bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic and genomic characterization followed by single-step genomic evaluation of withers height in German Warmblood horses
Authors: Vosgerau Sarah , Krattenmacher Nina , Falker-Gieske Clemens , Seidel Anita , Tetens Jens , Stock Kathrin F. , Nolte Wietje , Wobbe Mirell , Blaj Iulia , Reents Reinhard , Kühn Christa , von Depka Prondzinski Mario , Kalm Ernst , Thaller Georg 
Published: January 2022

Abstract Reliability of genomic predictions is influenced by the size and genetic composition of the reference population. For German Warmblood horses, compilation of a reference population has been enabled through the cooperation of five German breeding associations. In this study, preliminary data from this joint reference population were used to genetically and genomically characterize withers height and to apply single-step methodology for estimating genomic breeding values for withers height. Using data on 2113 mares and their genomic information considering about 62,000 single nucleotide polymorphisms (SNPs), analysis of the genomic relationship revealed substructures reflecting breed origin and different breeding goals of the contributing breeding associations. A genome-wide association study confirmed a known quantitative trait locus (QTL) for withers height on equine chromosome (ECA) 3 close to LCORL and identified a further significant peak on ECA 1. Using a single-step approach with a combined relationship matrix, the estimated heritability for withers height was 0.31 (SE = 0.08) and the corresponding genomic breeding values ranged from − 2.94 to 2.96 cm. A mean reliability of 0.38 was realized for these breeding values. The analyses of withers height showed that compiling a reference population across breeds is a suitable strategy for German Warmblood horses. The single-step method is an appealing approach for practical genomic prediction in horses, because not many genotypes are available yet and animals without genotypes can by this way directly contribute to the estimation system.
Tuning of frictional properties in torsional contact by means of disk grading
Authors: Costagliola Gianluca , Bosia Federico , Pugno Nicola M. 
Published: January 2022

AbstractThe contact of two surfaces in relative rotating motion occurs in many practical applications, from mechanical devices to human joints, displaying an intriguing interplay of effects at the onset of sliding due to the axisymmetric stress distribution. Theoretical and numerical models have been developed for some typical configurations, but work remains to be done to understand how to modify the emergent friction properties in this configuration. In this paper, we extend the two-dimensional (2D) spring-block model to investigate friction between surfaces in torsional contact. We investigate how the model describes the behavior of an elastic surface slowly rotating over a rigid substrate, comparing results with analytical calculations based on energy conservation. We show that an appropriate grading of the tribological properties of the surface can be used to avoid a non-uniform transition to sliding due to the axisymmetric configuration.
A literature review of smart warehouse operations management
Authors: Zhen Lu , Li Haolin 
Published: January 2022

AbstractE-commerce, new retail, and other changes have highlighted the requirement of high efficiency and accuracy in the logistics service. As an important section in logistics and supply chain management, warehouses need to respond positively to the increasing requirement. The “smart warehouse” system, which is equipped with emerging warehousing technologies, is increasingly attracting the attention of industry and technology giants as an efficient solution for the future of warehouse development. This study provides a holistic view of operations management problems within the context of smart warehouses. We provide a framework to review smart warehouse operations management based on the characteristics of smart warehouses, including the perspectives of information interconnection, equipment automation, process integration, and environmental sustainability. A comprehensive review of relevant literature is then carried out based on the framework with four perspectives. This study could provide future research directions on smart warehouses for academia and industry practitioners.
Can the unmodified incus be used for a simpler, more cost-effective functional ossicular chain reconstruction? A retrospective clinical study
Authors: Borgstein J A , Grech R W , Celikkol R 
Published: January 2022

