bluuebunny/crossref_metadata_2025_split huggingface dataset:
ctDNA MRD Detection and Personalized Oncogenomic Analysis in Oligometastatic Colorectal Cancer From Plasma and Urine
Authors: Pellini Bruna , Pejovic Nadja , Feng Wenjia , Earland Noah , Harris Peter K. , Usmani Abul , Szymanski Jeffrey J. , Qaium Faridi , Mudd Jacqueline , Petty Marvin , Jiang Yuqiu , Singh Ashla , Maher Christopher A. , Henke Lauren E. , Park Haeseong , Ciorba Matthew A. , Kim Hyun , Mutch Matthew G. , Pedersen Katrina S. , Tan Benjamin R. , Hawkins William G. , Fields Ryan C. , Chaudhuri Aadel A. 
Published: February 2021

PURPOSE We hypothesized that circulating tumor DNA (ctDNA) molecular residual disease (MRD) analysis without prior mutational knowledge could be performed after neoadjuvant chemotherapy to assess oligometastatic colorectal cancer (CRC) treated surgically with curative intent. We also investigated urine as an alternative analyte for ctDNA MRD detection in this nongenitourinary setting. PATIENTS AND METHODS We applied AVENIO targeted next-generation sequencing to plasma, tumor, and urine samples acquired on the day of curative-intent surgery from 24 prospectively enrolled patients with oligometastatic CRC. Age-related clonal hematopoiesis was accounted for by removing variants also present in white blood cells. Plasma and urine ctDNA MRD were correlated with tumor cells detected in the surgical specimen, and adjuvant treatment strategies were proposed based on ctDNA-inferred tumor mutational burden (iTMB) and targetable alterations. RESULTS Seventy-one percent of patients were treated with neoadjuvant chemotherapy. Tumor-naive plasma ctDNA analysis detected MRD at a median level of 0.62% with 95% sensitivity and 100% specificity, and 94% and 77% sensitivity when only considering patients treated with neoadjuvant chemotherapy and putative driver mutations, respectively. In urine, ctDNA MRD detection specificity remained high at 100%, but sensitivity decreased to 64% with median levels being 11-fold lower than in plasma ( P < .0001). Personalized ctDNA MRD oncogenomic analysis revealed 81% of patients might have been candidates for adjuvant immunotherapy based on high iTMB or targeted therapy based on actionable PIK3CA mutations. CONCLUSION Tumor-naive plasma ctDNA analysis can sensitively and specifically detect MRD in patients with oligometastatic CRC after neoadjuvant chemotherapy. Urine-based ctDNA MRD detection is also feasible; however, it is less sensitive than plasma because of significantly lower levels. Oligometastatic patients with detectable MRD may benefit from additional personalized treatment based on ctDNA-derived oncogenomic profiling.
Intraoperative Hypotension and Myocardial Infarction Development Among High-Risk Patients Undergoing Noncardiac Surgery: A Nested Case-Control Study
Authors: Hallqvist Linn , Granath Fredrik , Fored Michael , Bell Max 
Published: February 2021

BACKGROUND:
Hemodynamic instability during anesthesia and surgery is common and associated with cardiac morbidity and mortality. Information is needed regarding optimal blood pressure (BP) threshold in the perioperative period. Therefore, the effect of intraoperative hypotension (IOH) on risk of perioperative myocardial infarction (MI) was explored.

METHODS:
A nested case-control study with patients developing MI <30 days postsurgery matched with non–MI patients, sampled from a large surgery cohort. Study participants were adults undergoing noncardiac surgery at 3 university hospitals in Sweden, 2007–2014. Matching criteria were age, sex, American Society of Anesthesiologists (ASA) physical status, cardiovascular disease, hospital, year-, type-, and extent of surgery. Medical records were reviewed to validate MI diagnoses and retrieve information on comorbid history, baseline BP, laboratory and intraoperative data. Main exposure was IOH, defined as a decrease in systolic blood pressure (SBP), in mm Hg, from preoperative individual resting baseline lasting at least 5 minutes. Outcomes were acute MI, fulfilling the universal criteria, subclassified as type 1 and 2, occurring within 30 days and mortality beyond 30 days among case and control patients. Conditional logistic regression assessed the association between IOH, decrease in SBP from individual baseline, and perioperative MI. Mortality rates were estimated using Cox proportional hazards. Relative risk estimates are reported as are the corresponding absolute risks derived from the well-characterized source population.

