300 Works

Additional file 1 of Systematic review: preoperative psychological factors and total hip arthroplasty outcomes

John P. O’Connor, Paige Holden & Joel J. Gagnier
Additional file 1. PRISMA Checklist

Systematic review: preoperative psychological factors and total hip arthroplasty outcomes

John P. O’Connor, Paige Holden & Joel J. Gagnier
Abstract Background Total hip arthroplasties (THA) are cost-effective interventions for patients with osteoarthritis refractory to physical therapy or medical management. Most individuals report positive surgical outcomes with reduction in pain and improved joint function. Multiple recent studies demonstrated the influence of patient mental health on surgical success. We sought to determine the relationship between patient preoperative psychological factors and postoperative THA outcomes, specifically pain and function. Methods PubMed, EMBASE and Cochrane Reviews databases were queried...

Natural language processing for identification of hypertrophic cardiomyopathy patients from cardiac magnetic resonance reports

Nakeya Dewaswala, David Chen, Huzefa Bhopalwala, Vinod C. Kaggal, Sean P. Murphy, J. Martijn Bos, Jeffrey B. Geske, Bernard J. Gersh, Steve R. Ommen, Philip A. Araoz, Michael J. Ackerman & Adelaide M. Arruda-Olson
Abstract Background Cardiac magnetic resonance (CMR) imaging is important for diagnosis and risk stratification of hypertrophic cardiomyopathy (HCM) patients. However, collection of information from large numbers of CMR reports by manual review is time-consuming, error-prone and costly. Natural language processing (NLP) is an artificial intelligence method for automated extraction of information from narrative text including text in CMR reports in electronic health records (EHR). Our objective was to assess whether NLP can accurately extract diagnosis...

Additional file 1 of Bell’s palsy misdiagnosis: characteristics of occult tumors causing facial paralysis

Eun-Jae Chung, Damir Matic, Kevin Fung, S. Danielle MacNeil, Anthony C. Nichols, Ruba Kiwan, KengYeow Tay & John Yoo
Additional file 1. Table S1. Modified House-Brackmann grading sale system.

Additional file 3 of LARRPM restricts lung adenocarcinoma progression and M2 macrophage polarization through epigenetically regulating LINC00240 and CSF1

Yue Li, Chen Chen, Hai-lin Liu, Zhen-fa Zhang & Chang-li Wang
Additional file 3: Figure S2. The correlation between LARRPM expression, 5hmC level at LINC00240 promoter, CpG43 methylation level and LINC00240 expression in LUAD tissues. A Correlation between LINC00240 and LARRPM expression analysed using the TCGA LUAD data. r = 0.6164, P < 0.0001 by Spearman correlation analysis. B Correlation between LINC00240 and LARRPM expression analyzed in our LUAD cohort. r = 0.5521, P < 0.0001 by Spearman correlation analysis. C 5hmC levels of CpG43 from...

Additional file 5 of LARRPM restricts lung adenocarcinoma progression and M2 macrophage polarization through epigenetically regulating LINC00240 and CSF1

Yue Li, Chen Chen, Hai-lin Liu, Zhen-fa Zhang & Chang-li Wang
Additional file 5: Figure S4. The correlation between LARRPM expression, 5hmC level at CSF1 promoter, CpG82 methylation level and CSF1 expression in LUAD tissues. A Correlation between CSF1 and LARRPM expression analysed using the TCGA LUAD data. r = − 0.3069, P < 0.0001 by Spearman correlation analysis. B Correlation between CSF1 and LARRPM expression analysed in our LUAD cohort. r = − 0.5774, P < 0.0001 by Spearman correlation analysis. C 5hmC levels of...

Additional file 2 of Total Sedentary Time and Cognitive Function in Middle-Aged and Older Adults: A Systematic Review and Meta-analysis

Kirsten Dillon, Anisa Morava, Harry Prapavessis, Lily Grigsby-Duffy, Adam Novic & Paul A. Gardiner
Additional file 2: The definition and acceptable cognitive tests for eachdomain.

Plain language summary for the manuscript: Infections in patients with rheumatoid arthritis receiving tofacitinib versus tumour necrosis factor inhibitors: results from the open-label, randomised controlled ORAL Surveillance trial

Andra R Balanescu, Gustavo Citera, Virginia Pascual-Ramos, Deepak L Bhatt, Carol A Connell, David Gold, All-Shine Chen, Gosford Sawyerr, Andrea B Shapiro, Janet Pope & Hendrik Schulze-Koops
This is a plain language summary (PLS) of an article published in a peer-reviewed scientific journal. This PLS is not peer-reviewed. The publisher of the original manuscript was not involved in the preparation of this PLS and has neither reviewed nor approved its content.

