bluuebunny/crossref_metadata_2025_split huggingface dataset:
Efficient Continuous kNN Join over Dynamic High-dimensional Data
Authors: Ukey Nimish , Zhang Guangjian , Yang Zhengyi , Li Binghao , Li Wei , Zhang Wenjie 
Published: September 2023

Abstract

Given a user dataset U and an object dataset I, a kNN join query in high-dimensional space returns the k nearest neighbors of each object in dataset U from the object dataset I. The kNN join is a basic and necessary operation in many applications, such as databases, data mining, computer vision, multi-media, machine learning, recommenda-tion systems, and many more. In the real world, datasets frequently update dynamically as objects are added or removed. In this paper, we propose novel methods of continuous kNN join over dynamic high-dimensional data. We firstly propose the HDR+ Tree, which supports more efficient insertion, deletion, and batch update. Further observed that the existing methods rely on globally correlated datasets for effec-tive dimensionality reduction, we then propose the HDR Forest. It clusters the dataset and constructs multiple HDR Trees to capture local correlations among the data. As a result, our HDR Forest is able to process non-globally correlated datasets efficiently. Two novel optimisations are applied to the proposed HDR Forest, including the precomputation of the PCA states of data items and pruning-based kNN recomputation during item deletion. For the completeness of the work, we also present the proof of computing distances in reduced dimensions of PCA in HDR Tree. Extensive experiments on real-world datasets show that the proposed methods and optimisations outperform the baseline algorithms of naive RkNN join and HDR Tree.
How an Inferior Competitor Can Be a Successful Invader
Authors: Tesfay Yohannes B. , Blaschke Annika , Kreyling Juergen 
Published: September 2023

Abstract
The invasion of ecosystems by non-native species is recognized as one of the most significant global challenges, particularly in semiarid regions where native biodiversity is already under stress from drought and land degradation. The implicit assumption is that invaders are strong competitors, but a greenhouse pairwise experiment conducted to examine intraspecific and interspecific competition effects of Opuntia ficus-indica, a widespread invader in semiarid ecosystems, with two species native to the highlands of Eritrea, Ricinus communis and Solanum marginatum, revealed that O. ficus-indica is a weak competitor. The unique ability of O. ficus-indica's fallen cladodes to undergo vegetative growth becomes a fundamental trait contributing to its spread. This growth strategy allows O. ficus-indica to outgrow native species and establish a significant presence. In direct interaction, the competition in aboveground productivity measured by the logarithmic response ratio for O. ficus-indica was 3.4-fold and 5.9-fold higher than for R. communisand S. marginatum, respectively. Belowground, the native R. communis was facilitated (-1.00±0.69) by O. ficus-indica which itself suffered from high competition. This pattern became even more evident under water shortage, where aboveground competition for S. marginatum decreased 5.7-fold, and for O. ficus-indica, it increased 1.4-fold. Despite being a poor competitor, O. ficus-indica outperformed R. communis and S. marginatum in both aboveground (4.3 and 3.8 times more) and belowground (27 and 2.8 times more) biomass production, respectively. The findings of this study challenge the common interpretation that invasive species are strong competitors and highlight the importance of considering other factors, such as productivity and tolerance limits when assessing the potential impacts of invasive species on semiarid ecosystems.
The effects of Kinesio taping on pain intensity and soft tissue mechanical properties in non-specific low back pain.
Authors: Berger-Pasternak Bernadetta , Sipko Tomasz 
Published: September 2023

Abstract
Objective:To assess the effects of Kinesio Taping (KT), with or without tension, and post-isometric muscle relaxation (PIR) on pain intensity and the mechanical properties of myofascial tissues in chronic low back pain (LBP) patients.
Material and methods: Study participants (n = 64), aged 20 to 60, were randomly assigned to one of the three intervention groups. The numerical rating scale (NRS) assessed pain intensity at rest, and the MyotonPRO© measured tension, stiffness, and relaxation in the erector spinae on both sides of the lumbar spine. The examinations were undertaken before the intervention, post-interventions, and at a seven-day follow-up.
Results: Pain level was reduced for all groups (F (4, 116) = 39.2010, p < 0.01). In addition, post hoc analysis of the KT group showed significant increases in the tension and stiffness of the erector spinae and significantly decreased relaxation between the pre-intervention and follow-up measurements, but only on the non-dominant side (p < 0.01).
Conclusions: KT with or without tape tension and PIR had similar effects in decreasing the level of resting pain, though there were no intergroup differences in the numerical pain scale or selected mechanical properties. Asymmetries in myofascial tissue between sides of the spine have occurred, it can be concluded that the interventions were insufficient to restore normal function in soft tissue.
Absorption changes in Photosystem II in the Soret band region upon the formation of the chlorophyll cation radical (PD1PD2)+
Authors: Boussac Alain , Sugiura Miwa , Nakamura Makoto , Nagao Ryo , Noguchi Takumi , Viola Stefania , Rutherford A. William , Sellés Julien 
Published: September 2023

