bluuebunny/crossref_metadata_2025_split huggingface dataset:
Differentially expressed lncRNAs in liver tissues of TX mice with hepatolenticular degeneration
Authors: Zhang Juan , Ma Ying , Xie Daojun , Bao Yuancheng , Yang Wenming , Wang Han , Jiang Huaizhou , Han Hui , Dong Ting 
Published: January 2021

AbstractWilson's Disease (WD), an ATP7B-mutated inherited disease that affects copper transport, is characterised by liver and nervous system manifestations. Long non-coding (ln-c) RNAs are widely involved in almost all physiological and pathological processes in the body, and are associated with numerous diseases. The present study aimed to elucidate the lncRNA-mRNA regulation network in a TX WD mouse model using RNA sequencing (RNA-seq). lncRNA expression profiles were screened using RNA-seq and real-time polymerase chain reaction, and differentially expressed lncRNAs and mRNAs were identified. To analyse the biological functions and pathways for the differentially expressed mRNAs, gene ontology and pathway enrichment analyses were performed. A significantly correlated lncRNA-mRNA relationship pair was calculated by CNC analysis to construct differential lncRNA and mRNA co-expression networks. A total of 2564 significantly up-regulated and 1052 down-regulated lncRNAs, and 1576 up-regulated and 297 down-regulated mRNAs, were identified. These genes were found to be associated with key processes such as apoptosis, and KEGG analysis revealed enrichment in the drug metabolism-cytochrome P450 pathway, PPAR signalling pathway, Notch signalling pathway, and MAPK signalling pathway. The identified differential lncRNAs may be involved in the pathogenesis and development of WD liver injury.
Multi-scale image analysis and prediction of visual field defects after selective amygdalohippocampectomy
Authors: David Bastian , Eberle Jasmine , Delev Daniel , Gaubatz Jennifer , Prillwitz Conrad C. , Wagner Jan , Schoene-Bake Jan-Christoph , Luechters Guido , Radbruch Alexander , Wabbels Bettina , Schramm Johannes , Weber Bernd , Surges Rainer , Elger Christian E. , Rüber Theodor 
Published: January 2021

AbstractSelective amygdalohippocampectomy is an effective treatment for patients with therapy-refractory temporal lobe epilepsy but may cause visual field defect (VFD). Here, we aimed to describe tissue-specific pre- and postoperative imaging correlates of the VFD severity using whole-brain analyses from voxel- to network-level. Twenty-eight patients with temporal lobe epilepsy underwent pre- and postoperative MRI (T1-MPRAGE and Diffusion Tensor Imaging) as well as kinetic perimetry according to Goldmann standard. We probed for whole-brain gray matter (GM) and white matter (WM) correlates of VFD using voxel-based morphometry and tract-based spatial statistics, respectively. We furthermore reconstructed individual structural connectomes and conducted local and global network analyses. Two clusters in the bihemispheric middle temporal gyri indicated a postsurgical GM volume decrease with increasing VFD severity (FWE-corrected p < 0.05). A single WM cluster showed a fractional anisotropy decrease with increasing severity of VFD in the ipsilesional optic radiation (FWE-corrected p < 0.05). Furthermore, patients with (vs. without) VFD showed a higher number of postoperative local connectivity changes. Neither in the GM, WM, nor in network metrics we found preoperative correlates of VFD severity. Still, in an explorative analysis, an artificial neural network meta-classifier could predict the occurrence of VFD based on presurgical connectomes above chance level.
Predicting adult neuroscience intensive care unit admission from emergency department triage using a retrospective, tabular-free text machine learning approach
Authors: Klang Eyal , Kummer Benjamin R. , Dangayach Neha S. , Zhong Amy , Kia M. Arash , Timsina Prem , Cossentino Ian , Costa Anthony B. , Levin Matthew A. , Oermann Eric K. 
Published: January 2021