AbstractObjectiveTo evaluate patients’ hearing outcomes after ossicular chain reconstruction using unmodified autologous incus.MethodsA single-centred, retrospective study of patients who underwent incus interposition between June 2010 and October 2017 was conducted at a Dutch secondary referral centre. This paper describes a chart review of patients who presented with erosion of the long process of the incus due to atelectasis or cholesteatoma who were treated with an unmodified incus interposition. The main outcome measures were: post-operative air–bone gap and level of air–bone gap closure.ResultsThirty-three ears of 32 patients were included. Follow-up duration ranged from six weeks to seven years. A mean post-operative air–bone gap under 25 dB was considered successful; this was achieved in 25 patients (76 per cent), 20 (91 per cent) in the partial ossicular reconstruction prosthesis group and 5 (45 per cent) in the total ossicular reconstruction prosthesis group. This difference was statistically significant (p = 0.007).ConclusionSuccessful preservation and improvement of hearing was observed in most patients. As expected, the closure rate in the partial ossicular reconstruction prosthesis group was better. Longer follow-up studies with larger case numbers are needed to assess whether further reconstruction techniques are necessary.
Lacydonia shohoensis (Annelida, Lacydoniidae) sp. nov. – a new lacydonid species from deep-sea sunken wood discovered at the Nishi-Shichito Ridge, North-western Pacific Ocean
Authors: Hookabe Natsumi , Jimi Naoto , Yokooka Hiroyuki , Tsuchida Shinji , Fujiwara Yoshihiro 
Published: January 2022

AbstractLacydonia Marion & Bobretsky, 1875 is the sole genus in the family Lacydoniidae Bergström, 1914. We herein describe the new species of Lacydonia shohoensis sp. nov. from 2042-m deep bottoms at Shoho Seamount of the Nishi-Shichito Ridge, the Northwest Pacific Ocean. It is most similar to L. anapaulae Rizzo et al., 2016 in having a depression on the median anterior region and lacking lateral lobes on the posterior margin of prostomium whereas it is distinguished by possessing pygidium dorsally pigmented with three reddish spots and non-pigmented pygidial lateral cirri equally elongated.
Prospective evaluation of 92 serum protein biomarkers for early detection of ovarian cancer
Authors: Mukama Trasias , Fortner Renée Turzanski , Katzke Verena , Hynes Lucas Cory , Petrera Agnese , Hauck Stefanie M. , Johnson Theron , Schulze Matthias , Schiborn Catarina , Rostgaard-Hansen Agnetha Linn , Tjønneland Anne , Overvad Kim , Pérez María José Sánchez , Crous-Bou Marta , Chirlaque María-Dolores , Amiano Pilar , Ardanaz Eva , Watts Eleanor L. , Travis Ruth C. , Sacerdote Carlotta , Grioni Sara , Masala Giovanna , Signoriello Simona , Tumino Rosario , Gram Inger T. , Sandanger Torkjel M. , Sartor Hanna , Lundin Eva , Idahl Annika , Heath Alicia K. , Dossus Laure , Weiderpass Elisabete , Kaaks Rudolf 
Published: January 2022

Abstract
Background
CA125 is the best available yet insufficiently sensitive biomarker for early detection of ovarian cancer. There is a need to identify novel biomarkers, which individually or in combination with CA125 can achieve adequate sensitivity and specificity for the detection of earlier-stage ovarian cancer.

Methods
In the European Prospective Investigation into Cancer and Nutrition (EPIC) cohort, we measured serum levels of 92 preselected proteins for 91 women who had blood sampled ≤18 months prior to ovarian cancer diagnosis, and 182 matched controls. We evaluated the discriminatory performance of the proteins as potential early diagnostic biomarkers of ovarian cancer.

Results
Nine of the 92 markers; CA125, HE4, FOLR1, KLK11, WISP1, MDK, CXCL13, MSLN and ADAM8 showed an area under the ROC curve (AUC) of ≥0.70 for discriminating between women diagnosed with ovarian cancer and women who remained cancer-free. All, except ADAM8, had shown at least equal discrimination in previous case-control comparisons. The discrimination of the biomarkers, however, was low for the lag-time of >9–18 months and paired combinations of CA125 with any of the 8 markers did not improve discrimination compared to CA125 alone.

Conclusion
Using pre-diagnostic serum samples, this study identified markers with good discrimination for the lag-time of 0–9 months. However, the discrimination was low in blood samples collected more than 9 months prior to diagnosis, and none of the markers showed major improvement in discrimination when added to CA125.
Heme-stress activated NRF2 skews fate trajectories of bone marrow cells from dendritic cells towards red pulp-like macrophages in hemolytic anemia
Authors: Vallelian Florence , Buzzi Raphael M. , Pfefferlé Marc , Yalamanoglu Ayla , Dubach Irina L. , Wassmer Andreas , Gentinetta Thomas , Hansen Kerstin , Humar Rok , Schulthess Nadja , Schaer Christian A. , Schaer Dominik J. 
Published: January 2022

