bluuebunny/crossref_metadata_2025_split huggingface dataset:
Construction and function analysis of the LncRNA-miRNA-mRNA competing endogenous RNA network in autoimmune hepatitis
Authors: Li Zhencheng , Liu Ying , Hou Yiwen , Li Zhurong , Chen Chen , Hao Huiqin , Liu Yang 
Published: December 2022

Abstract
Aims
To construct the lncRNA-miRNA-mRNA competing endogenous RNA (ceRNA) network based on our microarray chip data for providing new insights into the pathogenesis of autoimmune hepatitis.

Methods
The ceRNA pairs were obtained by calculating the co-expression relationships among the differentially expressed lncRNAs (DELs), differentially expressed microRNAs (DEMis), and differentially expressed mRNAs (DEMs) with Pearson correlation analysis and hypergeometric distribution. The data of the differentially expressed genes were obtained from our previous studies in the concanavalin A-induced AIH mouse model. The biological functions of the ceRNA network were revealed by carrying out the GO and KEGG enrichment analysis. The expression of some differentially expressed genes constructed in the ceRNA pair was validated, and the correlation to liver injury was analyzed.

Results
The mRNAs constructed in the ceRNA network were most significantly annotated in the GO terms of “inflammatory response” and enriched in “Cytokine-cytokine receptor interaction” and “MAPK signaling pathway”. The differences in the expression of Gm38975, mmu-miR-125a-3p, and Map3k13 between the model group and control group were significant, and the expression of these genes at a transcriptional level was positively or negatively correlated to the activity of ALT and AST as well as the amount of MDA and NO.

Conclusion
Our work is the first in its kind to predict and illustrate the comprehensive lncRNA-miRNA-mRNA ceRNA network associated with the etiopathogenesis of AIH. This study indicates to lay the foundation for revealing the potential roles of ceRNAs in the occurrence of AIH and provide novel treatment targets for this disease.
Pre-neuromusculoskeletal injury Risk factor Evaluation and Post-neuromusculoskeletal injury Assessment for Return-to-duty/activity Enhancement (PREPARE) in military service members: a prospective, observational study protocol
Authors: Butowicz Courtney M. , Hendershot Brad D. , Watson Nora L. , Brooks Daniel I. , Goss Donald L. , Whitehurst Robert A. , Harvey Alisha D. , Helton Matthew S. , Kardouni Joseph R. , Garber Matthew B. , Mauntel Timothy C. 
Published: December 2022

Abstract
Background
Non-battle related musculoskeletal injuries (MSKI) are one of the primary medical issues diminishing Service member medical readiness. The MSKI problem is challenging because it is difficult to assess all of the factors that increase MSKI risk and influence post-MSKI outcomes. Currently, there are no high-throughput, clinically-feasible, and comprehensive assessments to generate patient-centric data for informing pre- and post-MSKI risk assessment and mitigation strategies. The objective of the “Pre-neuromusculoskeletal injury Risk factor Evaluation and Post-neuromusculoskeletal injury Assessment for Return-to-duty/activity Enhancement (PREPARE)” study is to develop a comprehensive suite of clinical assessments to identify the patient-specific factors contributing to MSKI risks and undesired post-MSKI outcomes.

Methods
This is a phased approach, multi-center prospective, observational study (ClinicalTrials.gov number: NCT05111925) to identify physical and psychosocial factors contributing to greater MSKI risk and undesired post-MSKI outcomes, and to identify and validate a minimal set of assessments to personalize risk mitigation and rehabilitation strategies. In Phase I, one cohort (n = 560) will identify the physical and psychosocial factors contributing to greater MSKI risks (single assessment), while a second cohort (n = 780) will identify the post-MSKI physical and psychosocial factors contributing to undesired post-MSKI outcomes (serial assessments at enrollment, 4 weeks post-enrollment, 12 weeks post-enrollment). All participants will complete comprehensive movement assessments captured via a semi-automated markerless motion capture system and instrumented walkway, joint range of motion assessments, psychosocial measures, and self-reported physical fitness performance and MSKI history. We will follow participants for 6 months. We will identify the minimum set of clinical assessments that provide requisite data to personalize MSKI risk mitigation and rehabilitation strategies, and in Phase II validate our optimized assessments in new cohorts.