AbstractEarly admission to the neurosciences intensive care unit (NSICU) is associated with improved patient outcomes. Natural language processing offers new possibilities for mining free text in electronic health record data. We sought to develop a machine learning model using both tabular and free text data to identify patients requiring NSICU admission shortly after arrival to the emergency department (ED). We conducted a single-center, retrospective cohort study of adult patients at the Mount Sinai Hospital, an academic medical center in New York City. All patients presenting to our institutional ED between January 2014 and December 2018 were included. Structured (tabular) demographic, clinical, bed movement record data, and free text data from triage notes were extracted from our institutional data warehouse. A machine learning model was trained to predict likelihood of NSICU admission at 30 min from arrival to the ED. We identified 412,858 patients presenting to the ED over the study period, of whom 1900 (0.5%) were admitted to the NSICU. The daily median number of ED presentations was 231 (IQR 200–256) and the median time from ED presentation to the decision for NSICU admission was 169 min (IQR 80–324). A model trained only with text data had an area under the receiver-operating curve (AUC) of 0.90 (95% confidence interval (CI) 0.87–0.91). A structured data-only model had an AUC of 0.92 (95% CI 0.91–0.94). A combined model trained on structured and text data had an AUC of 0.93 (95% CI 0.92–0.95). At a false positive rate of 1:100 (99% specificity), the combined model was 58% sensitive for identifying NSICU admission. A machine learning model using structured and free text data can predict NSICU admission soon after ED arrival. This may potentially improve ED and NSICU resource allocation. Further studies should validate our findings.
SHP2 blockade enhances anti-tumor immunity via tumor cell intrinsic and extrinsic mechanisms
Authors: Wang Ye , Mohseni Morvarid , Grauel Angelo , Diez Javier Estrada , Guan Wei , Liang Simon , Choi Jiyoung Elizabeth , Pu Minying , Chen Dongshu , Laszewski Tyler , Schwartz Stephanie , Gu Jane , Mansur Leandra , Burks Tyler , Brodeur Lauren , Velazquez Roberto , Kovats Steve , Pant Bhavesh , Buruzula Giri , Deng Emily , Chen Julie T. , Sari-Sarraf Farid , Dornelas Christina , Varadarajan Malini , Yu Haiyan , Liu Chen , Lim Joanne , Hao Huai-Xiang , Jiang Xiaomo , Malamas Anthony , LaMarche Matthew J. , Geyer Felipe Correa , McLaughlin Margaret , Costa Carlotta , Wagner Joel , Ruddy David , Jayaraman Pushpa , Kirkpatrick Nathaniel D. , Zhang Pu , Iartchouk Oleg , Aardalen Kimberly , Cremasco Viviana , Dranoff Glenn , Engelman Jeffrey A. , Silver Serena , Wang Hongyun , Hastings William D. , Goldoni Silvia 
Published: January 2021

AbstractSHP2 is a ubiquitous tyrosine phosphatase involved in regulating both tumor and immune cell signaling. In this study, we discovered a novel immune modulatory function of SHP2. Targeting this protein with allosteric SHP2 inhibitors promoted anti-tumor immunity, including enhancing T cell cytotoxic function and immune-mediated tumor regression. Knockout of SHP2 using CRISPR/Cas9 gene editing showed that targeting SHP2 in cancer cells contributes to this immune response. Inhibition of SHP2 activity augmented tumor intrinsic IFNγ signaling resulting in enhanced chemoattractant cytokine release and cytotoxic T cell recruitment, as well as increased expression of MHC Class I and PD-L1 on the cancer cell surface. Furthermore, SHP2 inhibition diminished the differentiation and inhibitory function of immune suppressive myeloid cells in the tumor microenvironment. SHP2 inhibition enhanced responses to anti-PD-1 blockade in syngeneic mouse models. Overall, our study reveals novel functions of SHP2 in tumor immunity and proposes that targeting SHP2 is a promising strategy for cancer immunotherapy.
Cellular dynamics of the SecA ATPase at the single molecule level
Authors: Seinen Anne-Bart , Spakman Dian , van Oijen Antoine M. , Driessen Arnold J. M. 
Published: January 2021

AbstractIn bacteria, the SecA ATPase provides the driving force for protein secretion via the SecYEG translocon. While the dynamic interplay between SecA and SecYEG in translocation is widely appreciated, it is not clear how SecA associates with the translocon in the crowded cellular environment. We use super-resolution microscopy to directly visualize the dynamics of SecA in Escherichia coli at the single-molecule level. We find that SecA is predominantly associated with and evenly distributed along the cytoplasmic membrane as a homodimer, with only a minor cytosolic fraction. SecA moves along the cell membrane as three distinct but interconvertible diffusional populations: (1) A state loosely associated with the membrane, (2) an integral membrane form, and (3) a temporarily immobile form. Disruption of the proton-motive-force, which is essential for protein secretion, re-localizes a significant portion of SecA to the cytoplasm and results in the transient location of SecA at specific locations at the membrane. The data support a model in which SecA diffuses along the membrane surface to gain access to the SecYEG translocon.
Hepatic endoplasmic reticulum calcium fluxes: effect of free fatty acids and KATP channel involvement
Authors: Al-Rawi Rawan , Wang Xudong , McCormick Kenneth 
Published: January 2021