Evidence on the social, economic, and environmental impact of interventions that facilitate bamboo industry development for sustainable livelihoods: a systematic map protocol

Lucy Binfield, Tamara L. Britton, Chunping Dai & John Innes
Abstract Background Bamboo has been identified as a potential instrument for socioeconomic development due to its fast growth, perceived environmental benefits, promising material properties, myriad applications, and relative underdevelopment as a global industrial product. Many projects and interventions have been carried out that aim to utilize bamboo’s social and environmental potential in development. However, critical evaluations that demonstrate this effect using real-world evidence and outcomes are rare, and existing case studies have not been collated...

Additional file 9 of Identification of SSBP1 as a ferroptosis-related biomarker of glioblastoma based on a novel mitochondria-related gene risk model and in vitro experiments

Jun Su, Yue Li, Qing Liu, Gang Peng, Chaoying Qin & Yang Li
Additional file 9: Table S4. The 21 prognositc DE-MRGs based on the TCGA GBM cohort.

Additional file 6 of Identification of SSBP1 as a ferroptosis-related biomarker of glioblastoma based on a novel mitochondria-related gene risk model and in vitro experiments

Jun Su, Yue Li, Qing Liu, Gang Peng, Chaoying Qin & Yang Li
Additional file 6: Table S1. The mitochondria-related genes extracted from the uniprot database.

Additional file 10 of Identification of SSBP1 as a ferroptosis-related biomarker of glioblastoma based on a novel mitochondria-related gene risk model and in vitro experiments

Jun Su, Yue Li, Qing Liu, Gang Peng, Chaoying Qin & Yang Li
Additional file 10: Table S5. GO enrichment analysis by using DAVID.

Additional file 2 of Identification of SSBP1 as a ferroptosis-related biomarker of glioblastoma based on a novel mitochondria-related gene risk model and in vitro experiments

Jun Su, Yue Li, Qing Liu, Gang Peng, Chaoying Qin & Yang Li
Additional file 2: Fig. S2. The predictivity of 12 DE-MRGs model for other cancers. A The univariate cox analysis showed that the risk score, based on our 12 DE-MRGs, significantly associated with other 12 types of TCGA cancers. B Kaplan–Meier curves for OS in the other 12 types of TCGA cancers. The patients were divided in to high- and low-risk groups based on the median value of risk score.

Additional file 5 of Identification of SSBP1 as a ferroptosis-related biomarker of glioblastoma based on a novel mitochondria-related gene risk model and in vitro experiments

Jun Su, Yue Li, Qing Liu, Gang Peng, Chaoying Qin & Yang Li
Additional file 5: Fig. S5. Validation of the association between risk score and immune cell infiltration. A Scatter plot showed the positive correlation between the risk score and ImmuneScore (Spearman’s rank correlation coefficient) in the GSE16011 GBM cohort. B Scatter plot showed the positive correlation between the risk score and StromalScore (Spearman’s rank correlation coefficient) in the GSE16011 GBM cohort. C Scatter plot showed the positive correlation between the risk score and ESTAMEScore (Spearman’s rank...

Additional file 1 of A high-quality Buxus austro-yunnanensis (Buxales) genome provides new insights into karyotype evolution in early eudicots

Zhenyue Wang, Ying Li, Pengchuan Sun, Mingjia Zhu, Dandan Wang, Zhiqiang Lu, Hongyin Hu, Renping Xu, Jin Zhang, Jianxiang Ma, Jianquan Liu & Yongzhi Yang
Additional file 1: Fig. S1. The previously reported topologies within eudicots. Fig. S2. 19-Kmer-based analysis to estimate the genome size of Buxus austro-yunnanensis. Fig. S3. Interaction frequency distribution of Hi-C links among chromosomes. Fig. S4. GC contents of five early-diverging eudicot species. Fig. S5. BUSCO results for six eudicots. Fig. S6. LTR insertion time of Buxus austro-yunnanensis. Fig. S7. Gene structures of Aquilegia, Buxus, Nelumbo, Trochodendron and Tetracentron. Fig. S8. The phylogenetic trees of the...

Additional file 1 of Comparison of international guidelines for diagnosis of hepatocellular carcinoma and implications for transplant allocation in liver transplantation candidates with gadoxetic acid enhanced liver MRI versus contrast enhanced CT: a prospective study with liver explant histopathological correlation

Devang Odedra, Ali Babaei Jandaghi, Rajesh Bhayana, Khaled Y. Elbanna, Osvaldo Espin-Garcia, Sandra E. Fischer, Anand Ghanekar, Gonzalo Sapisochin & Kartik S. Jhaveri
Additional file 1: Supplementary Table 1. CECT quadriphasic liver protocol (Aquilion 64). Supplementary Table 2. Protocol for gadoxetic acid-enhanced liver MRI (Gd-EOB-MRI). Supplementary Table 3. LI-RADS v2018 – Major and Ancillary Features with EOB-MRI. Supplementary Table 4. Differences between sensitivities for scoring guidelines for EOB-MRI for lesions > 1 cm (numbers represent p values, all lesions seen on histopathology/ imaging-visible lesions only). SupplementaryTable 5. Differences between sensitivities for scoring guidelines systems forEOB-MRI for lesions of...