Discussion
The results of this investigation will provide clinically relevant data to efficiently inform MSKI risk mitigation and rehabilitation programs, thereby helping to advance medical care and retain Service members on active duty status.
Trial Registration: PREPARE was prospectively registered on ClinicalTrials.gov (NCT05111925) on 5 NOV 2021, prior to study commencement.
Pre-operative kidney biomarkers and risks for death, cardiovascular and chronic kidney disease events after cardiac surgery: the TRIBE-AKI study
Authors: Vasquez-Rios George , Moledina Dennis G. , Jia Yaqi , McArthur Eric , Mansour Sherry G. , Thiessen-Philbrook Heather , Shlipak Michael G. , Koyner Jay L. , Garg Amit X. , Parikh Chirag R. , Coca Steven G. ,   for the TRIBE-AKI Consortium
Published: December 2022

Abstract
Background
Soluble tumor necrosis factor receptor (sTNFR)1, sTNFR2, and plasma kidney injury molecule-1 (KIM-1) are associated with kidney events in patients with and without diabetes. However, their associations with clinical outcomes when obtained pre-operatively have not been explored.

Methods
The TRIBE-AKI cohort study is a prospective, multicenter, cohort study of high-risk adults undergoing cardiac surgery. We assessed the associations between pre-operative concentrations of plasma sTNFR1, sTNFR2, and KIM-1 and post-operative long-term outcomes including mortality, cardiovascular events, and chronic kidney disease (CKD) incidence or progression after discharge.

Results
Among 1378 participants included in the analysis with a median follow-up period of 6.7 (IQR 4.0–7.9) years, 434 (31%) patients died, 256 (19%) experienced cardiovascular events and out of 837 with available long-term kidney function data, 30% developed CKD. After adjustment for clinical covariates, each log increase in biomarker concentration was independently associated with mortality with 95% CI adjusted hazard ratios (aHRs) of 3.0 (2.3–4.0), 2.3 (1.8–2.9), and 2.0 (1.6–2.4) for sTNFR1, sTNFR2, and KIM-1, respectively. For cardiovascular events, the 95% CI aHRs were 2.1 (1.5–3.1), 1.9 (1.4–2.6) and 1.6 (1.2–2.1) for sTNFR1, sTNFR2 and KIM-1, respectively. For CKD events, the aHRs were 2.2 (1.5–3.1) for sTNFR1, 1.9 (1.3–2.7) for sTNFR2, and 1.7 (1.3–2.3) for KIM-1. Despite the associations, each of the biomarkers alone or in combination failed to result in robust discrimination on an absolute basis or compared to a clinical model.

Conclusion
sTNFR1, sTNFR2, and KIM-1 were independently associated with longitudinal outcomes after discharge from a cardiac surgery hospitalization including death, cardiovascular, and CKD events when obtained pre-operatively in high-risk individuals. Pre-operative plasma biomarkers could serve to assist during the evaluation of patients in whom cardiac surgery is planned.
Short and long-term outcomes after off-pump coronary endarterectomy stratified by different target vessels
Authors: Fang Ying , Wei Hua , Wu Zhen , Song Wei , Liu Changcheng , Li Haiyang , Gu Chengxiong 
Published: December 2022

Abstract
Background
The efficacy of off-pump coronary endarterectomy (CE) has been proven in patients with diffuse coronary artery disease (DCAD). However, the clinical benefits of of-pump CE stratified by different target vessels remain controversial. This retrospective study assessed the effect of the territory and number of CE on short- and long-term outcomes of DCAD.

Methods
From January 2012 to December 2014, 246 patients undergoing off-pump coronary artery bypass grafting (OPCABG) + CE were included. The patients were grouped by the territory and number of CE. The primary endpoints were postoperative acute myocardial infarction (PMI) and long-term major adverse cardiovascular and cerebrovascular events (MACCE).