Abstract
As a common sequel to obesity, plasma and intracellular free fatty acid (FFA) concentrations are elevated and, as a consequence, manifold disturbances in metabolism may ensue. Biochemical processes in the cytosol and organelles, such as mitochondria and endoplasmic reticulum (ER), can be disturbed. In the ER, the maintenance of a high calcium gradient is indispensable for viability. In sarcoplasmic reticulum, selective FFA can induce ER stress by disrupting luminal calcium homeostasis; however, there are limited studies in hepatic microsomes. Our studies found that FFA has a noxious effect on rat hepatic microsomal calcium flux, and the extent of which depended on the number of double bonds and charge. Furthermore, insofar as the FFA had no effect on microsomal calcium efflux, their inhibitory action primarily involves calcium influx. Finally, other cationic channels have been found in hepatic ER, and evidence is presented of their interaction with the Ca2+ ATPase pump.
The role of EMT-related lncRNA in the process of triple-negative breast cancer metastasis
Authors: Zhang Haomeng , Wang Jiao , Yin Yulong , Meng Qingjie , Lyu Yonggang 
Published: January 2021

AbstractTriple-negative breast cancer (TNBC) is the most malignant and fatal subtype of breast cancer, which has characterized by negativity expression of ER, PR, and HER2. Metastasis is the main factor affecting the prognosis of TNBC, and the process of metastasis is related to abnormal activation of epithelial–mesenchymal transition (EMT). Recent studies have shown that long non-coding RNA (LncRNA) plays an important role in regulating the metastasis and invasion of TNBC. Therefore, based on the metastasis-related EMT signaling pathway, great efforts have confirmed that LncRNA is involved in the molecular mechanism of TNBC metastasis, which will provide new strategies to improve the treatment and prognosis of TNBC. In this review, we summarized many signal pathways related to EMT involved in the transfer process. The advances from the most recent studies of lncRNAs in the EMT-related signal pathways of TNBC metastasis. We also discussed the clinical research, application, and challenges of LncRNA in TNBC.
RLC score (R status, lymphovascular invasion, C-reactive protein) predicts survival following radical cystectomy for muscle-invasive bladder cancer
Authors: Struck Julian Peter , Hupe Marie Christine , Heinisch Annika , Ozimek Tomasz , Hennig Martin Johannes Peter , Klee Melanie , von Klot Christoph , Kalogirou Charis , Kuczyk Markus A. , Merseburger Axel S. , Kramer Mario W. 
Published: January 2021

Abstract
Background CRP-based scoring systems were found to correlate with survival in patients with urooncologic diseases. Our retrospective single-centre study aimed to confirm CRP as a prognostic parameter in patients with bladder cancer (BCa) undergoing radical cystectomy (RC) and, based on the findings, to develop our own outcome score for muscle-invasive bladder cancer (MIBC) patients undergoing RC in order to identify patients with a high risk of mortality.
Material and methods A total of 254 patients who underwent RC at Hanover Medical School between 1996 and 2007 were reviewed with a follow-up until autumn 2013. The clinicopathologic parameters assessed included age, co-morbidities, pre-/postoperative serum levels of CRP, leukocytes, haemoglobin, creatinine, urinary diversion, tumour grading, staging, lymph node status, lymph node density (LND), lymphovascular invasion (LVI), metastases, and resection margin status. The Chi-square test was used for univariate analyses. Kaplan-Meier estimates and the log-rank test were used for survival analyses. Regarding outcome, overall survival (OS) was assessed.
Results The multivariate analysis excluding lymph node (LN)-positive and metastatic patients at time of RC showed a significant association of R status (R; p < 0.001), LVI (L; p = 0.021) and preoperative CRP level > 5 mg/l (C; p = 0.008) with OS. Based on these parameters, the RLC score was developed. The median OS in the intermediate, high-risk and very high-risk groups according to the RLC score was 62, 22, and 6.5 months, respectively. The score had a high predictive accuracy of 0.752.
Conclusion The RLC score identifies BCa patients at a higher risk of overall mortality after RC. Overall, our study supports the role of CRP in prognostic score models for BCa.
Wearables, Physical Activity, and Exercise Testing in Liver Disease
Authors: Dunn Michael A. , Kappus Matthew R. , Bloomer Pamela M. , Duarte-Rojo Andres , Josbeno Deborah A. , Jakicic John M. 
Published: January 2021

