528 Works

Sustainable deimplementation of continuous pulse oximetry monitoring in children hospitalized with bronchiolitis: study protocol for the Eliminating Monitor Overuse (EMO) type III effectiveness-deimplementation cluster-randomized trial

Christopher P. Bonafide, Rui Xiao, Amanda C. Schondelmeyer, Amy R. Pettit, Patrick W. Brady, Christopher P. Landrigan, Courtney Benjamin Wolk, Zuleyha Cidav, Halley Ruppel, Naveen Muthu, Nathaniel J. Williams, Enrique Schisterman, Canita R. Brent, Kimberly Albanowski & Rinad S. Beidas
Abstract Background Methods of sustaining the deimplementation of overused medical practices (i.e., practices not supported by evidence) are understudied. In pediatric hospital medicine, continuous pulse oximetry monitoring of children with the common viral respiratory illness bronchiolitis is recommended only under specific circumstances. Three national guidelines discourage its use for children who are not receiving supplemental oxygen, but guideline-discordant practice (i.e., overuse) remains prevalent. A 6-hospital pilot of educational outreach with audit and feedback resulted in...

Additional file 12 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 12. Supplemental Table 3. Transcription Factor WGCNA Epidermal Modules.

Additional file 16 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 16. Supplemental Table 7. List of all Neural GO Terms and their over represented p value from GO Analysis on genes differentially expressed between epidermal and neural lineages corresponding with supplemental figure 4A.

Additional file 17 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 17. Supplemental Table 8. List of all genes differnetially expressed between epidermal and neural lineages and their Log2 Fold Change and pvalue corresponding with Fig. 3D, genes differentially expressed between endoderm and and mesoderm lineages and their Log2 Fold Change and pvalue corresponding with Fig. 6A, and genes differentially expressed between epidermis and and mesoderm lineages and their Log2 Fold Change and pvalue corresponding with Fig. 7A.

Additional file 18 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 18. Supplemental Table 9. List of all genes from the venn diagrams of genes temporally differentially expressed in endoderm and mesoderm lineages corresponding with Fig. 5B.

Additional file 18 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 18. Supplemental Table 9. List of all genes from the venn diagrams of genes temporally differentially expressed in endoderm and mesoderm lineages corresponding with Fig. 5B.

Additional file 2 of A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology

Yongqun He, Hong Yu, Anthony Huffman, Asiyah Yu Lin, Darren A. Natale, John Beverley, Ling Zheng, Yehoshua Perl, Zhigang Wang, Yingtong Liu, Edison Ong, Yang Wang, Philip Huang, Long Tran, Jinyang Du, Zalan Shah, Easheta Shah, Roshan Desai, Hsin-hui Huang, Yujia Tian, Eric Merrell, William D. Duncan, Sivaram Arabandi, Lynn M. Schriml, Jie Zheng … & Barry Smith
Additional file 2: Supplemental Table 1. Resources used for our coronavirus disease-related data collection.

Additional file 2 of A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology

Yongqun He, Hong Yu, Anthony Huffman, Asiyah Yu Lin, Darren A. Natale, John Beverley, Ling Zheng, Yehoshua Perl, Zhigang Wang, Yingtong Liu, Edison Ong, Yang Wang, Philip Huang, Long Tran, Jinyang Du, Zalan Shah, Easheta Shah, Roshan Desai, Hsin-hui Huang, Yujia Tian, Eric Merrell, William D. Duncan, Sivaram Arabandi, Lynn M. Schriml, Jie Zheng … & Barry Smith
Additional file 2: Supplemental Table 1. Resources used for our coronavirus disease-related data collection.