Additional file 1 of A high-quality Buxus austro-yunnanensis (Buxales) genome provides new insights into karyotype evolution in early eudicots

Zhenyue Wang, Ying Li, Pengchuan Sun, Mingjia Zhu, Dandan Wang, Zhiqiang Lu, Hongyin Hu, Renping Xu, Jin Zhang, Jianxiang Ma, Jianquan Liu & Yongzhi Yang
Additional file 1: Fig. S1. The previously reported topologies within eudicots. Fig. S2. 19-Kmer-based analysis to estimate the genome size of Buxus austro-yunnanensis. Fig. S3. Interaction frequency distribution of Hi-C links among chromosomes. Fig. S4. GC contents of five early-diverging eudicot species. Fig. S5. BUSCO results for six eudicots. Fig. S6. LTR insertion time of Buxus austro-yunnanensis. Fig. S7. Gene structures of Aquilegia, Buxus, Nelumbo, Trochodendron and Tetracentron. Fig. S8. The phylogenetic trees of the...

Additional file 1 of Engineering Yarrowia lipolytica for the sustainable production of β-farnesene from waste oil feedstock

Yinghang Liu, Jin Zhang, Qingbin Li, Zhaoxuan Wang, Zhiyong Cui, Tianyuan Su, Xuemei Lu, Qingsheng Qi & Jin Hou
Additional file 1: Figure S1. Screening β-farnesene synthase from different plants. A The evolutionary tree of β-farnesene synthase from different plants. B β-Farnesene production and biomass of strains containing different β-farnesene synthase. Data represent the mean ± SD of biological triplicate. Figure S2. The SDS-PAGE electrophoresis analysis of purified protein AanFSK197T/F180H and AanFS. Figure S3. The copy number and relative expression of AanFSK197T/F180H in Q6 and Q7 strains. Data represent the mean ± SD of...

Additional file 1 of Engineering Yarrowia lipolytica for the sustainable production of β-farnesene from waste oil feedstock

Yinghang Liu, Jin Zhang, Qingbin Li, Zhaoxuan Wang, Zhiyong Cui, Tianyuan Su, Xuemei Lu, Qingsheng Qi & Jin Hou
Additional file 1: Figure S1. Screening β-farnesene synthase from different plants. A The evolutionary tree of β-farnesene synthase from different plants. B β-Farnesene production and biomass of strains containing different β-farnesene synthase. Data represent the mean ± SD of biological triplicate. Figure S2. The SDS-PAGE electrophoresis analysis of purified protein AanFSK197T/F180H and AanFS. Figure S3. The copy number and relative expression of AanFSK197T/F180H in Q6 and Q7 strains. Data represent the mean ± SD of...

Additional file 1 of Attention to visual motion suppresses neuronal and behavioral sensitivity in nearby feature space

Sang-Ah Yoo, Julio C. Martinez-Trujillo, Stefan Treue, John K. Tsotsos & Mazyar Fallah
Additional file 1: Table S1. Distribution of all neurons’ minimum responses. Figure S1. Histogram of Table S1. Table S2. Distribution of minimum responses of the neurons where the sum of two Gaussians model fits better. Figure S2. Histogram of Table S2. Table S3. Distribution of minimum responses of the neurons with the center-surround profile. Figure S3. Histogram of Table S3.

Attention to visual motion suppresses neuronal and behavioral sensitivity in nearby feature space

Sang-Ah Yoo, Julio C. Martinez-Trujillo, Stefan Treue, John K. Tsotsos & Mazyar Fallah
Abstract Background Feature-based attention prioritizes the processing of the attended feature while strongly suppressing the processing of nearby ones. This creates a non-linearity or “attentional suppressive surround” predicted by the Selective Tuning model of visual attention. However, previously reported effects of feature-based attention on neuronal responses are linear, e.g., feature-similarity gain. Here, we investigated this apparent contradiction by neurophysiological and psychophysical approaches. Results Responses of motion direction-selective neurons in area MT/MST of monkeys were recorded...

Machine learning algorithms to identify cluster randomized trials from MEDLINE and EMBASE

Ahmed A. Al-Jaishi, Monica Taljaard, Melissa D. Al-Jaishi, Sheikh S. Abdullah, Lehana Thabane, P. J. Devereaux, Stephanie N. Dixon & Amit X. Garg
Abstract Background Cluster randomized trials (CRTs) are becoming an increasingly important design. However, authors of CRTs do not always adhere to requirements to explicitly identify the design as cluster randomized in titles and abstracts, making retrieval from bibliographic databases difficult. Machine learning algorithms may improve their identification and retrieval. Therefore, we aimed to develop machine learning algorithms that accurately determine whether a bibliographic citation is a CRT report. Methods We trained, internally validated, and externally...

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