AbstractPhysical inactivity is a major cause of deterioration in all forms of advanced liver disease. It is especially important as a driver of the components of the metabolic syndrome, with nonalcoholic fatty liver disease rapidly becoming the dominant cause of liver-related death worldwide. Growing realization of the health benefits of moderate-to-vigorous physical activity has captured the interest of persons who desire to improve their health, including those at risk for chronic liver injury. They are increasingly adopting wearable activity trackers to measure the activity that they seek to improve. Improved physical activity is the key lifestyle behavior that can improve cardiorespiratory fitness, which is most accurately measured with cardiopulmonary exercise testing (CPET). CPET is showing promise to identify risk and predict outcomes in transplant hepatology. Team effort among engaged patients, social support networks, and clinicians supported by web-based connectivity is needed to fully exploit the benefits of physical activity tracking.
Leveraging Real-World Data for the Selection of Relevant Eligibility Criteria for the Implementation of Electronic Recruitment Support in Clinical Trials
Authors: Melzer Georg , Maiwald Tim , Prokosch Hans-Ulrich , Ganslandt Thomas 
Published: January 2021

Abstract
Background Even though clinical trials are indispensable for medical research, they are frequently impaired by delayed or incomplete patient recruitment, resulting in cost overruns or aborted studies. Study protocols based on real-world data with precisely expressed eligibility criteria and realistic cohort estimations are crucial for successful study execution. The increasing availability of routine clinical data in electronic health records (EHRs) provides the opportunity to also support patient recruitment during the prescreening phase. While solutions for electronic recruitment support have been published, to our knowledge, no method for the prioritization of eligibility criteria in this context has been explored.
Methods In the context of the Electronic Health Records for Clinical Research (EHR4CR) project, we examined the eligibility criteria of the KATHERINE trial. Criteria were extracted from the study protocol, deduplicated, and decomposed. A paper chart review and data warehouse query were executed to retrieve clinical data for the resulting set of simplified criteria separately from both sources. Criteria were scored according to disease specificity, data availability, and discriminatory power based on their content and the clinical dataset.
Results The study protocol contained 35 eligibility criteria, which after simplification yielded 70 atomic criteria. For a cohort of 106 patients with breast cancer and neoadjuvant treatment, 47.9% of data elements were captured through paper chart review, with the data warehouse query yielding 26.9% of data elements. Score application resulted in a prioritized subset of 17 criteria, which yielded a sensitivity of 1.00 and specificity 0.57 on EHR data (paper charts, 1.00 and 0.80) compared with actual recruitment in the trial.
Conclusion It is possible to prioritize clinical trial eligibility criteria based on real-world data to optimize prescreening of patients on a selected subset of relevant and available criteria and reduce implementation efforts for recruitment support. The performance could be further improved by increasing EHR data coverage.
Engaging contested community issues
Authors: Dollar Natalie J. 
Published: January 2021

Abstract
This article presents an analysis of dialogue as an alternative to debate and argument for engaging contested community
issues. Treating dialogue as a communication practice, I draw on ethnography of communication, cultural communication theory, and cultural
discourse analysis to describe and interpret how participants practiced community dialogue as a communication event comprised of sequences
of listening and verbally responding. When topics and identities were elaborated upon and socially negotiated through personal communication
in the form of narratives and emotional responses, participants reported effective dialogue. These sequences were dialogic moments partially
due to the dialectical tension between Americans’ once predictable civic routine of public expression of individual’s beliefs and the
process of dialogue featured in our War and Peace dialogue workshop.
Observation of two-dimensional superconductivity in an ultrathin iron–arsenic superconductor
Authors: Zhang Chi , Hu Tao , Wang Teng , Wu Yufeng , Yu Aobo , Chu Jianan , Zhang Han , Zhang Xuefu , Xiao Hong , Peng Wei , Di Zengfeng , Qiao Shan , Mu Gang 
Published: January 2021

