bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Sloan Digital Sky Survey Reverberation Mapping Project: the XMM-Newton X-Ray Source Catalog and Multiband Counterparts
Authors: Liu 刘 Teng 腾 , Merloni Andrea , Simm Torben , Green Paul J. , Brandt William N. , Schneider Donald P. , Dwelly Tom , Salvato Mara , Buchner Johannes , Shen Yue , Nandra Kirpal , Georgakakis Antonis , Ho Luis C. 
Published: October 2020

Abstract
The XMM-RM project was designed to provide X-ray coverage of the Sloan Digital Sky Survey Reverberation Mapping (SDSS-RM) field. Forty-one XMM-Newton exposures, placed surrounding the Chandra AEGIS field, were taken, covering an area of 6.13 deg2 and reaching a nominal exposure depth of ∼15 ks. We present an X-ray catalog of 3553 sources detected in these data, using a PSF-fitting algorithm and a sample selection threshold that produces a ∼5% fraction of spurious sources. In addition to the PSF-fitting likelihood, we calculate a second source reliability measure based on Poisson theory using source and background counts within an aperture. Using the Poissonian likelihood, we select a subsample with a high purity and find that it has number count profiles similar to previous X-ray surveys. The Bayesian method “NWAY” was employed to identify counterparts of the X-ray sources from the optical Legacy and the IR unWISE catalogs, using a two-dimensional unWISE magnitude–color prior created from optical/IR counterparts of Chandra X-ray sources. A significant number of the optical/IR counterparts correspond to sources with low detection likelihoods, proving the value of retaining the low-likelihood detections in the catalog. A total of 932 of the XMM-RM sources are covered by SDSS spectroscopic observations, where 89% of them are classified as active galactic nuclei, and 71% of these active galactic nuclei are in the SDSS-RM quasar catalog. Among the SDSS-RM quasars, 80% are detectable at the depth of the XMM observations.
Fast and Easy Access to Central European Biodiversity Data with BIOfid
Authors: Driller Christine , Koch Markus , Abrami Giuseppe , Hemati Wahed , Lücking Andy , Mehler Alexander , Pachzelt Adrian , Kasperek Gerwin 
Published: October 2020

The storage of data in public repositories such as the Global Biodiversity Information Facility (GBIF) or the National Center for Biotechnology Information (NCBI) is nowadays stipulated in the policies of many publishers in order to facilitate data replication or proliferation. Species occurrence records contained in legacy printed literature are no exception to this. The extent of their digital and machine-readable availability, however, is still far from matching the existing data volume (Thessen and Parr 2014). But precisely these data are becoming more and more relevant to the investigation of ongoing loss of biodiversity. In order to extract species occurrence records at a larger scale from available publications, one has to apply specialised text mining tools. However, such tools are in short supply especially for scientific literature in the German language.
The Specialised Information Service Biodiversity Research*1 BIOfid (Koch et al. 2017) aims at reducing this desideratum, inter alia, by preparing a searchable text corpus semantically enriched by a new kind of multi-label annotation. For this purpose, we feed manual annotations into automatic, machine-learning annotators. This mixture of automatic and manual methods is needed, because BIOfid approaches a new application area with respect to language (mainly German of the 19th century), text type (biological reports), and linguistic focus (technical and everyday language).
We will present current results of the performance of BIOfid’s semantic search engine and the application of independent natural language processing (NLP) tools. Most of these are freely available online, such as TextImager (Hemati et al. 2016). We will show how TextImager is tied into the BIOfid pipeline and how it is made scalable (e.g. extendible by further modules) and usable on different systems (docker containers).
Further, we will provide a short introduction to generating machine-learning training data using TextAnnotator (Abrami et al. 2019) for multi-label annotation. Annotation reproducibility can be assessed by the implementation of inter-annotator agreement methods (Abrami et al. 2020). Beyond taxon recognition and entity linking, we place particular emphasis on location and time information. For this purpose, our annotation tag-set combines general categories and biology-specific categories (including taxonomic names) with location and time ontologies. The application of the annotation categories is regimented by annotation guidelines (Lücking et al. 2020). Within the next years, our work deliverable will be a semantically accessible and data-extractable text corpus of around two million pages. In this way, BIOfid is creating a new valuable resource that expands our knowledge of biodiversity and its determinants.
John D. Caputo. De la théologie comme herméneutique radicale
Authors: Gengembre Sébastien 
Published: October 2020