A comprehensive update on CIDO: the community-based coronavirus infectious disease ontology

Yongqun He, Hong Yu, Anthony Huffman, Asiyah Yu Lin, Darren A. Natale, John Beverley, Ling Zheng, Yehoshua Perl, Zhigang Wang, Yingtong Liu, Edison Ong, Yang Wang, Philip Huang, Long Tran, Jinyang Du, Zalan Shah, Easheta Shah, Roshan Desai, Hsin-hui Huang, Yujia Tian, Eric Merrell, William D. Duncan, Sivaram Arabandi, Lynn M. Schriml, Jie Zheng … & Barry Smith
Abstract Background The current COVID-19 pandemic and the previous SARS/MERS outbreaks of 2003 and 2012 have resulted in a series of major global public health crises. We argue that in the interest of developing effective and safe vaccines and drugs and to better understand coronaviruses and associated disease mechenisms it is necessary to integrate the large and exponentially growing body of heterogeneous coronavirus data. Ontologies play an important role in standard-based knowledge and data representation,...

Additional file 4 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 4: Supplemental Figure 4. Epidermal and Neural Lineages Diverge at St 10.5 (A) Number of enriched Neural GO Terms in genes significantly higher in the neural lineage (blue) and epidermal lineage (red) at each developmental stage. (B) Heatmap of the top 20 DE genes by Log2FC with a minimum expression of 10TPM between the epidermal and neural lineages at stage 10.5 (C) KEGG enrichment analysis of genes differentially expressed between epidermal and neural...

Additional file 6 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 6: Supplemental Figure 6. Mesendoderm Analysis. (A) Number of differentially expressed genes between the endoderm and ventral mesoderm lineages at each developmental stage (padj ≤ 0.05). (B) KEGG enrichment analysis of genes differentially expressed between ventral mesoderm and endoderm lineage at each developmental stage. Genes significantly increased in the endoderm lineage are enriched for TGF-beta genes, as defined by KEGG database from stages 10-10.5 and genes significantly higher in the ventral mesoderm lineage...

Additional file 9 of Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Additional file 9: Supplemental Figure 9. Raw Images of Supplemental Western Blots. (A) Supplemental Figure 5A Western blot analysis of lysates of developing mesoderm (20ng/uL BMP4/7) and endoderm (160ng/uL Activin) explants for pSmad2 and Smad2 with Actin loading control. Blot was cut prior to antibody hybridization to conserve antibody. Initial scan showing blot edges (top) and unedited high resolution scan of relevant size bands (bottom) both provided. (B) Supplemental Figure 7C Western Blot Analysis of...

Quantitative analysis of transcriptome dynamics provides novel insights into developmental state transitions

Kristin Johnson, Simon Freedman, Rosemary Braun & Carole LaBonne
Abstract Background During embryogenesis, the developmental potential of initially pluripotent cells becomes progressively restricted as they transit to lineage restricted states. The pluripotent cells of Xenopus blastula-stage embryos are an ideal system in which to study cell state transitions during developmental decision-making, as gene expression dynamics can be followed at high temporal resolution. Results Here we use transcriptomics to interrogate the process by which pluripotent cells transit to four different lineage-restricted states: neural progenitors, epidermis,...

Additional file 6 of Reversal of cancer gene expression identifies repurposed drugs for diffuse intrinsic pontine glioma

Guisheng Zhao, Patrick Newbury, Yukitomo Ishi, Eugene Chekalin, Billy Zeng, Benjamin S. Glicksberg, Anita Wen, Shreya Paithankar, Takahiro Sasaki, Amreena Suri, Javad Nazarian, Michael E. Pacold, Daniel J. Brat, Theodore Nicolaides, Bin Chen & Rintaro Hashizume
Additional file 6: Table S5. The list of altered genes with corresponding pathways.

Additional file 8 of Reversal of cancer gene expression identifies repurposed drugs for diffuse intrinsic pontine glioma

Guisheng Zhao, Patrick Newbury, Yukitomo Ishi, Eugene Chekalin, Billy Zeng, Benjamin S. Glicksberg, Anita Wen, Shreya Paithankar, Takahiro Sasaki, Amreena Suri, Javad Nazarian, Michael E. Pacold, Daniel J. Brat, Theodore Nicolaides, Bin Chen & Rintaro Hashizume
Additional file 8: Table S7. The list of differential expression genes upon drug treament in SU-DIPG-IV cells.