Results
Sixty-five patients (26.42%) were in the left anterior descending branch (LAD) group (CE on LAD), 134(54.47%) in the right coronary artery (RCA) group (CE on RCA), and 47(19.10%) in the multi-vessels group. PMI in the LAD group, RCA group, and multi-vessels group were 3.08%, 6.72%, and 14.89%, respectively (P = 0.08). Multi-vessels CE (OR = 9.042, 95%CI 2.198–37.193, P = 0.002), CE-plaque length ≥ 3 cm (OR = 6.247, 95%CI 2.162–18.052, P < 0.001), and type 2 diabetes mellitus (2DM) (OR = 4.072, 95%CI 1.598–10.374, P = 0.003) were independent risk factors of PMI. The long-term (mean 76 months) MACCE in the LAD group, RCA group, and multi-vessels group were 13.85%, 17.91%, and 10.64%, respectively (P = 0.552). Cox analysis indicated that PMI (HR = 7.113, 95%CI 3.129–16.171, P < 0.001) and Age ≥ 65 years (HR = 2.488, 95%CI 1.214–5.099, P = 0.013) increased the risk of long-term MACCE.

Conclusions
Multi-vessel CE and CE-plaque length ≥ 3 cm significantly increased risk of PMI after OPCABG + CE, but the territory and number of CE did not affect long-term MACCE.
Evaluation of engineered low-lignin poplar for conversion into advanced bioproducts
Authors: Lin Chien-Yuan , Geiselman Gina M. , Liu Di , Magurudeniya Harsha D. , Rodriguez Alberto , Chen Yi-Chun , Pidatala Venkataramana , Unda Faride , Amer Bashar , Baidoo Edward E. K. , Mansfield Shawn D. , Simmons Blake A. , Singh Seema , Scheller Henrik V. , Gladden John M. , Eudes Aymerick 
Published: December 2022

Abstract
Background
Lignocellulosic resources are promising feedstocks for the manufacture of bio-based products and bioenergy. However, the inherent recalcitrance of biomass to conversion into simple sugars currently hinders the deployment of advanced bioproducts at large scale. Lignin is a primary contributor to biomass recalcitrance as it protects cell wall polysaccharides from degradation and can inhibit hydrolytic enzymes via non-productive adsorption. Several engineering strategies have been designed to reduce lignin or modify its monomeric composition. For example, expression of bacterial 3-dehydroshikimate dehydratase (QsuB) in poplar trees resulted in a reduction in lignin due to redirection of metabolic flux toward 3,4-dihydroxybenzoate at the expense of lignin. This reduction was accompanied with remarkable changes in the pools of aromatic compounds that accumulate in the biomass.

Results
The impact of these modifications on downstream biomass deconstruction and conversion into advanced bioproducts was evaluated in the current study. Using ionic liquid pretreatment followed by enzymatic saccharification, biomass from engineered trees released more glucose and xylose compared to wild-type control trees under optimum conditions. Fermentation of the resulting hydrolysates using Rhodosporidium toruloides strains engineered to produce α-bisabolene, epi-isozizaene, and fatty alcohols showed no negative impact on cell growth and yielded higher titers of bioproducts (as much as + 58%) in the case of QsuB transgenics trees.

Conclusion
Our data show that low-recalcitrant poplar biomass obtained with the QsuB technology has the potential to improve the production of advanced bioproducts.
Bladder paraganglioma treated with open partial cystectomy: a case report
Authors: Aksakallı Tugay , Kozubaev Bakytbek , Yapanoğlu Turgut , Utlu Adem , Alper Fatih , Bilen Arzu , Bulut Numan 
Published: December 2022

Abstract
Background
Bladder paraganglioma is a neuroendocrine tumor that accounts for less than 0.1% of all bladder tumors. Symptoms caused by catecholamine release such as hypertension, palpitation, syncope, and macroscopic hematuria are the most common findings. Treatment modalities include transurethral resection, and partial or total cystectomy.

Case presentation
A 38-year-old Turkish female patient was examined for hematuria that had been persisting for 6 months. Among the clinical findings, only hematuria was present. Absence of adrenergic symptoms such as hypertension, palpitations, and syncope at the first presentation made it difficult to consider bladder paraganglioma in the differential diagnosis. Therefore, cystoscopy and transurethral resection were performed with the thought of urothelial cancer. Findings such as hypertension and bradycardia that developed during diagnostic transurethral resection suggested that it might be bladder paraganglioma. After the radiological evaluation and endocrinological preparation, the patient underwent partial cystectomy.