AbstractHeme is an erythrocyte-derived toxin that drives disease progression in hemolytic anemias, such as sickle cell disease. During hemolysis, specialized bone marrow-derived macrophages with a high heme-metabolism capacity orchestrate disease adaptation by removing damaged erythrocytes and heme-protein complexes from the blood and supporting iron recycling for erythropoiesis. Since chronic heme-stress is noxious for macrophages, erythrophagocytes in the spleen are continuously replenished from bone marrow-derived progenitors. Here, we hypothesized that adaptation to heme stress progressively shifts differentiation trajectories of bone marrow progenitors to expand the capacity of heme-handling monocyte-derived macrophages at the expense of the homeostatic generation of dendritic cells, which emerge from shared myeloid precursors. This heme-induced redirection of differentiation trajectories may contribute to hemolysis-induced secondary immunodeficiency. We performed single-cell RNA-sequencing with directional RNA velocity analysis of GM-CSF-supplemented mouse bone marrow cultures to assess myeloid differentiation under heme stress. We found that heme-activated NRF2 signaling shifted the differentiation of bone marrow cells towards antioxidant, iron-recycling macrophages, suppressing the generation of dendritic cells in heme-exposed bone marrow cultures. Heme eliminated the capacity of GM-CSF-supplemented bone marrow cultures to activate antigen-specific CD4 T cells. The generation of functionally competent dendritic cells was restored by NRF2 loss. The heme-induced phenotype of macrophage expansion with concurrent dendritic cell depletion was reproduced in hemolytic mice with sickle cell disease and spherocytosis and associated with reduced dendritic cell functions in the spleen. Our data provide a novel mechanistic underpinning of hemolytic stress as a driver of hyposplenism-related secondary immunodeficiency.
Inhibition of Rac1 attenuates radiation-induced lung injury while suppresses lung tumor in mice
Authors: An Ni , Li Zhenjie , Yan Xiaodi , Zhao Hainan , Yang Yajie , Liu Ruling , Yang Yanyong , Gao Fu , Li Bailong , Liu Hu , Yuan Hongbin 
Published: January 2022

AbstractThe lung is one of the most sensitive tissues to ionizing radiation, thus, radiation-induced lung injury (RILI) stays a key dose-limiting factor of thoracic radiotherapy. However, there is still little progress in the effective treatment of RILI. Ras-related C3 botulinum toxin substrate1, Rac1, is a small guanosine triphosphatases involved in oxidative stress and apoptosis. Thus, Rac1 may be an important molecule that mediates radiation damage, inhibition of which may produce a protective effect on RILI. By establishing a mouse model of radiation-induced lung injury and orthotopic lung tumor-bearing mouse model, we detected the role of Rac1 inhibition in the protection of RILI and suppression of lung tumor. The results showed that ionizing radiation induces the nuclear translocation of Rac1, the latter then promotes nuclear translocation of P53 and prolongs the residence time of p53 in the nucleus, thereby promoting the transcription of Trp53inp1 which mediates p53-dependent apoptosis. Inhibition of Rac1 significantly reduce the apoptosis of normal lung epithelial cells, thereby effectively alleviating RILI. On the other hand, inhibition of Rac1 could also significantly inhibit the growth of lung tumor, increase the radiation sensitivity of tumor cells. These differential effects of Rac1 inhibition were related to the mutation and overexpression of Rac1 in tumor cells.
Dynamics of skeletal muscle-resident stem cells during myogenesis in fibrodysplasia ossificans progressiva
Authors: Stanley Alexandra , Tichy Elisia D. , Kocan Jacob , Roberts Douglas W. , Shore Eileen M. , Mourkioti Foteini 
Published: January 2022

AbstractFibrodysplasia ossificans progressiva (FOP) is a rare genetic disease in which extraskeletal (heterotopic) bone forms within tissues such as skeletal muscles, often in response to injury. Mutations in the BMP type I receptor ACVR1/ALK2 cause FOP by increasing BMP pathway signaling. In contrast to the growing understanding of the inappropriate formation of bone tissue within the muscle in FOP, much is still unknown about the regenerative capacity of adult diseased muscles. Utilizing an inducible ACVR1R206H knock-in mouse, we found that injured Acvr1R206H/+ skeletal muscle tissue regenerates poorly. We demonstrated that while two resident stem cell populations, muscle stem cells (MuSCs) and fibro/adipogenic progenitors (FAPs), have similar proliferation rates after injury, the differentiation potential of mutant MuSCs is compromised. Although MuSC-specific deletion of the ACVR1R206H mutation does not alter the regenerative potential of skeletal muscles in vivo, Acvr1R206H/+ MuSCs form underdeveloped fibers that fail to fuse in vitro. We further determined that FAPs from Acvr1R206H/+ mice repress the MuSC-mediated formation of Acvr1R206H/+ myotubes in vitro. These results identify a previously unrecognized role for ACVR1R206H in myogenesis in FOP, via improper interaction of tissue-resident stem cells during skeletal muscle regeneration.
Preimmunization correlates of protection shared across malaria vaccine trials in adults
Authors: Neal Maxwell L. , Duffy Fergal J. , Du Ying , Aitchison John D. , Stuart Kenneth D. 
Published: January 2022