Radial Bias Alters Perceived Object Orientation

Melisa Menceloglu, Ken Nakayama & Joo-Hyun Song
Orientation sensitivity is a fundamental property of the visual system, but not all orientations are created equal. For instance, radially oriented stimuli, aligned with a line intersecting the center of gaze, produce greater activity throughout the visual cortex and are associated with greater perceptual sensitivity compared with other orientations. Here, we discuss a robust visual illusion that is likely related to this preference. Using a continuous response measure, participants (N = 36 adults) indicated the...

Radial Bias Alters Perceived Object Orientation

Melisa Menceloglu, Ken Nakayama & Joo-Hyun Song
Orientation sensitivity is a fundamental property of the visual system, but not all orientations are created equal. For instance, radially oriented stimuli, aligned with a line intersecting the center of gaze, produce greater activity throughout the visual cortex and are associated with greater perceptual sensitivity compared with other orientations. Here, we discuss a robust visual illusion that is likely related to this preference. Using a continuous response measure, participants (N = 36 adults) indicated the...

Additional file 1 of Diversification of phenolic glucosides by two UDP-glucosyltransferases featuring complementary regioselectivity

Fei Guo, Xingwang Zhang, Cai You, Chengjie Zhang, Fengwei Li, Nan Li, Yuwei Xia, Mingyu Liu, Zetian Qiu, Xianliang Zheng, Li Ma, Gang Zhang, Lianzhong Luo, Fei Cao, Yingang Feng, Guang-Rong Zhao, Wei Zhang, Shengying Li & Lei Du
Additional file 1. Supplementary tables and figures

Additional file 1 of Diversification of phenolic glucosides by two UDP-glucosyltransferases featuring complementary regioselectivity

Fei Guo, Xingwang Zhang, Cai You, Chengjie Zhang, Fengwei Li, Nan Li, Yuwei Xia, Mingyu Liu, Zetian Qiu, Xianliang Zheng, Li Ma, Gang Zhang, Lianzhong Luo, Fei Cao, Yingang Feng, Guang-Rong Zhao, Wei Zhang, Shengying Li & Lei Du
Additional file 1. Supplementary tables and figures

Thermal degradation and combustion properties of most popular synthetic biodegradable polymers

Hongmei Chen, Fengyi Chen, Hui Chen, Hongsheng Liu, Ling Chen & Long Yu
Various products made from biodegradable polymers have been increasing rapidly in the market since the use of non-biodegradable materials has been banned, particularly for the disabled packaging materials. Burning remains the most popular method that is increasingly used in treating city wastes. The impact of these polymers on environmental during thermal degradation and combustion is an important issue for city waste management. In this work, the thermal degradation and combustion behaviours of the most popular...

Plasma metabolomics provides new insights into the relationship between metabolites and outcomes and left ventricular remodeling of coronary artery disease

Qian Zhu, Min Qin, Zixian Wang, Yonglin Wu, Xiaoping Chen, Chen Liu, Qilin Ma, Yibin Liu, Weihua Lai, Hui Chen, Jingjing Cai, Yemao Liu, Fang Lei, Bin Zhang, Shuyao Zhang, Guodong He, Hanping Li, Mingliang Zhang, Hui Zheng, Jiyan Chen, Min Huang & Shilong Zhong
Abstract Background Coronary artery disease (CAD) is a metabolically perturbed pathological condition. However, the knowledge of metabolic signatures on outcomes of CAD and their potential causal effects and impacts on left ventricular remodeling remains limited. We aim to assess the contribution of plasma metabolites to the risk of death and major adverse cardiovascular events (MACE) as well as left ventricular remodeling. Results In a prospective study with 1606 Chinese patients with CAD, we have identified...