Conclusion
The rarity of cases having been reported in the literature leads to uncertainties in the management of bladder paraganglioma. Adrenergic symptoms developing during transurethral resection should suggest paraganglioma in the differential diagnosis. A multidisciplinary approach and medical treatment are mandatory to prevent life-threatening complications such as hypertensive crisis, vascular collapse, and multiple-organ system failure. We aimed to report the clinical presentation that includes only macroscopic hematuria mimicking urothelial cancer and to emphasize the multidisciplinary approach in the treatment.
RNA N6-methyladenosine modification mediates downregulation of NR4A1 to facilitate malignancy of cervical cancer
Authors: Yu Tao , Wu Fuxia , Jia Yan , Zhang Xue , Qi Xiaozhen , Jin Zeyuan , Hao Tongxin , Zhao Jianing , Liu Ziyu , Wang Chaokun , Niu Minmin , Yue Qin , Li Min , Liu Yankun 
Published: December 2022

Abstract
Background
N6-methyladenosine is the most abundant eukaryotic mRNA modification and alters a wide range of cellular processes in cancer. Therefore, defining the molecular details are critical for understanding the regulatory mechanism of m6A modification.

Results
We found that METTL3, a core m6A methyltransferase component, is upregulated and functions as an oncogene in cervical cancer. Mechanistically, METTL3 induces the degradation of m6A-modified transcripts of NR4A1 though YTHDF2-DDX6 pathway. In addition, NR4A1 overexpression attenuates the malignant progression through recruiting the LSD1/HDAC1/CoREST transcriptional repression complex to AKT1 promoter.

Conclusions
Our findings reveal that m6A regulates cervical cancer cellular progression through manipulating NR4A1 pathway.
Earthworm effects on soil biogeochemistry in temperate forests focusing on stable isotope tracing: a review
Authors: Kim Gaeun , Jo Heejae , Kim Hyung-Sub , Kwon Minyoung , Son Yowhan 
Published: December 2022

AbstractEarthworms (Oligochaeta) are globally distributed soil-dwelling invertebrates that alter soil properties through feeding, casting, and burrowing behaviors. Soil physicochemical modification, which may directly influence the availability and dynamics of organic and inorganic nutrients in the soil, such as carbon and nitrogen, includes soil texture, porosity, and pH. Temperate forests produce year-round plant litter, the primary food source for earthworms, and litter processed by earthworms significantly contributes to soil organic material storage. In recent decades, studies on temperate forest ecosystems have attempted to elucidate and quantify the earthworm impact on soil organic material dynamics, mainly targeting carbon and nitrogen, using isotope analysis methods. This paper summarizes studies on the following topics: (1) effect of earthworm modification on soil property to understand these alterations’ interaction with carbon and nitrogen dynamics, and (2) isotope tracing method, used to elucidate the earthworm effect on carbon and nitrogen transformation and movements in temperate forests. The particular emphasis on the isotope method is based on its capability of time-adjusted quantification of organic materials in the ecosystem compartments. Also, isotopic labeling in biomass has a broad range of applications, such as tracing assimilated food sources, identifying trophic interactions in soil food webs, and addressing material dynamics in complex linkages between earthworms and their environment. In addition, we provide perspectives on other methodologies, such as chronology and population ecology, as feasible options to further assist the isotope tracing of earthworms’ impact on soil nutrient dynamics.
Hydrogen peroxide induced by nerve injury promotes axon regeneration via connective tissue growth factor
Authors: Negro Samuele , Lauria Fabio , Stazi Marco , Tebaldi Toma , D’Este Giorgia , Pirazzini Marco , Megighian Aram , Lessi Francesca , Mazzanti Chiara M. , Sales Gabriele , Romualdi Chiara , Fillo Silvia , Lista Florigio , Sleigh James N. , Tosolini Andrew P. , Schiavo Giampietro , Viero Gabriella , Rigoni Michela 
Published: December 2022