Considérant l’œuvre théologique de John D. Caputo, Sébastien Gengembre s’enquiert de la façon dont son herméneutique inspirée de la déconstruction affecte, en particulier au regard de la croix, ce que l’on met d’ordinaire sous le nom de « Dieu ». C’est d’abord la puissance de Dieu qui se trouve mise en cause, au profit d’une force faible . C’est aussi l’être de Dieu qui s’efface au bénéfice d’un événement , de l’appel qui résonne sous le nom de Dieu. Mais c’est ce nom même qui est enfin trop fort, sans que cela empêche Caputo de faire émerger une théologie originale, dont les frontières avec la déconstruction tendent à se brouiller.
La Tradition sans l’exclusion. Richard Simon, Bossuet et le socinianisme face aux critères de l’authenticité
Authors: Tambrun Brigitte 
Published: October 2020

Au xvii e siècle, Richard Simon reproche à l’Église catholique romaine de ne pas avoir suivi, en ce qui concerne la Tradition, la règle de Vincent de Lérins qui interdit toute innovation doctrinale. En adoptant des opinions particulières à Augustin, l’Église aurait dévié de la Tradition constante des anciens Pères. Mais qui suivre lorsque deux partis opposés d’égale importance trouvent chacun des arguments dans l’Écriture et la Tradition ancienne ? Brigitte Tambrun montre que contrairement à ce que soutient Bossuet, Richard Simon n’est pas, sur les questions trinitaires, un allié des sociniens, mais qu’il tend plutôt à promouvoir une Tradition indifférenciée, sans exclusion.
Mortifications du souffle de la voix
Authors: Christaki Angélique 
Published: October 2020

Cet article porte sur l’étude du syndrome « stéréotypie » de Paul Guiraud. Les éléments cliniques du tableau de ce syndrome « Palilalie, Écholalie, Mutisme et Amimie » trouvent leur source dans la mortification concomitante du corps, du verbe et de la voix. Il s’agit d’une mortification qui peut toucher jusqu’aux réflexes moteurs du vivant et s’avérer donc, potentiellement mortelle. En rapport de ces destins mortels Paul Guiraud observe une atteinte du rythme relative aux activités mentales et corporelles chez ces patients. Au-delà de la valeur syndromale de ce tableau clinique, nous allons interroger la portée métapsychologique de cette singulière arythmie, que l’intuition clinique de ce psychiatre organiciste introduit, à propos des formes les plus sévères de la psychopathologie des psychoses et, notamment celles de l’amimie et du mutisme aphone.
Refractive Outcomes of Descemet Membrane Endothelial Keratoplasty Combined With Cataract Surgery in Fuchs Endothelial Dystrophy
Authors: Bae Steven S. , Ching Geoffrey , Holland Simon , McCarthy Martin , Ritenour Rusty , Iovieno Alfonso , Yeung Sonia N. 
Published: October 2020

PURPOSE:
To evaluate the refractive outcomes of Descemet membrane endothelial keratoplasty combined with cataract surgery (DMEK triple) in patients with Fuchs endothelial dystrophy.

METHODS:
A retrospective analysis of 68 eyes of 68 patients with Fuchs endothelial dystrophy who underwent DMEK triple between 2014 and 2018.

RESULTS:

The mean age of patients was 66.5 ± 8.6 years, and 65% (44 of 68) were female. Mean target refraction was −0.69 diopters (D) (interquartile range: −0.80 to −0.50 D). At 6 months, 47% (32 of 68) and 63% (43 of 68) of eyes were within ±0.50 and ±1.00 D of target refraction, respectively. Among eyes greater than 0.50 D from target, 78% (28 of 36) were hyperopic surprises. Mean spherical equivalent at 6 months was −0.14 ± 1.26 D, representing a mean hyperopic shift of 0.55 D from target. Preoperative pachymetry was higher in eyes with greater than 0.50 D of hyperopic surprise (648 ± 60 vs 613 ± 49 µm,
P
= .04). Refractive shift was greater in eyes with a preoperative central corneal thickness of 640 µm or greater versus eyes with a central corneal thickness of less than 640 µm (+1.20 ± 0.92 vs +0.40 ± 0.99 D,
P
= .02). None of the eyes with a preoperative central corneal thickness of 640 µm or greater shifted myopically compared to target (range: −0.09 to +2.89 D).