RESULTS:
A total of 326 cases met the inclusion criteria and were successfully matched with 326 controls. The distribution of MI type was 59 (18%) type 1 and 267 (82%) type 2. Median time to MI diagnosis was 2 days; 75% were detected within a week of surgery. Multivariable analysis acknowledged IOH as an independent risk factor of perioperative MI. IOH, with reduction of 41–50 mm Hg, from individual baseline SBP, was associated with a more than tripled increased odds, odds ratio (OR) = 3.42 (95% confidence interval [CI], 1.13-10.3), and a hypotensive event >50 mm Hg with considerably increased odds in respect to MI risk, OR = 22.6, (95% CI, 7.69-66.2). In patients with a very high-risk burden, the absolute risk of an MI diagnosis increased from 3.6 to 68 per 1000 surgeries.

CONCLUSIONS:
In patients undergoing noncardiac surgery, IOH is a possible contributor to clinically significant perioperative MI. The high absolute MI risk associated with IOH, among a growing population of patients with a high-risk burden, suggests that increased vigilance of BP control in these patients may be beneficial.
Association Between Intraoperative Remifentanil Dosage and Postoperative Opioid Consumption in Adolescent Idiopathic Spine Surgery: A Retrospective Cohort Study
Authors: Lo Calvin , Schwindt Stephanie , Sharma Richa , Dubé Rebecca , Faraoni David , Steinberg Benjamin E. , Brown Stephen 
Published: February 2021

BACKGROUND:
Adolescent idiopathic scoliosis (AIS) surgery is associated with significant postoperative pain. Remifentanil is a short-acting opioid that is often used as a component of total intravenous anesthesia. Remifentanil has been implicated in acute opioid tolerance and opioid-induced hyperalgesia, resulting in increased postoperative pain and opioid consumption. This retrospective study sought to investigate the relationship between the dose of intraoperative remifentanil and cumulative postoperative opioid consumption through 72 hours following surgery for pediatric AIS patients.

METHODS:
We performed a retrospective chart review of adolescent patients undergoing posterior spine instrumentation under total intravenous general anesthesia at a single major pediatric center between January 2015 and October 2017. The relationship between intraoperative cumulative weight-adjusted remifentanil dose and logarithmic transformation of cumulative weight-adjusted opioid consumption through 72 hours following surgery was examined by regression analysis. A priori determined potential confounding variables were collected, including demographic data, perioperative analgesic agents (ie, ketamine, dexmedetomidine, and acetaminophen), surgical duration, vertebrae instrumented, and blood transfusion. Multivariable linear regression analysis was used to adjust for these possible confounding variables.

RESULTS:
Eighty-nine patients met inclusion criteria, of which 78 had complete data for analysis. Univariable linear regression analysis revealed no association between remifentanil dose and opioid consumption through 72 hours following surgery (slope = 0.79 [95% confidence interval [CI], 0.61-0.98; R
2 = 0.0039; P = .588]). After adjustment for possible confounding factors, no relationship between remifentanil dose (regression coefficient (coeff.) −0.08; 95% CI, −1.59 to 1.43; P = .912) and opioid consumption through 72 hours was found (slope =0.90 [95% CI, −0.65 to 2.46]; R
2 = 0.1634). Similar results were obtained when the model was repeated for opioid consumption in postanesthesia care unit (PACU).

CONCLUSIONS:
In this study examining adolescent patients undergoing surgery for idiopathic scoliosis, no association was found between the dose of intraoperative remifentanil and postoperative opioid consumption in the context of a propofol-based total intravenous anesthetic and multimodal analgesia. These results provide direction for future prospective controlled studies to further evaluate this relationship.
Chromosome numbers of some Asteraceae species from Universitas Indonesia Campus, Depok, Indonesia
Authors: SALAMAH ANDI , OKTARINA RIRIN , AMBARWATI EKA AYU , PUTRI DWI FAUZIYAH , DWIRANTI ASTARI , ANDAYANI NOVIAR 
Published: February 2021