AbstractIdentifying preimmunization biological characteristics that promote an effective vaccine response offers opportunities for illuminating the critical immunological mechanisms that confer vaccine-induced protection, for developing adjuvant strategies, and for tailoring vaccination regimens to individuals or groups. In the context of malaria vaccine research, studying preimmunization correlates of protection can help address the need for a widely effective malaria vaccine, which remains elusive. In this study, common preimmunization correlates of protection were identified using transcriptomic data from four independent, heterogeneous malaria vaccine trials in adults. Systems-based analyses showed that a moderately elevated inflammatory state prior to immunization was associated with protection against malaria challenge. Functional profiling of protection-associated genes revealed the importance of several inflammatory pathways, including TLR signaling. These findings, which echo previous studies that associated enhanced preimmunization inflammation with protection, illuminate common baseline characteristics that set the stage for an effective vaccine response across diverse malaria vaccine strategies in adults.
Remote impacts of 2009 and 2015 El Niño on oceanic and biological processes in a marginal sea of the Northwestern Pacific
Authors: Jung Yoonho , Park Jae-Hun , Hirose Naoki , Yeh Sang-Wook , Kim Kuk Jin , Ha Ho Kyung 
Published: January 2022

AbstractThe significance of long-term teleconnections derived from the anomalous climatic conditions of El Niño has been a highly debated topic, where the remote response of coastal hydrodynamics and marine ecosystems to El Niño conditions is not completely understood. The 14-year long data from a ship-borne acoustic Doppler current profiler was used to examine the El Niño’s impact, in particular, 2009 and 2015 El Niño events, on oceanic and biological processes in coastal regions across the Korea/Tsushima Strait. Here, it was revealed that the summer volume transport could be decreased by 8.7% (from 2.46 ± 0.39 to 2.24 ± 0.26 Sv) due to the anomalous northerly winds in the developing year of El Niño. Furthermore, the fall mean volume backscattering strength could be decreased by 1.8% (from − 97.09 ± 2.14 to − 98.84 ± 2.10 dB) due to the decreased surface solar radiation after the El Niño events. Overall, 2009 and 2015 El Niño events remotely affected volume transport and zooplankton abundance across the Korea/Tsushima Strait through climatic teleconnections.
Prioritizing high-contact occupations raises effectiveness of vaccination campaigns
Authors: Nunner Hendrik , van de Rijt Arnout , Buskens Vincent 
Published: January 2022

AbstractA twenty-year-old idea from network science is that vaccination campaigns would be more effective if high-contact individuals were preferentially targeted. Implementation is impeded by the ethical and practical problem of differentiating vaccine access based on a personal characteristic that is hard-to-measure and private. Here, we propose the use of occupational category as a proxy for connectedness in a contact network. Using survey data on occupation-specific contact frequencies, we calibrate a model of disease propagation in populations undergoing varying vaccination campaigns. We find that vaccination campaigns that prioritize high-contact occupational groups achieve similar infection levels with half the number of vaccines, while also reducing and delaying peaks. The paper thus identifies a concrete, operational strategy for dramatically improving vaccination efficiency in ongoing pandemics.
Characteristics and impact of environmental shaking in the Taipei metropolitan area
Authors: Chen Kate Huihsuan , Yeh Ting-Chen , Chen Yaochieh , Johnson Christopher W. , Lin Cheng-Horng , Lai Ya-Chuan , Shih Min-Hung , Guéguen Philippe , Huang Win-Gee , Huang Bor-Shouh , Chen Kou-Cheng , Lin Chin-Jen , Ku Chin-Shang 
Published: January 2022