CONCLUSIONS:
A mean hyperopic shift of 0.55 D from target refraction occurred after DMEK triple, and 47% of eyes were within 0.50 D of target refraction at 6 months postoperatively. Thicker corneas preoperatively had greater hyperopic shift. A greater myopic target refraction may be warranted in eyes with a preoperative central corneal thickness of 640 µm or greater.

[
J Refract Surg
. 2020;36(10):661–666.]
Cross-sectional Study on Corneal Denervation in Contralateral Eyes Following SMILE Versus LASIK
Authors: Liu Yu-Chi , Jung Angel Se Ji , Chin Jia Ying , Yang Lily Wei Yun , Mehta Jodhbir S. 
Published: October 2020

PURPOSE:
To compare long-term corneal nerve status following small incision lenticule extraction (SMILE) versus laser in situ keratomileusis (LASIK).

METHODS:
Twenty-four patients were randomized to receive SMILE in one eye and LASIK in the other eye. In vivo confocal microscopy examination and dry eye assessments were performed at a mean of 4.1 years postoperatively. The patients were further divided into two groups based on the mean assessment time: 2.7 years postoperatively (2.7 years group) and 5.5 years postoperatively (5.5 years group). Another 6 age-matched normal patients were recruited.

RESULTS:
At 4.1 years, LASIK eyes had significantly less corneal nerve fiber density (CNFD), corneal nerve branch density (CNBD), corneal nerve fiber length (CNFL), and corneal total branch density and significantly more nerves with beading than SMILE eyes. The CNFD, CNBD, CNFL, and number of nerves with sprouting were significantly higher in the 5.5 years group than in the 2.7 years group, in both types of surgery, suggesting persistent nerve regeneration. The CNBD and CNFD in the 5.5 years group, regardless of surgical types, were significantly lower than those in the control group, indicating the nerve status had not recovered to normal ranges even at 5.5 years. High myopic treatment resulted in significantly reduced CNFD with LASIK but not with SMILE. There were no significant differences in the dry eye parameters between the two procedures at 4.1 years postoperatively.

CONCLUSIONS:
The impact on corneal nerves following refractive surgery is long-lasting. SMILE had better nerve preservation and regeneration than LASIK, but neither procedure had recovered nerve status to normal levels even at 5.5 years.

[
J Refract Surg
. 2020;36(10):653–660.]
Early Corneal and Epithelial Remodeling Differences Identified by OCT Imaging and Artificial Intelligence Between Two Transepithelial PRK Platforms
Authors: Shetty Rohit , Narasimhan Raghav , Dadachanji Zelda , Patel Pavitra , Maheshwari Sonia , Chabra Aishwarya , Sinha Roy Abhijit 
Published: October 2020

PURPOSE:
To analyze corneal and epithelial remodeling differences between SmartSurfACE reverse transepithelial PRK (SCHWIND eye-tech-solutions) and Streamlight (Alcon Laboratories, Inc) transepithelial PRK procedure using optical coherence tomography (OCT) and artificial intelligence (AI).

METHODS:
This was a prospective, interventional, and longitudinal study. A contralateral eye study was conducted in which one eye was assigned to the SmartSurfACE group and the fellow eye was assigned to the Streamlight group. OCT was performed preoperatively and 1, 3, and 6 months after surgery. Uncorrected (UDVA) and corrected (CDVA) distance visual acuity and residual refractive error was measured only preoperatively and at 3 and 6 months. From OCT, curvature and aberrations of the air–epithelium (A–E) interface, epithelium–Bowman's layer (E-B) interface, and epithelium Zernike indices (EZI) were derived. Pain was evaluated at 1 day postoperatively using the Wong-Baker scale.

RESULTS:

Both groups had similar UDVA, CDVA, residual refractive error, and changes in A–E and E-B curvatures at 3 and 6 months postoperatively (
P
> .05). However, many parameters indicated that the Streamlight group underwent a greater change in A–E aberrations, E-B aberrations, and EZI than the SmartSurfACE group postoperatively (
P
< .05). The EZI indicated a greater level of epithelial thickness distortion in the Streamlight group than in the SmartSurfACE group (
P
< .05). Using AI, the EZI were most indicative of remodeling differences between the two groups. Further, the pain was significantly greater at 1 day in the Streamlight group (
P
< .05).

CONCLUSIONS:
Early remodeling differences existed because the Streamlight procedure removed a greater amount of epithelium than the SmartSurfACE procedure. However, the visual and refractive outcomes were comparable.