Salamah A, Oktarina R, Ambarwati EA, Putri DF, Dwiranti A, Andayani N. 2018. Chromosome numbers of some Asteraceae species from Universitas Indonesia Campus, Depok, Indonesia. Biodiversitas 19: 2079-2087. Asteraceae is the largest plant family, comprising of more than 1,600 genera and 23,000 species with a worldwide distribution. Many species of Asteraceae are found to be very significantly abundant in a range of habitats and are used as sources of medicines, food, forage, and other useful products. Many cytological studies have been carried out on Asteraceae. However, information about the chromosome numbers of Asteraceae in Indonesia is still very limited. In this study, the chromosome numbers of 15 species of Asteraceae found around the Universitas Indonesia campus were counted. For chromosomal preparations, the root/shoot tips were pretreated with 2 mM 8-hydroxyquinoline, stained with aceto-orcein, prepared using the squash method, and then observed with a microscope. Of the 15 species, 12 showed variation in chromosome numbers: Cosmos caudatus, Elephantopus scaber, Tridax procumbens, Mikania micrantha, Sphagneticola trilobata, Ageratum conyzoides, Cyanthillium cinereum, Chromolaena odorata, Synedrella nodiflora, Youngia japonica, Eclipta prostrata, and Porophyllum ruderale. The other three species showed no variation in chromosome number: Emilia sonchifolia (2n=10), Sonchus arvensis (2n=18), and Cosmos sulphureus (2n=24). We also found new variations in chromosome numbers that have not yet been listed in the Index to Plant Chromosome Numbers (IPCN).
Short Communication: Trees species diversity and indicator species in Bedugul forest ecosystem, Bali, Indonesia
Authors: SUTOMO SUTOMO , DARMA I DEWA PUTU , PRIYADI ARIEF , IRYADI RAJIF 
Published: February 2021

Sutomo, Darma IDP, Priyadi A, Iryadi R. 2018. Trees species diversity and indicator species in Bedugul forest ecosystem, Bali, Indonesia. Biodiversitas 19: 2213-2218. Bedugul area is an endorheic basin landscape with 3 lakes namely, Beratan, Buyan, Tamblingan, which is surrounded by Bukit Mangu, Tapak and Lesung. Topography of the area shows sloping to steep slopes with altitude on the lake surface ± 1,100 m asl and the highest peak of Bukit Mangu 2002 m asl. Ecological studies have not been optimal so identification of comprehensive ecological potential is carried out. Measurement of tree vegetation diversity was carried out by Centered Quarter Method and important value ratio analysis and location elevation class. The results of the inventory of tree species diversity in the Bedugul Bali forest area recorded 35 species and 13 indicator tree species. From the number of indicator tree species in the Mangu hill forest area there are 5 types of Ficus sp, Platea latifolia, Polyosma integrifolia, Lindera sp. and Syzygium sp., Bukit Tapak forest area consists of 4 species, Casuarina junghuhniana, Acronychia trifoliate, Astronia spectabilis and Homalanthus giganteus, the forest area of ​​Bukit Lesung consists of 4 types of Lophopetalum javanicum, Syzygium racemosum, Dysoxylum nutans and Dendrocnide peltata.
Molecular identification, abundance and distribution of the coral-killing sponge Terpios hoshinota in Bengkulu and Seribu Islands, Indonesia
Authors: UTAMI RISNITA TRI , ZAMANI NEVIATY P. , MADDUPPA HAWIS H. 
Published: February 2021