Abstract
Flash-induced absorption changes in the Soret region arising from the (PD1PD2)+ state, the chlorophyll cation radical formed upon light excitation of Photosystem II (PSII), were measured in Mn-depleted PSII cores at pH 8.6. Under these conditions, TyrD is i) reduced before the first flash, and ii) oxidized before subsequent flashes. In wild-type PSII, when TyrDox is present, an additional signal in the (PD1PD2)+-minus-(PD1PD2) difference spectrum was observed when compared to the first flash when TyrD is not oxidized. The additional feature was “W-shaped” with troughs at 434 nm and 446 nm. This feature was absent when TyrD was reduced, but was present i) when TyrD was physically absent (and replaced by phenylalanine) or ii) when its H-bonding histidine (D2-His189) was physically absent (replaced by a Leucine). Thus, the simple difference spectrum without the double trough feature at 434 nm and 446 nm, seemed to require the native structural environment around the reduced TyrD and its H bonding partners to be present. We found no evidence of involvement of PD1, ChlD1, PheD1, PheD2, TyrZ, and the Cytb559 heme in the W-shaped difference spectrum. However, the use of a mutant of the PD2 axial His ligand, the D2-His197Ala, shows that the PD2 environment seems involved in the formation of “W-shaped” signal.
TFPI from Erythroblasts Drives Heme Production in Central Macrophages Promoting Erythropoiesis in Polycythemia
Authors: Lu Xin-Jiang , Ma Jun-Kai , Su Lida , Feng Lin-Lin , Pan Li , Danzeng Qupei , Li Yanwei , Shang Tongyao , Zhan Xiao-Lin , Chen Si-Ying , Ying Shi-Bo , Hu Jian-Rao , Chen Xue Qun , Zhang Qi , Liang Tingbo 
Published: September 2023

Abstract

Bleeding and thrombosis are known as common complications of polycythemia for a long time. However, the role of coagulation system in erythropoiesis is unclear. Here, we discover that an anticoagulant protein tissue factor pathway inhibitor (TFPI) plays an essential role in erythropoiesis via the control of heme biosynthesis in central macrophages. TFPI levels are elevated in erythroblasts of human erythroblastic islands with JAK2V617F mutation and hypoxia condition. Erythroid lineage-specific knockout TFPI results in impaired erythropoiesis through decreasing ferrochelatase expression and heme biosynthesis in central macrophages. Mechanistically, the TFPI interacts with thrombomodulin to promote the downstream ERK1/2-GATA1 signaling pathway to induce heme biosynthesis in central macrophages. Furthermore, TFPI blockade impairs human erythropoiesis in vitro, and normalizes the erythroid compartment in mice with polycythemia. These results show that erythroblast-derived TFPI plays an important role in the regulation of erythropoiesis and reveal an interplay between erythroblasts and central macrophages.
Is there a Role for Adjunct Ankle Arthroscopy Following Repair of Isolated Syndesmotic Injuries? - A Database Analysis
Authors: Atzmon Ran , Trivedi Nikunj N. , Pierre Kinsley J , Calcei J. Blake , Sochaki Kyle R. , Sherman Seth L. , Voos James E. , Calcei Jacob G. 
Published: September 2023