Additional file 1 of Plasma metabolomics provides new insights into the relationship between metabolites and outcomes and left ventricular remodeling of coronary artery disease

Qian Zhu, Min Qin, Zixian Wang, Yonglin Wu, Xiaoping Chen, Chen Liu, Qilin Ma, Yibin Liu, Weihua Lai, Hui Chen, Jingjing Cai, Yemao Liu, Fang Lei, Bin Zhang, Shuyao Zhang, Guodong He, Hanping Li, Mingliang Zhang, Hui Zheng, Jiyan Chen, Min Huang & Shilong Zhong
Additional file 1: Table S1. Baseline characteristics on death and MACE risks. Table S2. Baseline characteristics on LVEF and LVMI. Table S3. Relationship between metabolites and death risk. Table S4. Relationship between metabolites and MACE risk. Table S5. Multivariate Cox proportional hazards model for clinical outcomes. Table S6. Spearman correlation analysis between clinical factors and those metabolites associated with death risk. Table S7. Spearman correlation analysis between clinical factors and those metabolites associated with death...

sj-docx-1-acr-10.1177_02841851211061438 - Supplemental material for Patient exposure dose in interventional cardiology per clinical and technical complexity levels. Part 1: results of the VERIDIC project

Joelle Ann Feghali, Julie Delépierre, Olivera Ciraj Belac, Jérémie Dabin, Marine Deleu, Francesca De Monte, Milan Dobric, Aoife Gallagher, Lama Hadid-Beurrier, Patrick Henry, Hrvoje Hršak, Tom Kiernan, Rajesh Kumar, Željka Knežević, Carlo Maccia, Marija Majer, Françoise Malchair, Stéphane Noble, Davor Obrad, Marta Sans Merce, Georgios Sideris, George Simantirakis, Christian Spaulding, Giuseppe Tarantini & Claire Van Ngoc Ty
Supplemental material, sj-docx-1-acr-10.1177_02841851211061438 for Patient exposure dose in interventional cardiology per clinical and technical complexity levels. Part 1: results of the VERIDIC project by Joelle Ann Feghali, Julie Delépierre, Olivera Ciraj Belac, Jérémie Dabin, Marine Deleu, Francesca De Monte, Milan Dobric, Aoife Gallagher, Lama Hadid-Beurrier, Patrick Henry, Hrvoje Hršak, Tom Kiernan, Rajesh Kumar, Željka Knežević, Carlo Maccia, Marija Majer, Françoise Malchair, Stéphane Noble, Davor Obrad, Marta Sans Merce, Georgios Sideris, George Simantirakis, Christian Spaulding, Giuseppe...

Patient exposure dose in interventional cardiology per clinical and technical complexity levels. Part 1: results of the VERIDIC project

Joelle Ann Feghali, Julie Delépierre, Olivera Ciraj Belac, Jérémie Dabin, Marine Deleu, Francesca De Monte, Milan Dobric, Aoife Gallagher, Lama Hadid-Beurrier, Patrick Henry, Hrvoje Hršak, Tom Kiernan, Rajesh Kumar, Željka Knežević, Carlo Maccia, Marija Majer, Françoise Malchair, Stéphane Noble, Davor Obrad, Marta Sans Merce, Georgios Sideris, George Simantirakis, Christian Spaulding, Giuseppe Tarantini & Claire Van Ngoc Ty
BackgroundPatients can be exposed to high skin doses during complex interventional cardiology (IC) procedures.PurposeTo identify which clinical and technical parameters affect patient exposure and peak skin dose (PSD) and to establish dose reference levels (DRL) per clinical complexity level in IC procedures.Material and MethodsValidation and Estimation of Radiation skin Dose in Interventional Cardiology (VERIDIC) project analyzed prospectively collected patient data from eight European countries and 12 hospitals where percutaneous coronary intervention (PCI), chronic total occlusion...

A. caviae infection triggers IL-1β secretion through activating NLRP3 inflammasome mediated by NF-κB signaling pathway partly in a TLR2 dependent manner

Qiankun Yang, Jianguo Zhang, Feixue Liu, Huizhen Chen, Wei Zhang, Haitao Yang, Nana He, Jingquan Dong & Panpan Zhao
Aeromonas caviae, an important food-borne pathogen, induces serious invasive infections and inflammation. The pro-inflammatory IL-1β functions against pathogenic infections and is elevated in various Aeromonas infection cases. However, the molecular mechanism of A. caviae-mediated IL-1β secretion remains unknown. In this study, mouse macrophages (PMs) were used to establish A. caviae infection model and multiple strategies were utilized to explore the mechanism of IL-1β secretion. IL-1β was elevated in A. caviae infected murine serum, PMs lysates...

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