Utami RT, Zamani NP, Madduppa HH. 2018. Molecular identification, abundance and distribution of the coral-killing sponge Terpios hoshinota in Bengkulu and Seribu Islands, Indonesia. Biodiversitas 19: 2238-2246. Coral killing sponge Terpios hoshinota is one of threats to coral reefs. The outbreaks of T. hoshinota has been reported in the Indo-Pacific region. However, the current distribution of this species in Western of Sumatera Island is unknown, compared to Seribu Islands. This study aimed to identify coral-killing sponge molecularly and to compare the distribution and abundance of T. hoshinota in Bengkulu (Western of Sumatera) and in Seribu Islands (Northern of Java Island) and to record the preferences of coral substrate of T. hoshinota. Coral reefs and T. hoshinota data were collected using underwater photo transect method with 0.5x0.5m2 quadrate transect. Coral reefs covered by T. hoshinota was analyzed by using Correspondence Analysis, while the determination of biophysical and chemical environment was analyzed by Principal Component Analysis. The identity of the sponge was T. hoshinota. T. hoshinota has been expanding in many reefs across Indonesia especially in Tikus Island and Belanda Island. The most prevalent coral genera in the Seribu Islands infected by T. hoshinota was Acropora while those in Bengkulu were Porites and Pocillopora. Pearson correlation between the live coral cover and T. hoshinota cover was revealed not significant, while T. hoshinota cover and orthophosphate was significant. This study suggests that orthophosphate may play a role invasion of T. hoshinota outbreaks.
A Visual Support of Standard Procedures for Solar Radiation Quality Control
Authors: El Alani Omaima , Ghennioui Hicham , Ghennioui Abdellatif , Saint-Drenan Yves-Marie , Blanc Philippe , Hanrieder Natalie , Dahr Fatima-Ezzahra 
Published: February 2021

Solar irradiance data from high-quality ground-based measurements are primordial for different solar energy applications. In order to achieve the required accuracy, quality control procedures are of great benefit. A variety of approaches have been proposed. In this sense, some approaches propose a visual representation of the routine, while others only provide a time series of binary flag values, and do not propose any specific visualization of the flagged data as opposed to non-flagged ones. In this regard, the present paper puts forward a complete routine including several quality control procedures for solar irradiance measurements by providing visual support for these different approaches. The visual tool in question was validated using five years research data with 10 minutes resolution of the global, diffuse and direct components of solar irradiation collected from three ground-based weather stations in Morocco. This visual tool puts forth a more precise idea of the measurement quality by detecting various errors, such as time shifts, outliers identification; either with one or two components, or consistency tests between the three components of solar radiation when available. The proposed tool can be regarded as a means of improving the detection rate of abnormal data as a first step in diagnosing the prominent causes of error.
Well-Ordered and Non-Well-Ordered Lower and Upper Solutions for Periodic Planar Systems
Authors: Fonda Alessandro , Klun Giuliano , Sfecci Andrea 
Published: February 2021

Abstract
The aim of this paper is to extend the theory of lower and upper solutions to the periodic problem associated with planar systems of differential equations. We generalize previously given definitions and we are able to treat both the well-ordered case and the non-well-ordered case. The proofs involve topological degree arguments, together with a detailed analysis of the solutions in the phase plane.
Saturated Fronts in Crowds Dynamics
Authors: Campos Juan , Corli Andrea , Malaguti Luisa 
Published: February 2021

AbstractWe consider a degenerate scalar parabolic equation, in one spatial dimension, of flux-saturated type. The equation also contains a convective term. We study the existence and regularity of traveling-wave solutions; in particular we show that they can be discontinuous. Uniqueness is recovered by requiring an entropy condition, and entropic solutions turn out to be the vanishing-diffusion limits of traveling-wave solutions to the equation with an additional non-degenerate diffusion. Applications to crowds dynamics, which motivated the present research, are also provided.
Simulation of segmented mirrors with adaptive optics
Authors: Störkle Johannes , Hahn Luzia , Eberhard Peter 
Published: February 2021

Abstract
This work deals with the simulation-based investigation and control of optical systems that are mechanically influenced. Here, the focus is on the dynamic-optical modeling of vibration-sensitive, segmented mirror systems, which are used, for example, in large astronomic telescopes. Furthermore, an adaptive optical unit usually compensates for the optical aberrations due to atmospheric disturbances. In practice, these aberrations are detected and corrected within a few seconds using deformable mirrors. However, to further improve the performance of these optical systems, dynamic disturbances in the mechanics, i.e. small movements and deformations of the optical surfaces, must also be taken into account. For the investigation of such cases, multidisciplinary simulation methods are developed and presented.
High quality diffractive optical elements (DOEs) using SMILE imprint technique
Authors: Drieschner Simon , Kloiber Fabian , Hennemeyer Marc , Klein Jan J. , Thesen Manuel W. 
Published: February 2021