Abstract
Background: Surgical intervention is recommended for unstable syndesmotic injuries, and adjunct arthroscopy offers diagnostic confirmation, anatomical reduction, and treating concomitant injuries. However, arthroscopy carries risks and added costs, requiring careful consideration by surgeons.
Purpose: The purpose of this study was to (1) compare the 30-day complication profile, (2) revision rate, and (3) five-year cost of treating isolated unstable syndesmotic injuries with surgical fixation versus surgical fixation plus arthroscopy.
Methods: A retrospective review of a large commercial claims database was performed to identify patients who underwent primary ankle syndesmosis stabilizations with and without ankle arthroscopy between the years 2007 – 2016.
Results: A total of 8,223 patients were included. The overall 30-day complication rate was 3.0%. The most common complication was anemia (0.7%) in our isolated open surgery group and infection (1.1%) in our adjunct arthroscopy group. The rate of revision surgery was similar between both groups at 30-days and 2 years. Of the 1,021 patients that underwent syndesmotic fixation with adjunct arthroscopy, 741 (72.6%) underwent extensive articular debridement, 158 (15.5%) underwent partial synovectomy, 145 (14.2%) underwent excision of osteochondral defect, and 58 (5.7%) had an intra-articular loose body that was removed. The average day of surgery payments was higher in the arthroscopy group ($12,901 versus $7,224). The average 5-year total procedure payment was also higher in the arthroscopy group ($26,171 versus $18,144).
Conclusion: Adding arthroscopy as an adjunct to operative treatment of unstable syndesmotic injuries is associated with higher costs. There does not seem to be a difference in complication profile or long-term revision rate. In addition to the need for intra-articular debridement, arthroscopy identified additional intra-articular pathology necessitating intervention in 19.9% of patients. Long-term follow-up studies are necessary to determine whether these additional procedures lead to improved long-term functional outcomes and patient satisfaction.
Level of Evidence: Level III Retrospective Cohort
The PALB2 DNA-binding domain is an intrinsically disordered recombinase
Authors: Korolev Sergey , Kyriukha Yevhenii , Redington Jennifer , Watkins Maxwell , Hopkins Jesse , Dastvan Reza , Pozzi Nicola , Uversky Vladimir 
Published: September 2023

Abstract
The Partner and Localizer of BRCA2 (PALB2) tumor suppressor is a scaffold protein that links BRCA1 with BRCA2 to initiate homologous recombination (HR). PALB2 interaction with DNA strongly enhances HR efficiency. The PALB2 DNA-binding domain (PALB2-DBD) supports DNA strand exchange, a complex multistep reaction supported by only a few protein families such as RecA-like recombinases or Rad52. The mechanisms of PALB2 DNA binding and strand exchange are unknown. We performed circular dichroism, electron paramagnetic spectroscopy, and small-angle X-ray scattering analyses and determined that PALB2-DBD is intrinsically disordered, even when bound to DNA. The intrinsically disordered nature of this domain was further supported by bioinformatics analysis. Intrinsically disordered proteins (IDPs) are prevalent in the human proteome and have many important biological functions. The complexity of the strand exchange reaction significantly expands the functional repertoire of IDPs. The results of confocal single-molecule FRET indicated that PALB2-DBD binding leads to oligomerization-dependent DNA compaction. We hypothesize that PALB2-DBD uses a chaperone-like mechanism to aid formation and resolution of complex DNA and RNA multichain intermediates during DNA replication and repair. Since PALB2-DBD alone or within the full-length PALB2 is predicted to have strong liquid-liquid phase separation (LLPS) potential, protein-nucleic acids condensates are likely to play a role in complex functionality of PALB2-DBD. Similar DNA-binding intrinsically disordered regions may represent a novel class of functional domains that evolved to function in eukaryotic nucleic acid metabolism complexes.
CONfirm: A Spectacular Galactic Scale MHD Powered Wind in ESO~320-G030
Authors: Gorski Mark , Aalto Susanne , König Sabine , Wethers Clare , Yang Chentao , Onishi Kyoko , Falstad Niklas , Barcos-Muñoz Loreto , Combes Francoise , Dìaz-Santos Tanio , Evans Aaron , Gallagher Jay , Garcia-Burillo Santiago , González-Alfonso Eduardo , Harada Nanase , Henkel Christian , Imanishi Masatoshi , Linden Sean , Muller Sebastien , Sato Mamiko , Mangum Jeff , Martin Sergio , Stanley Flora , Werf Paul van der , Viti Serena , Wada Keiichi 
Published: September 2023