AbstractExamining continuous seismic data recorded by a dense broadband seismic network throughout Taipei shows for the first time, the nature of seismic noise in this highly populated metropolitan area. Using 140 broadband stations in a 50 km × 69 km area, three different recurring, strong noise signals characterized by dominant frequencies of 2–20 Hz, 0.25–1 Hz, and < 0.2 Hz are explored. At frequencies of 2–20 Hz, the seismic noise exhibits daily and weekly variations, and a quiescence during the Chinese New Year holidays. The largest amplitude occurred at a station located only 400 m from a traffic-roundabout, one of the busiest intersections in Taipei, suggesting a possible correlation between large amplitude and traffic flow. The median daily amplitude for the < 0.2 Hz and 0.2–1.0 Hz frequency bands is mostly synchronized with high similarity between stations, indicating that the sources are persistent oceanic or atmospheric perturbations across a large area. The daily amplitude for the > 2 Hz band, however, is low, indicating a local source that changes on shorter length scales. Human activities responsible for the 2–40 Hz energy in the city, we discovered, are able to produce amplitudes approximately 2 to 1500 times larger than natural sources. Using the building array deployed in TAIPEI 101, the tallest building in Taiwan, we found the small but repetitive ground vibration induced by traffic has considerable effect on the vibration behavior of the high-rise building. This finding urges further investigation not only on the dynamic and continuous interaction between vehicles, roads, and buildings, but also the role of soft sediment on such interaction.
Mott–Hubbard insulating state for the layered van der Waals $$\hbox {FePX}_3$$ (X: S, Se) as revealed by NEXAFS and resonant photoelectron spectroscopy
Authors: Jin Yichen , Yan Mouhui , Kremer Tomislav , Voloshina Elena , Dedkov Yuriy 
Published: January 2022

AbstractA broad family of the nowadays studied low-dimensional systems, including 2D materials, demonstrate many fascinating properties, which however depend on the atomic composition as well as on the system dimensionality. Therefore, the studies of the electronic correlation effects in the new 2D materials is of paramount importance for the understanding of their transport, optical and catalytic properties. Here, by means of electron spectroscopy methods in combination with density functional theory calculations we investigate the electronic structure of a new layered van der Waals $$\hbox {FePX}_3$$

FePX
3

(X: S, Se) materials. Using systematic resonant photoelectron spectroscopy studies we observed strong resonant behavior for the peaks associated with the $$3d^{n-1}$$

3

d

n
-
1

final state at low binding energies for these materials. Such observations clearly assign $$\hbox {FePX}_3$$

FePX
3

to the class of Mott–Hubbard type insulators for which the top of the valence band is formed by the hybrid Fe-S/Se electronic states. These observations are important for the deep understanding of this new class of materials and draw perspectives for their further applications in different application areas, like (opto)spintronics and catalysis.
A mutation in transmembrane protein 135 impairs lipid metabolism in mouse eyecups
Authors: Landowski Michael , Bhute Vijesh J. , Takimoto Tetsuya , Grindel Samuel , Shahi Pawan K. , Pattnaik Bikash R. , Ikeda Sakae , Ikeda Akihiro 
Published: January 2022

AbstractAging is a significant factor in the development of age-related diseases but how aging disrupts cellular homeostasis to cause age-related retinal disease is unknown. Here, we further our studies on transmembrane protein 135 (Tmem135), a gene involved in retinal aging, by examining the transcriptomic profiles of wild-type, heterozygous and homozygous Tmem135 mutant posterior eyecup samples through RNA sequencing (RNA-Seq). We found significant gene expression changes in both heterozygous and homozygous Tmem135 mutant mouse eyecups that correlate with visual function deficits. Further analysis revealed that expression of many genes involved in lipid metabolism are changed due to the Tmem135 mutation. Consistent with these changes, we found increased lipid accumulation in mutant Tmem135 eyecup samples. Since mutant Tmem135 mice have similar ocular pathologies as human age-related macular degeneration (AMD) eyes, we compared our homozygous Tmem135 mutant eyecup RNA-Seq dataset with transcriptomic datasets of human AMD donor eyes. We found similar changes in genes involved in lipid metabolism between the homozygous Tmem135 mutant eyecups and AMD donor eyes. Our study suggests that the Tmem135 mutation affects lipid metabolism as similarly observed in human AMD eyes, thus Tmem135 mutant mice can serve as a good model for the role of dysregulated lipid metabolism in AMD.