Abstract
Two-dimensional (2D) superconductors supply important platforms for exploring new quantum physics and high-T

c
superconductivity. The intrinsic superconducting properties in the 2D iron–arsenic superconductors are still unknown owing to the difficulties in the preparation of ultrathin samples. Here we report the fabrication and physical investigations of the high quality single-crystalline ultrathin films of the iron–arsenic superconductor KCa2Fe4As4F2. For the sample with the thickness of 2.6–5 nm (1–2 unit cells), a sharp superconducting transition at around 30 K (onset point) is observed. Compare with the bulk material, the ultrathin sample reveals a relatively lower T

c
, wider transition width, higher anisotropy, broader flux liquid region under the in-plane field, and smaller thermal activated energy with a 2D feature. Moreover, the angle dependent upper critical field follows the Tinkham model, demonstrating the two-dimensional superconductivity in ultrathin KCa2Fe4As4F2. The significant dimensionality effect observed here is markedly different from those observed in cuprate superconductors.
Hot deformation behaviours and spheroidization mechanisms of Ti-5322 alloy during hot compression
Authors: Wang Andong , Mao Yongquan , Chen Caifeng , Zhang Luxiang , Ni Lei 
Published: January 2021

Abstract
The hot deformation behavior of Ti-5322 alloy are researched at compression temperatures range of 750–1050 °C and strain rate range of 0.01–10 s−1, to optimize its hot workability. Processing map analysis and microstructure observations reveal that the optimal processing parameters of Ti-5322 alloy are temperatures of 750–825 °C and strain rates of 0.01–0.05 s−1, and temperatures of 925–975 °C and strain rates of 0.01–1 s−1. The peak efficiency of power dissipation can reach 40% owing to the transformation from α phase to β phase, spheroidization behavior and dynamic recrystallization of the β phase. The dynamic recrystallization was the primary form of microstructure evolution above 900 °C, while the spheroidization of α phase below 900 °C. The spheroidization of α lamellae can be attributed to the instability of subgrain boundaries appeared in the α phase during hot deformation. The β phase wadges into the α/α subgrain boundary and α/β interface migration induced the α phase spheroidization. In addition, three instability domains are detected in the processing maps, which confirmed by the presence of microstructures with wedge cracking and adiabatic shear bands.
Outcomes after non-operative management of perforated diverticular disease: a population-based cohort study
Authors: Adiamah A , Ban L , Otete H , Crooks C J , West J , Humes D J 
Published: January 2021

Abstract

Background
The management of perforated diverticular disease has changed in the past 10 years with a move towards less surgical intervention. This population-based cohort study aimed to define the risk of death and readmission following non-operative management of perforated diverticular disease.

Methods
Patients diagnosed with perforated diverticular disease and managed without surgery were identified from the linked Clinical Practice Research Datalink and Hospital Episode Statistics data from 2000 to 2013. The outcomes were 1-year case fatality, readmissions, and surgery at readmission.

Results
In total, 880 patients with perforated diverticular disease were managed without surgery, comprising 523 women (59.4 per cent). The 1-year case fatality rate was 33.2 per cent (293 of 880). The majority of deaths occurred in the first 90 days after the index admission, with a 90-day case fatality rate of 28.8 per cent. The 90-day survival rate varied by age, and was 97.2 per cent among those aged less than 65 years, compared with 85.0 per cent for those aged between 65 and 74 years, and 47.7 per cent in those at least 75 years old. Of 767 patients discharged from hospital, 250 (32.6 per cent) were readmitted (47 elective, 6.1 per cent; 203 emergency, 26.5 per cent) during a median of 1.6 (i.q.r. 0.1–3.9) years of follow-up, with similar proportions in each age category. In the first year of follow-up, only 5.1 per cent of patients required surgery, of whom 16 of 767 (2.1 per cent) required elective and 23 (3.0 per cent) emergency operation.

Conclusion
Non-operative management of perforated diverticulitis in those aged less than 65 years is feasible and safe. Reintervention rates following conservative management were low across all age categories.