[
J Refract Surg
. 2020;36(10):678–686.]
Evaluation of the Safety and Long-term Scleral Biomechanical Stability of UVA Cross-linking on Scleral Collagen in Rhesus Monkeys
Authors: Sun Mingshen , Zhang Fengju , Li Yu , Ouyang Bowen , Wang Mengmeng , Jiao Xuan , Zhang Li , Wang Ningli 
Published: October 2020

PURPOSE:
To investigate the changes of retinal and choroidal parameters, scleral biomechanical strength, and ocular histopathology after scleral ultraviolet-A (UVA) cross-linking (CXL) in rhesus monkeys eyes, and to evaluate the safety and long-term biomechanical stability of scleral CXL for preventing myopia from progressing further in clinic.

METHODS:
Six 3-year-old male rhesus monkeys (12 eyes) were randomized to receive UVA-CXL procedures applied on the superotemporal equatorial sclera. Optical coherence tomography (OCT) and optical coherence tomography angiography (OCTA) were used for examination before and 1 week and 1, 3, 6, and 12 months after CXL. The stress-strain behaviors of equatorial scleral strips were analyzed 12 months postoperatively by a biomaterial tester. Hematoxylin–eosin and terminal deoxynucleotidyl transferase dUTP nick-end labeling (TUNEL) staining were performed 12 months postoperatively.

RESULTS:

For central retinal thickness, choroidal thickness, and flow density of central retinal superficial vascular networks, no statistical difference was noted between CXL eyes and control eyes at 12 months postoperatively (
P
> .05). The biomechanical stability of sclera was increased. The scleral stress and Young modulus at 8% strain corresponded to 184% and 183%, respectively, of the control values at 12 months (each
P
< .001). No retinal damage was detected on histology in scleral CXL eyes. There was no obvious difference between scleral CXL eyes and control eyes by hematoxylin–eosin and TUNEL staining (
P
> .05).

CONCLUSIONS:
Scleral CXL with riboflavin/UVA in rhesus monkey eyes could strengthen the biomechanical properties of scleral tissues and maintain the stability for 12 months postoperatively. The UVA-CXL on the sclera of rhesus monkey eyes seems to be effective and safe.

[
J Refract Surg
. 2020;36(10):696–702.]
Evaluation of a Novel Decision Guide “Go to the Hospital or Stay Here?” for Nursing Home Residents and Families: A Randomized Trial
Authors: Tappen Ruth M. , Worch Sarah M. , Newman David O. , Hain Debra 
Published: October 2020

Initiatives to reduce potentially preventable hospitalizations of nursing home residents have focused on staff response to changes in condition and advance care planning. Yet, resident and family insistence on transfer has been one of the most intractable sources of these hospitalizations, although not the target of active intervention until now. Consented residents and family members in the intervention group received a newly developed decision aid entitled, “Go to the Hospital or Stay Here?,” providing information on the risks and benefits of transfer versus remaining in the nursing home. This person-centered decision aid was developed from the results of 271 interviews of residents, families, and providers to identify what they wanted to know and any misunderstandings surrounding the transfer process. Engaging residents in the decision respects their right to participate and provides the information they need to make a deliberative decision. The intervention group showed a gain in knowledge and reduction in decisional conflict but reported decreased decisional preparation. There was no decrease in transfers compared to the control group. Evaluation of the decision guide by residents and families was positive.

Targets:
Nursing home residents and their family members.

Intervention:
To provide information regarding the decision to stay in the nursing home or transfer to acute care due to a change in condition.

Mechanisms of Action:
Decision aid “Go the “Hospital or Stay Here?” to impart knowledge regarding the decision to remain in the nursing home or transfer to acute care.

Outcomes:

Use of the Guide was found to increase residents' and family members' knowledge and decrease decisional conflict, but it did not increase decisional preparation. No reduction in transfers was found. Residents and families rated the Guide as very helpful. [
Research in Gerontological Nursing, 13
(6), 309–319.]
Mitochondrial Reactive Oxygen Species Participate in Signaling Triggered by Heme in Macrophages and upon Hemolysis
Authors: Prestes Elisa B. , Alves Letícia S. , Rodrigues Danielle A. S. , Dutra Fabianno F. , Fernandez Patricia L. , Paiva Claudia N. , Kagan Jonathan C. , Bozza Marcelo T. 
Published: October 2020