Abstract
One of the most fundamental questions in galaxy evolution is how galaxies regulate nuclear growth and accretion onto supermassive black holes.
One potential way to do this is through a galactic wind which removes gas from the nucleus.
It is unclear whether galactic winds are powered by jets, mechanical winds, radiation, or via magnetohydrodynamic processes.
Compact obscured nuclei (CONs) represent a significant phase of galactic nuclear growth.
These galaxies hide growing supermassive black holes or unusual starbursts in their very opaque, extremely compact (r < 100 pc) centres.
They are found in approximately 30% of the luminous and ultra-luminous infrared galaxy (LIRG and ULIRG) population.
Here, we present high resolution ALMA observations (~30mas, ~5pc) of ground-state and vibrationally excited HCN towards ESO 320-G030 (IRAS 11506−3851).
ESO 320-G030 is an isolated luminous infrared galaxy known to host a compact obscured nucleus and a kiloparsec-scale molecular wind.
Our analysis of these high-resolution observations excludes the possibility of a starburst driven wind, a mechanically or energy driven AGN wind, and exposes a molecular magnetohydrodynamic wind.
If magnetohydrodynamic winds are intrinsic to CONs, these results imply that nuclear evolution of galaxies and growth of SMBHs is similar to the growth of hot cores or protostars, and that star formation or active galactic nuclei feedback may not be necessary to drive galactic winds.
Anti-CdtB and anti-vinculin antibodies to diagnose irritable bowel syndrome in inflammatory bowel disease patients
Authors: Barros Luisa Leite , Leite Gabriela , Morales Walter , Barlow Gillian M. , de Azevedo Matheus Freitas Cardoso , Carlos Alexandre de Sousa , Damião Adérson Omar Mourão Cintra , Pimentel Mark , Farias Alberto Queiroz 
Published: September 2023

Abstract

Background Despite adequate treatment, a subgroup of patients with inflammatory bowel disease (IBD), including Crohn's disease and ulcerative colitis, have persistent gastrointestinal symptoms that are not always related to mucosal damage. Recently, two autoantibodies, anti-CdtB and anti-vinculin, were validated as post-infectious IBS (PI-IBS) markers, however there is limited evidence of its diagnostic role in IBD population.Methods Patients with more than 3 bowel movements/day and indication of colonoscopy were enrolled. Samples were collected at the time of colonoscopy for assessment of serum levels of anti-CdtB and anti-vinculin antibodies.Results A total of 160 subjects were included in 4 groups: active IBD (n = 44); quiescent IBD and chronic diarrhea IBD-IBS (n = 25); predominant-diarrhea IBS (n = 45) and controls (n = 46). The mean value of the optical density for anti-CdtB was 1.2 ± 0.65 in group 1, 1.27 ± 0.64 in group 2, 1.49 ± 0.47 in the group 3 and 1.6 ± 0.68 in group 4, p = 0.012. For anti-vinculin, optical densities were: 1.34 ± 0.78 in group 1, 1.46 ± 0.92 in group 2, 1.31 ± 0.79 in group 3 and 1.41 ± 0.86 for controls (p = 0.875). Using a cut-off of 1.56 for anti-CdtB, the positivity between groups was n = 10 (22.7%) in group 1, n = 9 (34.6%) in group 2, 19 (43.2%) in group 3, 21 (45.7%) in group 4 (p = 0.106). The positivity of anti-vinculin using a cut-off of 1.6 was n = 18 (40.9%) in group 1, n = 11 (42.3%), n = 15 (34.1%), n = 22 (47.8%) (p = 0.622).Conclusions Our findings show that anti-CdtB and anti-vinculin could not identify IBD-IBS patients or discriminate IBS-D from healthy controls.
Multi-omics analysis in primary T cells elucidates mechanisms behind disease associated genetic loci
Authors: Orozco Gisela , Shi Chenfu , Zhao Danyun , Rossi Stefano , Frantzeskos Antonios , Ding James , Ferrazzano Carlo , Wynn Charlotte , Hum Ryan , Richards Ellie , Gupta Muskan , Patel Khadijah , Yap Chuan Fu , Plant Darren , Grencis Richard , Martin Paul , Adamson Antony , Eyre Stephen , Bowes John , Barton Anne , Ho Pauline , Rattray Magnus 
Published: September 2023

