS) are synthetic polysaccharides with anticoagulant activity. We synthesized eight different highly substituted CMDBS and one CMDSu. We studied both their anticoagulant activity and the catalysis of thrombin (T) inhibition by heparin cofactor II (HCII) and antithrombin (AT) in the presence of these dextran derivatives relative to heparin and dextran sulfate (DXSu). The anticoagulant activity of CMDBS was due both to direct thrombin inhibition and to catalysis of thrombin inhibition by HCII. The anticoagulant and catalytic activities of CMDBS were related mainly to their molecular weight and sulfate content. The interaction of the dextran derivatives with thrombin does not involve the active site of the enzyme. A kinetic study showed that all the CMDBS exhibited higher affinity for thrombin than heparin did but lower affinity than DXSu did, suggesting that the benzylamide and sulfate groups potentiate the interaction between the dextran derivatives and thrombin. This study shows that the mechanism by which the dextran derivatives inhibit thrombin is original and is related to preferential interaction with thrombin; this both inhibits the clotting activity of the enzyme and increases the reaction rate of thrombin inhibition by HCII.
Time Reversal Precoding at SubTHz Frequencies: Experimental Results on Spatiotemporal Focusing (2021)

Due to availability of large spectrum chunks, the sub-TeraHertz (subTHz) frequency band can support Ultra-WideBand (UWB) wireless communications, paving the way for unprecedented increase in the wireless network capacity. This fact is expected to be the next breakthrough for the upcoming sixth Generation (6G) standards. However, the technology of subTHz transceivers is not yet mature enough to apply the advanced signal processing currently being implemented for millimeter wave wireless communications. In this paper, we consider the Time Reversal (TR) precoding technique, which provides simple and robust processing capable to offer highly focalized in time and space UWB waveforms, exploiting the spatial diversity of wireless channels. We first investigate experimentally the performance of subTHz TR focusing in complex media inside a leaking reverberation cavity. We then combine TR with received spatial modulation to realize data communication using a simple non-coherent receiver with two antennas. Our results showcase the capability of TR to offer focusing in time in the order of few nanoseconds and in space in the order of less than 1 mm.
Closing the Floodgate with Stateless Content-Centric Networking (2017)

Information-Centric Networking (ICN) is a recent paradigm that claims to mitigate some limitations of the current IP-based Internet architecture. The centerpiece of ICN is named and addressable content, rather than hosts or interfaces. Content-Centric Networking (CCN) is a prominent ICN instance that shares the fundamental architectural design with its equally popular academic sibling Named- Data Networking (NDN). CCN eschews source addresses and creates one-time virtual circuits for every content request (called an interest). As an interest is forwarded it creates state in intervening routers and the requested content back is delivered over the reverse path using that state. Although a stateful forwarding plane might be beneficial in terms of efficiency and resilience to certain types of attacks, this has not been decisively proven via realistic experiments. Since keeping per-interest state complicates router operations and makes the infrastructure susceptible to router state exhaustion attacks (e.g., there is currently no effective defense against Interest Flooding attacks), the value of the stateful forwarding plane in CCN should be re-examined. In this paper, we explore supposed benefits and various problems of the stateful forwarding plane. We then argue that its benefits are uncertain at best and it should not be a mandatory CCN feature. To this end, we propose a new stateless architecture for CCN that provides nearly all functionality of the stateful design without its headaches. We analyze performance and resource requirements of the proposed architecture via experiments.
Demonstration of universal time-reversal for quantum processes (2023)

Current protocols to revert time evolutions of quantum systems suffer either from low success probabilities, or from not being universal - they require knowledge about the evolving state, its evolution, or the interaction through which the evolution is reverted. We overcome these limitations, and demonstrate a novel universal time-reversal protocol by implementing it on a photonic platform using a quantum SWITCH. The schemes universality is verified and a clear quantum advantage with respect to the optimal classical stragegy is shown through running the protocol on a large parameter set and reverting a photons' polarization state with an average state fidelity of over 95%.
Mimicry of embryonic circulation enhances the hoxa hemogenic niche and human blood development (2022)

Precursors of the adult hematopoietic system arise from the aorta-gonad-mesonephros (AGM) region shortly after the embryonic circulation is established. Here, we develop a microfluidic culture system to mimic the primitive embryonic circulation and address the hypothesis that circulatory flow and shear stress enhance embryonic blood development. Embryonic (HOXA<sup>+</sup>) hematopoiesis was derived from human pluripotent stem cells and induced from mesoderm by small-molecule manipulation of TGF-β and WNT signaling (SB/CHIR). Microfluidic and orbital culture promoted the formation of proliferative CD34<sup>+</sup>RUNX1C-GFP<sup>+</sup>SOX17-mCHERRY<sup>+</sup> precursor cells that were released into the artificial circulation from SOX17<sup>+</sup> arterial-like structures. Single-cell transcriptomic analysis delineated extra-embryonic (yolk sac) and HOXA<sup>+</sup> embryonic blood differentiation pathways. SB/CHIR and circulatory flow enhance hematopoiesis by the formation of proliferative HOXA<sup>+</sup>RUNX1C<sup>+</sup>CD34<sup>+</sup> precursor cells that differentiate into monocyte/macrophage, granulocyte, erythrocyte, and megakaryocyte progenitors.
The adenovirus DNA binding protein enhances intermolecular DNA renaturation but inhibits intramolecular DNA renaturation (1993)

The Adenovirus DNA binding protein (DBP) imposes a regular, rigid and extended conformation on single stranded DNA (ssDNA) and removes secondary structure. Here we show that DBP promotes renaturation of complementary single DNA strands. Enhancement of intermolecular renaturation is sequence independent, can be observed over a broad range of ionic conditions and occurs only when the DNA strands are completely covered with DBP. When one strand of DNA is covered with DBP and its complementary strand with T4 gene 32 protein, renaturation is still enhanced compared to protein-free DNA, indicating that the structures of both protein-DNA complexes are compatible for renaturation. In contrast to promoting intermolecular renaturation, DBP strongly inhibits intramolecular renaturation required for the formation of a panhandle from an ssDNA molecule with an inverted terminal repeat. We explain this by the rigidity of an ssDNA-DBP complex. These results will be discussed in view of the crystal structure of DBP that has recently been determined.
Efficient Numerical Methods for Secrecy Capacity of Gaussian MIMO Wiretap Channel (2021)

This paper presents two different low-complexity methods for obtaining the secrecy capacity of multiple-input multiple-output (MIMO) wiretap channel subject to a sum power constraint (SPC). The challenges in deriving computationally efficient solutions to the secrecy capacity problem are due to the fact that the secrecy rate is a difference of convex functions (DC) of the transmit covariance matrix, for which its convexity is only known for the degraded case. In the first method, we capitalize on the accelerated DC algorithm, which requires solving a sequence of convex subproblems. In particular, we show that each subproblem indeed admits a water-filling solution. In the second method, based on the equivalent convex-concave reformulation of the secrecy capacity problem, we develop a so-called partial best response algorithm (PBRA). Each iteration of the PBRA is also done in closed form. Simulation results are provided to demonstrate the superior performance of the proposed methods.