Abstract
Hemolysis causes an increase of intravascular heme, oxidative damage, and inflammation in which macrophages play a critical role. In these cells, heme can act as a prototypical damage-associated molecular pattern, inducing TLR4-dependent cytokine production through the MyD88 pathway, independently of TRIF. Heme promotes reactive oxygen species (ROS) generation independently of TLR4. ROS and TNF production contribute to heme-induced necroptosis and inflammasome activation; however, the role of ROS in proinflammatory signaling and cytokine production remains unknown. In this study, we demonstrate that heme activates at least three signaling pathways that contribute to a robust MAPK phosphorylation and cytokine expression in mouse macrophages. Although heme did not induce a detectable Myddosome formation, the TLR4/MyD88 axis was important for phosphorylation of p38 and secretion of cytokines. ROS generation and spleen tyrosine kinase (Syk) activation induced by heme were critical for most proinflammatory signaling pathways, as the antioxidant N-acetyl-l-cysteine and a Syk inhibitor differentially blocked heme-induced ROS, MAPK phosphorylation, and cytokine production in macrophages. Early generated mitochondrial ROS induced by heme was Syk dependent, selectively promoted the phosphorylation of ERK1/2 without affecting JNK or p38, and contributed to CXCL1 and TNF production. Finally, lethality caused by sterile hemolysis in mice required TLR4, TNFR1, and mitochondrial ROS, supporting the rationale to target these pathways to mitigate tissue damage of hemolytic disorders.
Cutting Edge: Tissue Antigen Expression Levels Fine-Tune T Cell Differentiation Decisions In Vivo
Authors: Pinheiro Douglas F. , Szenes-Nagy Antal B. , Maurano Megan M. , Lietzenmayer Melanie , Klicznik Maria M. , Holly Raimund , Kirchmeier Daniel , Kitzmueller Sophie , Achatz-Straussberger Gertrude , Rosenblum Michael D. , Thalhamer Josef , Abbas Abul K. , Gratz Iris K. 
Published: October 2020

Abstract
Immune homeostasis in peripheral tissues is, to a large degree, maintained by the differentiation and action of regulatory T cells (Treg) specific for tissue Ags. Using a novel mouse model, we have studied the differentiation of naive CD4+ T cells into Foxp3+ Treg in response to a cutaneous Ag (OVA). We found that expression of OVA resulted in fatal autoimmunity and in prevention of peripheral Treg generation. Inhibiting mTOR activity with rapamycin rescued the generation of Foxp3+ T cells. When we varied the level of Ag expression to modulate TCR signaling, we found that low Ag concentrations promoted the generation of Foxp3+ T cells, whereas high levels expanded effector T cells and caused severe autoimmunity. Our findings indicate that the expression level of tissue Ag is a key determinant of the balance between tissue-reactive effector and peripheral Foxp3+ T cells, which determines the choice between tolerance and autoimmunity.
Management and outcomes of patients hospitalized with severe COVID-19 at a tertiary care center in midwestern United States
Authors: Gupta Sandeep , Kaushik Ashlesha , Gupta Jitendra 
Published: October 2020

Knowledge of treatment regimens and outcomes for novel coronavirus disease 2019 (COVID-19) is evolving. Recent studies have reported mortality rates ranging from 39-50% among hospitalized patients with COVID-19. We report our experience ofmanagement and outcomes of hospitalized patients with COVID-19 at a large tertiary-care center in Midwestern United States. Of 658 patients presenting to our tertiary care center, 217 needed hospitalization, majority (77%) of whom were severely sick requiring admission to the intensive care unit (ICU). All received corticosteroids, and 78% of the patients received tocilizumab. More than two-thirds of the patients received anticoagulation and 80% of patients in the ICU had prone-positioning. The median duration of hospitalization was 12 days (interquartile range, 8 to16), median duration of intensive care unit stay was 7 days (interquartile range, 5 to 9) and requirement of mechanical ventilation was 6 days (interquartile range, 5 to 8) in our cohort. Of the 217 patients, 27 died (12% mortality). The majority of our patients received corticosteroids, tocilizumab, anticoagulation and prone positioning. While higher mortality rates of >30% have been reported in various studies among hospitalized patients with COVID-19, the majority of hospitalized patients in our cohort survived with a low mortality rate. The majority of our patients received corticosteroids, tocilizumab, anticoagulation and prone positioning. While higher mortality rates of >30% have been reported in various studies among hospitalized patients with COVID-19, the majority of hospitalized patients in our cohort survived with a low mortality rate.