Abstract

In this study, we present the most extensive dataset of chromatin conformation with matching gene expression and chromatin accessibility from primary T cells to date. We use this data to enhance our understanding of the mechanisms by which GWAS variants impact gene regulation, revealing how genetic variation alters chromatin accessibility and structure in primary cells at an unprecedented scale. We refine the mapping of GWAS loci to implicated regulatory elements, such as CTCF binding sites and other enhancer elements, aiding gene assignment. Importantly, we uncover BCL2L11 as the probable causal gene within the RA locus rs13396472, despite the GWAS variants’ intronic positioning relative to ACOXL, and we identify mechanisms involving SESN3 dysregulation in the RA locus rs4409785. Given these genes’ significant role in T cell development and maturation, our work deepens our comprehension of autoimmune disease pathogenesis and suggesting potential treatment targets.
Periacetabular Osteotomy: An Analysis of Social Media to Determine the Most Common Questions Asked by the Periacetabular Osteotomy Population
Authors: Gaddis John , Laboret Bretton , Bialaszewski Ryan , Bergman Elizabeth , Kurz Jenny , Mulligan Edward , Wells Joel E. 
Published: September 2023

Abstract
Background
The Bernese Periacetabular Osteotomy (PAO) has become a popular surgery for fixing development dysplasia of the hip, yet the most common concerns of the PAO population remains ambiguous. To investigate Facebook, Instagram and Twitter to further understand what the most common preoperative and postoperative questions patients undergoing PAO are asking. We hypothesized most questions would be asked by patients in the preoperative timeframe with regards to education surrounding PAO surgery.
Methods
Facebook, Instagram and Twitter were queried consecutively from February 1, 2023 to November 23, 2011. Facebook was searched for the two most populated interest groups; “Periacetabular Osteotomy (PAO)” and “Periacetabular Osteotomy Australia”. Instagram and Twitter were queried for the most popular hashtags: “#PAOwarrior”, “#PAOsurgery”, “#periacetabularosteotomy”, “#periacetabularosteotomyrecovery”, and “#paorecovery”. Patient questions were categorized according to preoperative and postoperative questions. Questions were further placed into specific themes in their respective preoperative or postoperative question types.
Results
Two thousand five hundred and fifty-nine posts were collected, with 849 (33%) posts containing 966 questions. Of the 966 questions, 443 (45.9%) and 523 (54.1%) were preoperative and postoperative questions, respectively. The majority of questions were postoperative complication related (23%) and symptom management (21%). Other postoperative questions included recovery/rehabilitation (21%), and general postoperative questions (18%). The most common preoperative questions were related to PAO education (23%). Rehabilitation (19%), hip dysplasia education (17%), and surgeon selection (12%) were other preoperative questions topics included. Most questions came from Facebook posts. Of 1,054 Facebook posts, 76% were either preoperative or postoperative questions and from the perspective of the patient (87%).
Conclusion
The majority of patients in the PAO population sought advice on postoperative complications and symptom management. Some patients asked about education surrounding PAO surgery. Understanding the most common concerns and questions patients have can help providers educate patients and focus on more patient-relevant perioperative conversations.
Latinas in Medicine: Evaluating and Understanding Their Experience of Latinas in Medical Education: A Cross Sectional Survey
Authors: Geiger Gabriella , Kiel Lauren , Horiguchi Miki , Martinez-Aceves Celia , Meza Kelly , Christophers Briana , Orellana Priscilla , Pinzon Maria Mora , Lubner Sam J. , Florez Narjust 
Published: September 2023

Abstract
Background: The percentage of physicians identifying as Latina has not improved despite improvements in recruitment of Latina medical students, suggesting barriers to retention and career advancement. Discriminatory experiences and mental health inflictions throughout training may contribute to difficulties in recruitment, retainment, and advancement of Hispanic/Latinx trainees, a notably understudied population.
Methods: An anonymous, online survey was distributed to Latinas in the continental U.S. between June 22 to August 12, 2022. Eligibility criteria included: self-identifying as Hispanic/Latina, female/woman, and completing or have completed medical school, residency, or fellowship in the continental U.S. in the past 10 years. Recruitment was done via the Twitter account @LatinasInMed and outreach to Latino Medical Student Association chapters. Descriptive statistics summarized the self-reported experiences.
Results: The survey included 230 Hispanic/Latinx women, mostly medical students (46.9%). A majority (54.5%) reported negative ethnicity-based interactions from patients and/or patients’ families; 71.8%, from others in the medical field. High rates of depression (76.2%) and anxiety (92.6%) during training were reported by Latinas, especially medical students. Feelings of imposter syndrome and burnout were high at 90.7% and 87.4%, respectively.
Conclusions: This is the first study evaluating the unique experiences of Latinas in medicine, who reported discrimination and mental health struggles, specifically during medical school, at alarmingly high rates. Our findings could aid in creating the needed interventions to support Latinas in medical training to reduce the existing exodus of Latinas from medicine.