AbstractRegeneration of the neuromuscular junction (NMJ) leverages on extensive exchange of factors released from motor axon terminals (MATs), muscle fibers and perisynaptic Schwann cells (PSCs), among which hydrogen peroxide (H2O2) is a major pro-regenerative signal. To identify critical determinants of NMJ remodeling in response to injury, we performed temporal transcriptional profiling of NMJs from 2 month-old mice during MAT degeneration/regeneration, and cross-referenced the differentially expressed genes with those elicited by H2O2 in SCs. We identified an enrichment in extracellular matrix (ECM) transcripts, including Connective Tissue Growth Factor (Ctgf), which is usually expressed during development. We discovered that Ctgf levels are increased in a Yes-associated protein (YAP)-dependent fashion in response to rapid, local H2O2 signaling generated by stressed mitochondria in the injured sciatic nerve, a finding highlighting the importance of signals triggered by mechanical force to motor nerve repair. Through sequestration of Ctgf or inactivation of H2O2, we delayed the recovery of neuromuscular function by impairing SC migration and, in turn, axon-oriented re-growth. These data indicate that H2O2 and its downstream effector Ctgf are pro-regenerative factors that enable axonal growth, and reveal a striking ECM remodeling process during nerve regeneration upon local H2O2 signaling. Our study identifies key transcriptomic changes at the regenerating NMJ, providing a rich source of pro-regenerative factors with potential for alleviating the consequences of peripheral nerve injuries.
Evaluation and trend of fashion design research: visualization analysis based on CiteSpace
Authors: Zou Yixin , Pintong Sarawuth , Shen Tao , Luh Ding-Bang 
Published: December 2022

AbstractFashion or apparel refers to a topic discussed publicly as an indispensable discipline on a day-to-day basis, which has aroused rising attention from academic sessions over the past two decades. However, since the topic of fashion design covers knowledge in extensive ranges and considerable information, scholars have not fully grasped the research field of fashion design, and the research lacks directional guidance. To gain more insights into the existing research status and fronts in the fashion design field, this study conducts a quantitative literature analysis. The research of this study is conducted by employing CiteSpace technology to visualize and analyze 1388 articles regarding “fashion design” in the Web of Science (WOS) Core Collection. To be specific, the visualization and the analysis concentrate on the annual number of articles, author collaboration, institutional collaboration, literature citations, keywords clustering, and research trend evolution of the mentioned articles. As highlighted by this study, the effect of the US and the UK on academic research in fashion design is relatively stronger and extensive. Sustainable fashion refers to the research topic having aroused more attention since 2010, while new research topics over the past few years consist of “wearable fashion”, “transgender fashion” and “medical fashion”. The overall research trend of fashion design is developing as interdisciplinary cross research. This study systematically reviews the relevant literature, classifies the existing research status, research hotspots and frontier trends in the academic field of “fashion design”, and presents the knowledge map and information of literature for researchers in relevant fields.
Wearable capacitive pressure sensor using interdigitated capacitor printed on fabric
Authors: Truong TranThuyNga , Kim Ji-Seon , Yeun Eunji , Kim Jooyong 
Published: December 2022

AbstractThis paper presented a systematic approach to electro-textile pressure sensors dependent on interdigitated capacitors (IDCs) printed on fabric. In this study, we proposed a highly sensitive, broad-range pressure sensor based on the combination of porous Ecoflex, carbon nanotubes (CNTs), and interdigitated electrodes. Firstly, characterizations of the interdigitated capacitor using silver ink on Cotton and Polyester fabric were completed by precision LCR meter across the frequency range from 1 to 300 kHz. The effect of the fabric on the performance of sensor sensitivity was included. Secondly, estimating and optimizing the volume fraction of CNTs and air gaps on the properties of composites are included. The presence of volume fraction CNTs enhanced the bond strength of composites and improved sensor deformability. The robustness of the presented sensor was demonstrated by testing under high pressure at 400 kPa for more than 20,000 cycles. Thirdly, the combination of CNTs and porous dielectric achieved a broad detection range (400 kPa) with a sensitivity range from 0.035 (at 400 kPa) to 0.15 $${\mathrm{KPa}}^{-1}$$

KPa

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1

(at 50 kPa). Finally, the Cotton and Polyester substrate comparison demonstrates that selecting a suitable dielectric substrate affects sensor sensitivity and signal output.