Abstract
Augmented reality (AR) enhancing the existing natural environment by overlaying a virtual world is an emerging and growing market and attracts huge commercial interest into optical devices which can be implemented into head-mounted AR equipment. Diffractive optical elements (DOEs) are considered as the most promising candidate to meet the market’s requirements such as compactness, low-cost, and reliability. Hence, they allow building alternatives to large display headsets for virtual reality (VR) by lightweight glasses. Soft lithography replication offers a pathway to the fabrication of large area DOEs with high aspect ratios, multilevel features, and critical dimensions below the diffractive optical limit down to 50 nm also in the scope of mass manufacturing. In combination with tailored UV-curable photopolymers, the fabrication time can be drastically reduced making it very appealing to industrial applications. Here, we illustrate the key features of high efficiency DOEs and how the SMILE (SUSS MicroTec Imprint Lithography Equipment) technique can be used with advanced imprint photopolymers to obtain high quality binary DOEs meeting the market’s requirements providing a very versatile tool to imprint both nano- and microstructures.
Aristotle on Light and Vision: An ‘Ecological’ Interpretation
Authors: Costello Sean M. 
Published: February 2021

AbstractScholarship on Aristotle’s theory of visual perception has traditionally held that Aristotle had a single, static, conception of light and that he believed that illumination occurredprior toandindependent ofthe actions of colours. I contend that this view precludes the medium from becoming actually transparent, thus making vision impossible. I here offer an alternative to the traditional interpretation, using contemporary conceptual tools to make good philosophical sense of Aristotle’s position. I call my view the ‘ecological’ interpretation. It postulates two conceptions of light: non-visible mobile propagated light and visible static illumination produced by the interaction of propagated light with the environment’s coloured textured surfaces. I argue that these contemporary conceptual tools can find a foothold in and consistently enrich Aristotle’s extant position and that, with their aid, we can restore coherence to his theories of light and vision.
A Functional Reading of the Epicurean Classification of Desires
Authors: Robitzsch Jan Maximilian 
Published: February 2021

AbstractThis paper examines the classification of desires that the Epicureans offer in their writings. It surveys the extant textual evidence for the classification and discusses the relationship between natural and necessary, natural and unnecessary, and unnatural and unnecessary desires. It argues that while the practical significance of the Epicurean classification is clear, which desires fall into which class is not. The paper suggests the reason for this may be that the Epicureans acknowledge some variability in their concept of human nature, arguing for a functional reading of the Epicurean classification of desires.
Partaking of Reason in a Way: Aristotle on the Rationality of Human Desire
Authors: Long Jr. Duane 
Published: February 2021

AbstractThree times in Book 1 chapter 13 of the Nicomachean Ethics, Aristotle says desire partakes of reason in a way. There is a consensus view in the literature about what that claim means: desire has no intrinsic rationality, but can partake of reason by being blindly obedient to the commands of reason. I argue this consensus view is mistaken: for Aristotle, adult human desire has its own intrinsic rationality, and while it is to be obedient to reason, it is not blind obedience, for when reason tells desire to obey, it includes an explanation supporting its order which desire can at least potentially understand. Thus, the nature of human desire, and also of the characteristic interaction of desire and reason, is much different than it is standardly taken to be.
Plato on Natural Kinds: The Promethean Method of thePhilebus
Authors: Proios John D. 
Published: February 2021

AbstractPlato’s invention of the metaphor of carving the world by the joints (Phaedrus 265d–66c) gives him a privileged place in the history of natural kind theory in philosophy and science; he is often understood to present a paradigmatic but antiquated view of natural kinds as possessing eternal, immutable, necessary essences. Yet, I highlight that, as a point of distinction from contemporary views about natural kinds, Plato subscribes to an intelligent-design, teleological framework, in which the natural world is the product of craft and, as a result, is structured such that it is good for it to be that way. In Plato’sPhilebus, the character Socrates introduces a method of inquiry whose articulation of natural kinds enables it to confer expert knowledge, such as literacy. My paper contributes to an understanding of Plato’s view of natural kinds by interpreting this method in light of Plato’s teleological conception of nature. I argue that a human inquirer who uses the method identifies kinds with relational essences within a system causally related to the production of some unique craft-object, such as writing. As a result, I recast Plato’s place in the history of philosophy, including Plato’s view of the relation between the kinds according to the natural and social sciences. Whereas some are inclined to separate natural from social kinds, Plato holds the unique view that all naturalness is a social feature of kinds reflecting the role of intelligent agency.